data_9D5L # _entry.id 9D5L # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.405 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 9D5L pdb_00009d5l 10.2210/pdb9d5l/pdb WWPDB D_1000287345 ? ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2025-09-03 _pdbx_audit_revision_history.part_number ? # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9D5L _pdbx_database_status.recvd_initial_deposition_date 2024-08-13 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_contact_author.id 3 _pdbx_contact_author.email alba.guarne@mcgill.ca _pdbx_contact_author.name_first Alba _pdbx_contact_author.name_last Guarne _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4906-9132 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Krishnan, S.S.' 1 0000-0002-3884-0182 'Guarne, A.' 2 0000-0003-4906-9132 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 53 _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Asymmetric loading of TnsE regulates Tn7 targeting of DNA replication structures.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkaf472 _citation.pdbx_database_id_PubMed 40498074 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Krishnan, S.S.' 1 ? primary 'Shen, Y.' 2 ? primary ;O'Hagan, T.B. ; 3 ? primary 'Matthews, L.A.' 4 ? primary 'Weerasinghe, N.W.' 5 ? primary 'Ghirlando, R.' 6 ? primary 'Thibodeaux, C.J.' 7 ? primary 'Guarne, A.' 8 0000-0003-4906-9132 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'TnsE, Tn7 transposition protein' 19230.975 1 ? ? ? ? 2 polymer syn DNA 3659.440 1 ? ? ? ;The DNA used in the crystallization condition was a 3'-recessed DNA substrate formed by annealing a 48-nt (5'-GCAAGGCCGGAAACGTCACCAATGCAACGATCAGCCAACTAAACTAGG-3') and a 24-nt (5'-CCTAGTTTAGTTGGCTGATCGTTG-3') resulting in a 24 bp double-strand and 24 nt single-strand portion. The asymmetric unit contains one molecule of TaTnsE-CTD and a DNA strand (12 nt) that forms a DNA duplex by crystal symmetry and propagates as a pseudo-continuous duplex. This arrangement resulted in the asymmetric unit representing an average of the protein binding along the entire duplex, precluding the assignment of the DNA register and washing out the signal for the 5' single-strand DNA tail. We have modelled a string of T/A basepairs to reflect the lack of registry. ; 3 non-polymer syn 'PHOSPHATE ION' 94.971 1 ? ? ? ? 4 water nat water 18.015 19 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;DATNYNHVFASRFAAFNELLSILKTKFRCRVIFEETLVLPKVGRSRLHLCKDGSPRVIKAVGVWRNASEFILLEVDASDG VKMLSTKVLIGVNRETWQSDFERIRRGIVRNSLNWPNGLLYQLYGKEGNRGVNHPKGLSELEVSREDMEGWGERLIRELE HHHHHH ; ;DATNYNHVFASRFAAFNELLSILKTKFRCRVIFEETLVLPKVGRSRLHLCKDGSPRVIKAVGVWRNASEFILLEVDASDG VKMLSTKVLIGVNRETWQSDFERIRRGIVRNSLNWPNGLLYQLYGKEGNRGVNHPKGLSELEVSREDMEGWGERLIRELE HHHHHH ; A ? 2 polydeoxyribonucleotide no no '(DT)(DA)(DA)(DA)(DT)(DT)(DT)(DA)(DA)(DA)(DT)(DT)' TAAATTTAAATT C ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'PHOSPHATE ION' PO4 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ASP n 1 2 ALA n 1 3 THR n 1 4 ASN n 1 5 TYR n 1 6 ASN n 1 7 HIS n 1 8 VAL n 1 9 PHE n 1 10 ALA n 1 11 SER n 1 12 ARG n 1 13 PHE n 1 14 ALA n 1 15 ALA n 1 16 PHE n 1 17 ASN n 1 18 GLU n 1 19 LEU n 1 20 LEU n 1 21 SER n 1 22 ILE n 1 23 LEU n 1 24 LYS n 1 25 THR n 1 26 LYS n 1 27 PHE n 1 28 ARG n 1 29 CYS n 1 30 ARG n 1 31 VAL n 1 32 ILE n 1 33 PHE n 1 34 GLU n 1 35 GLU n 1 36 THR n 1 37 LEU n 1 38 VAL n 1 39 LEU n 1 40 PRO n 1 41 LYS n 1 42 VAL n 1 43 GLY n 1 44 ARG n 1 45 SER n 1 46 ARG n 1 47 LEU n 1 48 HIS n 1 49 LEU n 1 50 CYS n 1 51 LYS n 1 52 ASP n 1 53 GLY n 1 54 SER n 1 55 PRO n 1 56 ARG n 1 57 VAL n 1 58 ILE n 1 59 LYS n 1 60 ALA n 1 61 VAL n 1 62 GLY n 1 63 VAL n 1 64 TRP n 1 65 ARG n 1 66 ASN n 1 67 ALA n 1 68 SER n 1 69 GLU n 1 70 PHE n 1 71 ILE n 1 72 LEU n 1 73 LEU n 1 74 GLU n 1 75 VAL n 1 76 ASP n 1 77 ALA n 1 78 SER n 1 79 ASP n 1 80 GLY n 1 81 VAL n 1 82 LYS n 1 83 MET n 1 84 LEU n 1 85 SER n 1 86 THR n 1 87 LYS n 1 88 VAL n 1 89 LEU n 1 90 ILE n 1 91 GLY n 1 92 VAL n 1 93 ASN n 1 94 ARG n 1 95 GLU n 1 96 THR n 1 97 TRP n 1 98 GLN n 1 99 SER n 1 100 ASP n 1 101 PHE n 1 102 GLU n 1 103 ARG n 1 104 ILE n 1 105 ARG n 1 106 ARG n 1 107 GLY n 1 108 ILE n 1 109 VAL n 1 110 ARG n 1 111 ASN n 1 112 SER n 1 113 LEU n 1 114 ASN n 1 115 TRP n 1 116 PRO n 1 117 ASN n 1 118 GLY n 1 119 LEU n 1 120 LEU n 1 121 TYR n 1 122 GLN n 1 123 LEU n 1 124 TYR n 1 125 GLY n 1 126 LYS n 1 127 GLU n 1 128 GLY n 1 129 ASN n 1 130 ARG n 1 131 GLY n 1 132 VAL n 1 133 ASN n 1 134 HIS n 1 135 PRO n 1 136 LYS n 1 137 GLY n 1 138 LEU n 1 139 SER n 1 140 GLU n 1 141 LEU n 1 142 GLU n 1 143 VAL n 1 144 SER n 1 145 ARG n 1 146 GLU n 1 147 ASP n 1 148 MET n 1 149 GLU n 1 150 GLY n 1 151 TRP n 1 152 GLY n 1 153 GLU n 1 154 ARG n 1 155 LEU n 1 156 ILE n 1 157 ARG n 1 158 GLU n 1 159 LEU n 1 160 GLU n 1 161 HIS n 1 162 HIS n 1 163 HIS n 1 164 HIS n 1 165 HIS n 1 166 HIS n 2 1 DT n 2 2 DA n 2 3 DA n 2 4 DA n 2 5 DT n 2 6 DT n 2 7 DT n 2 8 DA n 2 9 DA n 2 10 DA n 2 11 DT n 2 12 DT n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 166 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene ? _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Thiopseudomonas alkaliphila' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 1697053 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _pdbx_entity_src_syn.entity_id 2 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 12 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 ASP 1 377 ? ? ? A . n A 1 2 ALA 2 378 ? ? ? A . n A 1 3 THR 3 379 ? ? ? A . n A 1 4 ASN 4 380 ? ? ? A . n A 1 5 TYR 5 381 381 TYR TYR A . n A 1 6 ASN 6 382 382 ASN ASN A . n A 1 7 HIS 7 383 383 HIS HIS A . n A 1 8 VAL 8 384 384 VAL VAL A . n A 1 9 PHE 9 385 385 PHE PHE A . n A 1 10 ALA 10 386 386 ALA ALA A . n A 1 11 SER 11 387 387 SER SER A . n A 1 12 ARG 12 388 388 ARG ARG A . n A 1 13 PHE 13 389 389 PHE PHE A . n A 1 14 ALA 14 390 390 ALA ALA A . n A 1 15 ALA 15 391 391 ALA ALA A . n A 1 16 PHE 16 392 392 PHE PHE A . n A 1 17 ASN 17 393 393 ASN ASN A . n A 1 18 GLU 18 394 394 GLU GLU A . n A 1 19 LEU 19 395 395 LEU LEU A . n A 1 20 LEU 20 396 396 LEU LEU A . n A 1 21 SER 21 397 397 SER SER A . n A 1 22 ILE 22 398 398 ILE ILE A . n A 1 23 LEU 23 399 399 LEU LEU A . n A 1 24 LYS 24 400 400 LYS LYS A . n A 1 25 THR 25 401 401 THR THR A . n A 1 26 LYS 26 402 402 LYS LYS A . n A 1 27 PHE 27 403 403 PHE PHE A . n A 1 28 ARG 28 404 404 ARG ARG A . n A 1 29 CYS 29 405 405 CYS CYS A . n A 1 30 ARG 30 406 406 ARG ARG A . n A 1 31 VAL 31 407 407 VAL VAL A . n A 1 32 ILE 32 408 408 ILE ILE A . n A 1 33 PHE 33 409 409 PHE PHE A . n A 1 34 GLU 34 410 410 GLU GLU A . n A 1 35 GLU 35 411 411 GLU GLU A . n A 1 36 THR 36 412 412 THR THR A . n A 1 37 LEU 37 413 413 LEU LEU A . n A 1 38 VAL 38 414 414 VAL VAL A . n A 1 39 LEU 39 415 415 LEU LEU A . n A 1 40 PRO 40 416 416 PRO PRO A . n A 1 41 LYS 41 417 417 LYS LYS A . n A 1 42 VAL 42 418 418 VAL VAL A . n A 1 43 GLY 43 419 419 GLY GLY A . n A 1 44 ARG 44 420 420 ARG ARG A . n A 1 45 SER 45 421 421 SER SER A . n A 1 46 ARG 46 422 422 ARG ARG A . n A 1 47 LEU 47 423 423 LEU LEU A . n A 1 48 HIS 48 424 424 HIS HIS A . n A 1 49 LEU 49 425 425 LEU LEU A . n A 1 50 CYS 50 426 426 CYS CYS A . n A 1 51 LYS 51 427 427 LYS LYS A . n A 1 52 ASP 52 428 428 ASP ASP A . n A 1 53 GLY 53 429 429 GLY GLY A . n A 1 54 SER 54 430 430 SER SER A . n A 1 55 PRO 55 431 431 PRO PRO A . n A 1 56 ARG 56 432 432 ARG ARG A . n A 1 57 VAL 57 433 433 VAL VAL A . n A 1 58 ILE 58 434 434 ILE ILE A . n A 1 59 LYS 59 435 435 LYS LYS A . n A 1 60 ALA 60 436 436 ALA ALA A . n A 1 61 VAL 61 437 437 VAL VAL A . n A 1 62 GLY 62 438 438 GLY GLY A . n A 1 63 VAL 63 439 439 VAL VAL A . n A 1 64 TRP 64 440 440 TRP TRP A . n A 1 65 ARG 65 441 441 ARG ARG A . n A 1 66 ASN 66 442 442 ASN ASN A . n A 1 67 ALA 67 443 443 ALA ALA A . n A 1 68 SER 68 444 444 SER SER A . n A 1 69 GLU 69 445 445 GLU GLU A . n A 1 70 PHE 70 446 446 PHE PHE A . n A 1 71 ILE 71 447 447 ILE ILE A . n A 1 72 LEU 72 448 448 LEU LEU A . n A 1 73 LEU 73 449 449 LEU LEU A . n A 1 74 GLU 74 450 450 GLU GLU A . n A 1 75 VAL 75 451 451 VAL VAL A . n A 1 76 ASP 76 452 452 ASP ASP A . n A 1 77 ALA 77 453 453 ALA ALA A . n A 1 78 SER 78 454 454 SER SER A . n A 1 79 ASP 79 455 455 ASP ASP A . n A 1 80 GLY 80 456 456 GLY GLY A . n A 1 81 VAL 81 457 457 VAL VAL A . n A 1 82 LYS 82 458 458 LYS LYS A . n A 1 83 MET 83 459 459 MET MET A . n A 1 84 LEU 84 460 460 LEU LEU A . n A 1 85 SER 85 461 461 SER SER A . n A 1 86 THR 86 462 462 THR THR A . n A 1 87 LYS 87 463 463 LYS LYS A . n A 1 88 VAL 88 464 464 VAL VAL A . n A 1 89 LEU 89 465 465 LEU LEU A . n A 1 90 ILE 90 466 466 ILE ILE A . n A 1 91 GLY 91 467 467 GLY GLY A . n A 1 92 VAL 92 468 468 VAL VAL A . n A 1 93 ASN 93 469 469 ASN ASN A . n A 1 94 ARG 94 470 470 ARG ARG A . n A 1 95 GLU 95 471 471 GLU GLU A . n A 1 96 THR 96 472 472 THR THR A . n A 1 97 TRP 97 473 473 TRP TRP A . n A 1 98 GLN 98 474 474 GLN GLN A . n A 1 99 SER 99 475 475 SER SER A . n A 1 100 ASP 100 476 476 ASP ASP A . n A 1 101 PHE 101 477 477 PHE PHE A . n A 1 102 GLU 102 478 478 GLU GLU A . n A 1 103 ARG 103 479 479 ARG ARG A . n A 1 104 ILE 104 480 480 ILE ILE A . n A 1 105 ARG 105 481 481 ARG ARG A . n A 1 106 ARG 106 482 482 ARG ARG A . n A 1 107 GLY 107 483 483 GLY GLY A . n A 1 108 ILE 108 484 484 ILE ILE A . n A 1 109 VAL 109 485 485 VAL VAL A . n A 1 110 ARG 110 486 486 ARG ARG A . n A 1 111 ASN 111 487 487 ASN ASN A . n A 1 112 SER 112 488 488 SER SER A . n A 1 113 LEU 113 489 489 LEU LEU A . n A 1 114 ASN 114 490 490 ASN ASN A . n A 1 115 TRP 115 491 491 TRP TRP A . n A 1 116 PRO 116 492 492 PRO PRO A . n A 1 117 ASN 117 493 493 ASN ASN A . n A 1 118 GLY 118 494 494 GLY GLY A . n A 1 119 LEU 119 495 495 LEU LEU A . n A 1 120 LEU 120 496 496 LEU LEU A . n A 1 121 TYR 121 497 497 TYR TYR A . n A 1 122 GLN 122 498 498 GLN GLN A . n A 1 123 LEU 123 499 499 LEU LEU A . n A 1 124 TYR 124 500 500 TYR TYR A . n A 1 125 GLY 125 501 501 GLY GLY A . n A 1 126 LYS 126 502 502 LYS LYS A . n A 1 127 GLU 127 503 503 GLU GLU A . n A 1 128 GLY 128 504 504 GLY GLY A . n A 1 129 ASN 129 505 505 ASN ASN A . n A 1 130 ARG 130 506 506 ARG ARG A . n A 1 131 GLY 131 507 507 GLY GLY A . n A 1 132 VAL 132 508 508 VAL VAL A . n A 1 133 ASN 133 509 509 ASN ASN A . n A 1 134 HIS 134 510 510 HIS HIS A . n A 1 135 PRO 135 511 511 PRO PRO A . n A 1 136 LYS 136 512 512 LYS LYS A . n A 1 137 GLY 137 513 513 GLY GLY A . n A 1 138 LEU 138 514 514 LEU LEU A . n A 1 139 SER 139 515 515 SER SER A . n A 1 140 GLU 140 516 516 GLU GLU A . n A 1 141 LEU 141 517 517 LEU LEU A . n A 1 142 GLU 142 518 518 GLU GLU A . n A 1 143 VAL 143 519 519 VAL VAL A . n A 1 144 SER 144 520 520 SER SER A . n A 1 145 ARG 145 521 521 ARG ARG A . n A 1 146 GLU 146 522 522 GLU GLU A . n A 1 147 ASP 147 523 523 ASP ASP A . n A 1 148 MET 148 524 524 MET MET A . n A 1 149 GLU 149 525 525 GLU GLU A . n A 1 150 GLY 150 526 526 GLY GLY A . n A 1 151 TRP 151 527 527 TRP TRP A . n A 1 152 GLY 152 528 528 GLY GLY A . n A 1 153 GLU 153 529 529 GLU GLU A . n A 1 154 ARG 154 530 530 ARG ARG A . n A 1 155 LEU 155 531 531 LEU LEU A . n A 1 156 ILE 156 532 532 ILE ILE A . n A 1 157 ARG 157 533 533 ARG ARG A . n A 1 158 GLU 158 534 534 GLU GLU A . n A 1 159 LEU 159 535 535 LEU LEU A . n A 1 160 GLU 160 536 536 GLU GLU A . n A 1 161 HIS 161 537 537 HIS HIS A . n A 1 162 HIS 162 538 ? ? ? A . n A 1 163 HIS 163 539 ? ? ? A . n A 1 164 HIS 164 540 ? ? ? A . n A 1 165 HIS 165 541 ? ? ? A . n A 1 166 HIS 166 542 ? ? ? A . n B 2 1 DT 1 -1 -1 DT DT C . n B 2 2 DA 2 0 0 DA DA C . n B 2 3 DA 3 1 1 DA DA C . n B 2 4 DA 4 2 2 DA DA C . n B 2 5 DT 5 3 3 DT DT C . n B 2 6 DT 6 4 4 DT DT C . n B 2 7 DT 7 5 5 DT DT C . n B 2 8 DA 8 6 6 DA DA C . n B 2 9 DA 9 7 7 DA DA C . n B 2 10 DA 10 8 8 DA DA C . n B 2 11 DT 11 9 9 DT DT C . n B 2 12 DT 12 10 10 DT DT C . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 PO4 1 601 1 PO4 PO4 A . D 4 HOH 1 701 17 HOH HOH A . D 4 HOH 2 702 12 HOH HOH A . D 4 HOH 3 703 6 HOH HOH A . D 4 HOH 4 704 7 HOH HOH A . D 4 HOH 5 705 4 HOH HOH A . D 4 HOH 6 706 11 HOH HOH A . D 4 HOH 7 707 9 HOH HOH A . D 4 HOH 8 708 1 HOH HOH A . D 4 HOH 9 709 15 HOH HOH A . D 4 HOH 10 710 3 HOH HOH A . D 4 HOH 11 711 14 HOH HOH A . D 4 HOH 12 712 2 HOH HOH A . D 4 HOH 13 713 8 HOH HOH A . D 4 HOH 14 714 10 HOH HOH A . D 4 HOH 15 715 5 HOH HOH A . D 4 HOH 16 716 18 HOH HOH A . D 4 HOH 17 717 19 HOH HOH A . D 4 HOH 18 718 13 HOH HOH A . D 4 HOH 19 719 16 HOH HOH A . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_reference_DOI _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.20.1_4487 ? 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . ? 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . ? 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.18.2_3874 ? 4 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 9D5L _cell.details ? _cell.formula_units_Z ? _cell.length_a 63.770 _cell.length_a_esd ? _cell.length_b 63.770 _cell.length_b_esd ? _cell.length_c 220.510 _cell.length_c_esd ? _cell.volume 776589.930 _cell.volume_esd ? _cell.Z_PDB 12 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 9D5L _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall 'P 61 2 (x,y,z+5/12)' _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 9D5L _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.83 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 56.49 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'Sodium Iodide, Bis-Tris propane, PEG 3350' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 295 # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'RAYONIX MX300HE' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-06-29 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0332 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'CLSI BEAMLINE 08B1-1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.0332 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 08B1-1 _diffrn_source.pdbx_synchrotron_site CLSI # _reflns.B_iso_Wilson_estimate 61.71 _reflns.entry_id 9D5L _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.8 _reflns.d_resolution_low 49.38 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 7169 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 38.4 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 9.03 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.995 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 2.8 _reflns_shell.d_res_low 2.9 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 702 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.42 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 67.48 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 9D5L _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.80 _refine.ls_d_res_low 49.38 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 7142 _refine.ls_number_reflns_R_free 714 _refine.ls_number_reflns_R_work 6428 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.61 _refine.ls_percent_reflns_R_free 10.00 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2403 _refine.ls_R_factor_R_free 0.2779 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2368 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.34 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 29.5255 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.4980 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.details ? _refine_hist.d_res_high 2.80 _refine_hist.d_res_low 49.38 _refine_hist.number_atoms_solvent 19 _refine_hist.number_atoms_total 1547 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 1277 _refine_hist.pdbx_number_atoms_nucleic_acid 246 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_Zscore _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.0062 ? 1581 ? f_bond_d ? ? ? 'X-RAY DIFFRACTION' ? 0.5578 ? 2180 ? f_angle_d ? ? ? 'X-RAY DIFFRACTION' ? 0.0384 ? 237 ? f_chiral_restr ? ? ? 'X-RAY DIFFRACTION' ? 0.0037 ? 237 ? f_plane_restr ? ? ? 'X-RAY DIFFRACTION' ? 18.6892 ? 610 ? f_dihedral_angle_d ? ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.correlation_coeff_Fo_to_Fc _refine_ls_shell.correlation_coeff_Fo_to_Fc_free _refine_ls_shell.correlation_coeff_I_to_Fcsqd_work _refine_ls_shell.correlation_coeff_I_to_Fcsqd_free _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 2.80 3.02 . . 136 1232 99.35 . . . . 0.3935 . . . . . . . . . . . . . . . 0.4306 'X-RAY DIFFRACTION' 3.02 3.32 . . 139 1242 99.21 . . . . 0.2610 . . . . . . . . . . . . . . . 0.3111 'X-RAY DIFFRACTION' 3.32 3.80 . . 139 1259 99.71 . . . . 0.2375 . . . . . . . . . . . . . . . 0.2703 'X-RAY DIFFRACTION' 3.80 4.79 . . 143 1291 99.93 . . . . 0.1927 . . . . . . . . . . . . . . . 0.2353 'X-RAY DIFFRACTION' 4.79 49.38 . . 157 1404 99.81 . . . . 0.2307 . . . . . . . . . . . . . . . 0.2765 # _struct.entry_id 9D5L _struct.title 'The C-terminal domain of Thiopseudomonas alkaliphila Tn7 TnsE bound to DNA' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 9D5L _struct_keywords.text 'Tn7, target-site selector, DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA complex' _struct_keywords.pdbx_keywords 'DNA BINDING PROTEIN/DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 9D5L 9D5L ? 1 ? 1 2 PDB 9D5L 9D5L ? 2 ? 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 9D5L A 1 ? 166 ? 9D5L 377 ? 542 ? 377 542 2 2 9D5L C 1 ? 12 ? 9D5L -1 ? 10 ? -1 10 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 4960 ? 1 MORE -45 ? 1 'SSA (A^2)' 18390 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 12_555 x,x-y,-z+1/6 0.5000000000 0.8660254038 0.0000000000 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 36.7516666667 # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 SER A 11 ? LYS A 26 ? SER A 387 LYS A 402 1 ? 16 HELX_P HELX_P2 AA2 THR A 96 ? ASN A 111 ? THR A 472 ASN A 487 1 ? 16 HELX_P HELX_P3 AA3 PRO A 116 ? GLY A 125 ? PRO A 492 GLY A 501 1 ? 10 HELX_P HELX_P4 AA4 GLY A 137 ? GLU A 140 ? GLY A 513 GLU A 516 5 ? 4 HELX_P HELX_P5 AA5 SER A 144 ? GLU A 160 ? SER A 520 GLU A 536 1 ? 17 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role hydrog1 hydrog ? ? B DA 3 N1 ? ? ? 1_555 B DT 12 N3 ? ? C DA 1 C DT 10 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? B DA 3 N6 ? ? ? 1_555 B DT 12 O4 ? ? C DA 1 C DT 10 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? B DA 4 N1 ? ? ? 1_555 B DT 11 N3 ? ? C DA 2 C DT 9 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? B DA 4 N6 ? ? ? 1_555 B DT 11 O4 ? ? C DA 2 C DT 9 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? B DT 5 N3 ? ? ? 1_555 B DA 10 N1 ? ? C DT 3 C DA 8 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? B DT 5 O4 ? ? ? 1_555 B DA 10 N6 ? ? C DT 3 C DA 8 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? B DT 6 N3 ? ? ? 1_555 B DA 9 N1 ? ? C DT 4 C DA 7 12_555 ? ? ? ? ? ? 'DT-DA PAIR' ? ? ? hydrog8 hydrog ? ? B DT 7 N3 ? ? ? 1_555 B DA 8 N1 ? ? C DT 5 C DA 6 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? B DT 7 O4 ? ? ? 1_555 B DA 8 N6 ? ? C DT 5 C DA 6 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? B DA 8 N1 ? ? ? 1_555 B DT 7 N3 ? ? C DA 6 C DT 5 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? B DA 8 N6 ? ? ? 1_555 B DT 7 O4 ? ? C DA 6 C DT 5 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? B DA 9 N1 ? ? ? 1_555 B DT 6 N3 ? ? C DA 7 C DT 4 12_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog13 hydrog ? ? B DA 10 N1 ? ? ? 1_555 B DT 5 N3 ? ? C DA 8 C DT 3 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? B DA 10 N6 ? ? ? 1_555 B DT 5 O4 ? ? C DA 8 C DT 3 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? B DT 11 N3 ? ? ? 1_555 B DA 4 N1 ? ? C DT 9 C DA 2 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? B DT 11 O4 ? ? ? 1_555 B DA 4 N6 ? ? C DT 9 C DA 2 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? B DT 12 N3 ? ? ? 1_555 B DA 3 N1 ? ? C DT 10 C DA 1 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? B DT 12 O4 ? ? ? 1_555 B DA 3 N6 ? ? C DT 10 C DA 1 12_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 2 ? AA2 ? 5 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA2 1 2 ? anti-parallel AA2 2 3 ? anti-parallel AA2 3 4 ? anti-parallel AA2 4 5 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 HIS A 7 ? VAL A 8 ? HIS A 383 VAL A 384 AA1 2 GLU A 142 ? VAL A 143 ? GLU A 518 VAL A 519 AA2 1 ARG A 30 ? VAL A 38 ? ARG A 406 VAL A 414 AA2 2 VAL A 57 ? TRP A 64 ? VAL A 433 TRP A 440 AA2 3 GLU A 69 ? VAL A 75 ? GLU A 445 VAL A 451 AA2 4 THR A 86 ? LEU A 89 ? THR A 462 LEU A 465 AA2 5 ASN A 129 ? VAL A 132 ? ASN A 505 VAL A 508 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N HIS A 7 ? N HIS A 383 O VAL A 143 ? O VAL A 519 AA2 1 2 N ILE A 32 ? N ILE A 408 O GLY A 62 ? O GLY A 438 AA2 2 3 N VAL A 63 ? N VAL A 439 O PHE A 70 ? O PHE A 446 AA2 3 4 N ILE A 71 ? N ILE A 447 O LEU A 89 ? O LEU A 465 AA2 4 5 N VAL A 88 ? N VAL A 464 O ARG A 130 ? O ARG A 506 # _pdbx_entry_details.entry_id 9D5L _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;The DNA used in the crystallization condition was a 3'-recessed DNA substrate formed by annealing a 48-nt (5'-GCAAGGCCGGAAACGTCACCAATGCAACGATCAGCCAACTAAACTAGG-3') and a 24-nt (5'-CCTAGTTTAGTTGGCTGATCGTTG-3') resulting in a 24 bp double-strand and 24 nt single-strand portion. The asymmetric unit contains one molecule of TaTnsE-CTD and a DNA strand (12 nt) that forms a DNA duplex by crystal symmetry and propagates as a pseudo-continuous duplex. This arrangement resulted in the asymmetric unit representing an average of the protein binding along the entire duplex, precluding the assignment of the DNA register and washing out the signal for the 5' single-strand DNA tail. We have modelled a string of T/A basepairs to reflect the lack of registry. ; _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest N _pdbx_entry_details.has_protein_modification N # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 OE2 _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 GLU _pdbx_validate_close_contact.auth_seq_id_1 450 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 HE2 _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HIS _pdbx_validate_close_contact.auth_seq_id_2 510 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.58 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 H61 _pdbx_validate_symm_contact.auth_asym_id_1 C _pdbx_validate_symm_contact.auth_comp_id_1 DA _pdbx_validate_symm_contact.auth_seq_id_1 1 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O4 _pdbx_validate_symm_contact.auth_asym_id_2 C _pdbx_validate_symm_contact.auth_comp_id_2 DT _pdbx_validate_symm_contact.auth_seq_id_2 10 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 12_555 _pdbx_validate_symm_contact.dist 1.46 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 C _pdbx_validate_rmsd_angle.auth_comp_id_1 DT _pdbx_validate_rmsd_angle.auth_seq_id_1 9 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 C _pdbx_validate_rmsd_angle.auth_comp_id_2 DT _pdbx_validate_rmsd_angle.auth_seq_id_2 9 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 N1 _pdbx_validate_rmsd_angle.auth_asym_id_3 C _pdbx_validate_rmsd_angle.auth_comp_id_3 DT _pdbx_validate_rmsd_angle.auth_seq_id_3 9 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 111.71 _pdbx_validate_rmsd_angle.angle_target_value 108.30 _pdbx_validate_rmsd_angle.angle_deviation 3.41 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.30 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 THR A 401 ? ? -84.47 -73.76 2 1 ARG A 420 ? ? -89.63 42.53 3 1 SER A 444 ? ? -174.10 137.78 4 1 SER A 488 ? ? 60.11 66.61 # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 x-y,x,z+1/6 3 y,-x+y,z+5/6 4 -y,x-y,z+1/3 5 -x+y,-x,z+2/3 6 x-y,-y,-z 7 -x,-x+y,-z+2/3 8 -x,-y,z+1/2 9 y,x,-z+1/3 10 -y,-x,-z+5/6 11 -x+y,y,-z+1/2 12 x,x-y,-z+1/6 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A ASP 377 ? A ASP 1 2 1 Y 1 A ALA 378 ? A ALA 2 3 1 Y 1 A THR 379 ? A THR 3 4 1 Y 1 A ASN 380 ? A ASN 4 5 1 Y 1 A HIS 538 ? A HIS 162 6 1 Y 1 A HIS 539 ? A HIS 163 7 1 Y 1 A HIS 540 ? A HIS 164 8 1 Y 1 A HIS 541 ? A HIS 165 9 1 Y 1 A HIS 542 ? A HIS 166 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 DA OP3 O N N 88 DA P P N N 89 DA OP1 O N N 90 DA OP2 O N N 91 DA "O5'" O N N 92 DA "C5'" C N N 93 DA "C4'" C N R 94 DA "O4'" O N N 95 DA "C3'" C N S 96 DA "O3'" O N N 97 DA "C2'" C N N 98 DA "C1'" C N R 99 DA N9 N Y N 100 DA C8 C Y N 101 DA N7 N Y N 102 DA C5 C Y N 103 DA C6 C Y N 104 DA N6 N N N 105 DA N1 N Y N 106 DA C2 C Y N 107 DA N3 N Y N 108 DA C4 C Y N 109 DA HOP3 H N N 110 DA HOP2 H N N 111 DA "H5'" H N N 112 DA "H5''" H N N 113 DA "H4'" H N N 114 DA "H3'" H N N 115 DA "HO3'" H N N 116 DA "H2'" H N N 117 DA "H2''" H N N 118 DA "H1'" H N N 119 DA H8 H N N 120 DA H61 H N N 121 DA H62 H N N 122 DA H2 H N N 123 DT OP3 O N N 124 DT P P N N 125 DT OP1 O N N 126 DT OP2 O N N 127 DT "O5'" O N N 128 DT "C5'" C N N 129 DT "C4'" C N R 130 DT "O4'" O N N 131 DT "C3'" C N S 132 DT "O3'" O N N 133 DT "C2'" C N N 134 DT "C1'" C N R 135 DT N1 N N N 136 DT C2 C N N 137 DT O2 O N N 138 DT N3 N N N 139 DT C4 C N N 140 DT O4 O N N 141 DT C5 C N N 142 DT C7 C N N 143 DT C6 C N N 144 DT HOP3 H N N 145 DT HOP2 H N N 146 DT "H5'" H N N 147 DT "H5''" H N N 148 DT "H4'" H N N 149 DT "H3'" H N N 150 DT "HO3'" H N N 151 DT "H2'" H N N 152 DT "H2''" H N N 153 DT "H1'" H N N 154 DT H3 H N N 155 DT H71 H N N 156 DT H72 H N N 157 DT H73 H N N 158 DT H6 H N N 159 GLN N N N N 160 GLN CA C N S 161 GLN C C N N 162 GLN O O N N 163 GLN CB C N N 164 GLN CG C N N 165 GLN CD C N N 166 GLN OE1 O N N 167 GLN NE2 N N N 168 GLN OXT O N N 169 GLN H H N N 170 GLN H2 H N N 171 GLN HA H N N 172 GLN HB2 H N N 173 GLN HB3 H N N 174 GLN HG2 H N N 175 GLN HG3 H N N 176 GLN HE21 H N N 177 GLN HE22 H N N 178 GLN HXT H N N 179 GLU N N N N 180 GLU CA C N S 181 GLU C C N N 182 GLU O O N N 183 GLU CB C N N 184 GLU CG C N N 185 GLU CD C N N 186 GLU OE1 O N N 187 GLU OE2 O N N 188 GLU OXT O N N 189 GLU H H N N 190 GLU H2 H N N 191 GLU HA H N N 192 GLU HB2 H N N 193 GLU HB3 H N N 194 GLU HG2 H N N 195 GLU HG3 H N N 196 GLU HE2 H N N 197 GLU HXT H N N 198 GLY N N N N 199 GLY CA C N N 200 GLY C C N N 201 GLY O O N N 202 GLY OXT O N N 203 GLY H H N N 204 GLY H2 H N N 205 GLY HA2 H N N 206 GLY HA3 H N N 207 GLY HXT H N N 208 HIS N N N N 209 HIS CA C N S 210 HIS C C N N 211 HIS O O N N 212 HIS CB C N N 213 HIS CG C Y N 214 HIS ND1 N Y N 215 HIS CD2 C Y N 216 HIS CE1 C Y N 217 HIS NE2 N Y N 218 HIS OXT O N N 219 HIS H H N N 220 HIS H2 H N N 221 HIS HA H N N 222 HIS HB2 H N N 223 HIS HB3 H N N 224 HIS HD1 H N N 225 HIS HD2 H N N 226 HIS HE1 H N N 227 HIS HE2 H N N 228 HIS HXT H N N 229 HOH O O N N 230 HOH H1 H N N 231 HOH H2 H N N 232 ILE N N N N 233 ILE CA C N S 234 ILE C C N N 235 ILE O O N N 236 ILE CB C N S 237 ILE CG1 C N N 238 ILE CG2 C N N 239 ILE CD1 C N N 240 ILE OXT O N N 241 ILE H H N N 242 ILE H2 H N N 243 ILE HA H N N 244 ILE HB H N N 245 ILE HG12 H N N 246 ILE HG13 H N N 247 ILE HG21 H N N 248 ILE HG22 H N N 249 ILE HG23 H N N 250 ILE HD11 H N N 251 ILE HD12 H N N 252 ILE HD13 H N N 253 ILE HXT H N N 254 LEU N N N N 255 LEU CA C N S 256 LEU C C N N 257 LEU O O N N 258 LEU CB C N N 259 LEU CG C N N 260 LEU CD1 C N N 261 LEU CD2 C N N 262 LEU OXT O N N 263 LEU H H N N 264 LEU H2 H N N 265 LEU HA H N N 266 LEU HB2 H N N 267 LEU HB3 H N N 268 LEU HG H N N 269 LEU HD11 H N N 270 LEU HD12 H N N 271 LEU HD13 H N N 272 LEU HD21 H N N 273 LEU HD22 H N N 274 LEU HD23 H N N 275 LEU HXT H N N 276 LYS N N N N 277 LYS CA C N S 278 LYS C C N N 279 LYS O O N N 280 LYS CB C N N 281 LYS CG C N N 282 LYS CD C N N 283 LYS CE C N N 284 LYS NZ N N N 285 LYS OXT O N N 286 LYS H H N N 287 LYS H2 H N N 288 LYS HA H N N 289 LYS HB2 H N N 290 LYS HB3 H N N 291 LYS HG2 H N N 292 LYS HG3 H N N 293 LYS HD2 H N N 294 LYS HD3 H N N 295 LYS HE2 H N N 296 LYS HE3 H N N 297 LYS HZ1 H N N 298 LYS HZ2 H N N 299 LYS HZ3 H N N 300 LYS HXT H N N 301 MET N N N N 302 MET CA C N S 303 MET C C N N 304 MET O O N N 305 MET CB C N N 306 MET CG C N N 307 MET SD S N N 308 MET CE C N N 309 MET OXT O N N 310 MET H H N N 311 MET H2 H N N 312 MET HA H N N 313 MET HB2 H N N 314 MET HB3 H N N 315 MET HG2 H N N 316 MET HG3 H N N 317 MET HE1 H N N 318 MET HE2 H N N 319 MET HE3 H N N 320 MET HXT H N N 321 PHE N N N N 322 PHE CA C N S 323 PHE C C N N 324 PHE O O N N 325 PHE CB C N N 326 PHE CG C Y N 327 PHE CD1 C Y N 328 PHE CD2 C Y N 329 PHE CE1 C Y N 330 PHE CE2 C Y N 331 PHE CZ C Y N 332 PHE OXT O N N 333 PHE H H N N 334 PHE H2 H N N 335 PHE HA H N N 336 PHE HB2 H N N 337 PHE HB3 H N N 338 PHE HD1 H N N 339 PHE HD2 H N N 340 PHE HE1 H N N 341 PHE HE2 H N N 342 PHE HZ H N N 343 PHE HXT H N N 344 PO4 P P N N 345 PO4 O1 O N N 346 PO4 O2 O N N 347 PO4 O3 O N N 348 PO4 O4 O N N 349 PRO N N N N 350 PRO CA C N S 351 PRO C C N N 352 PRO O O N N 353 PRO CB C N N 354 PRO CG C N N 355 PRO CD C N N 356 PRO OXT O N N 357 PRO H H N N 358 PRO HA H N N 359 PRO HB2 H N N 360 PRO HB3 H N N 361 PRO HG2 H N N 362 PRO HG3 H N N 363 PRO HD2 H N N 364 PRO HD3 H N N 365 PRO HXT H N N 366 SER N N N N 367 SER CA C N S 368 SER C C N N 369 SER O O N N 370 SER CB C N N 371 SER OG O N N 372 SER OXT O N N 373 SER H H N N 374 SER H2 H N N 375 SER HA H N N 376 SER HB2 H N N 377 SER HB3 H N N 378 SER HG H N N 379 SER HXT H N N 380 THR N N N N 381 THR CA C N S 382 THR C C N N 383 THR O O N N 384 THR CB C N R 385 THR OG1 O N N 386 THR CG2 C N N 387 THR OXT O N N 388 THR H H N N 389 THR H2 H N N 390 THR HA H N N 391 THR HB H N N 392 THR HG1 H N N 393 THR HG21 H N N 394 THR HG22 H N N 395 THR HG23 H N N 396 THR HXT H N N 397 TRP N N N N 398 TRP CA C N S 399 TRP C C N N 400 TRP O O N N 401 TRP CB C N N 402 TRP CG C Y N 403 TRP CD1 C Y N 404 TRP CD2 C Y N 405 TRP NE1 N Y N 406 TRP CE2 C Y N 407 TRP CE3 C Y N 408 TRP CZ2 C Y N 409 TRP CZ3 C Y N 410 TRP CH2 C Y N 411 TRP OXT O N N 412 TRP H H N N 413 TRP H2 H N N 414 TRP HA H N N 415 TRP HB2 H N N 416 TRP HB3 H N N 417 TRP HD1 H N N 418 TRP HE1 H N N 419 TRP HE3 H N N 420 TRP HZ2 H N N 421 TRP HZ3 H N N 422 TRP HH2 H N N 423 TRP HXT H N N 424 TYR N N N N 425 TYR CA C N S 426 TYR C C N N 427 TYR O O N N 428 TYR CB C N N 429 TYR CG C Y N 430 TYR CD1 C Y N 431 TYR CD2 C Y N 432 TYR CE1 C Y N 433 TYR CE2 C Y N 434 TYR CZ C Y N 435 TYR OH O N N 436 TYR OXT O N N 437 TYR H H N N 438 TYR H2 H N N 439 TYR HA H N N 440 TYR HB2 H N N 441 TYR HB3 H N N 442 TYR HD1 H N N 443 TYR HD2 H N N 444 TYR HE1 H N N 445 TYR HE2 H N N 446 TYR HH H N N 447 TYR HXT H N N 448 VAL N N N N 449 VAL CA C N S 450 VAL C C N N 451 VAL O O N N 452 VAL CB C N N 453 VAL CG1 C N N 454 VAL CG2 C N N 455 VAL OXT O N N 456 VAL H H N N 457 VAL H2 H N N 458 VAL HA H N N 459 VAL HB H N N 460 VAL HG11 H N N 461 VAL HG12 H N N 462 VAL HG13 H N N 463 VAL HG21 H N N 464 VAL HG22 H N N 465 VAL HG23 H N N 466 VAL HXT H N N 467 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 DA OP3 P sing N N 83 DA OP3 HOP3 sing N N 84 DA P OP1 doub N N 85 DA P OP2 sing N N 86 DA P "O5'" sing N N 87 DA OP2 HOP2 sing N N 88 DA "O5'" "C5'" sing N N 89 DA "C5'" "C4'" sing N N 90 DA "C5'" "H5'" sing N N 91 DA "C5'" "H5''" sing N N 92 DA "C4'" "O4'" sing N N 93 DA "C4'" "C3'" sing N N 94 DA "C4'" "H4'" sing N N 95 DA "O4'" "C1'" sing N N 96 DA "C3'" "O3'" sing N N 97 DA "C3'" "C2'" sing N N 98 DA "C3'" "H3'" sing N N 99 DA "O3'" "HO3'" sing N N 100 DA "C2'" "C1'" sing N N 101 DA "C2'" "H2'" sing N N 102 DA "C2'" "H2''" sing N N 103 DA "C1'" N9 sing N N 104 DA "C1'" "H1'" sing N N 105 DA N9 C8 sing Y N 106 DA N9 C4 sing Y N 107 DA C8 N7 doub Y N 108 DA C8 H8 sing N N 109 DA N7 C5 sing Y N 110 DA C5 C6 sing Y N 111 DA C5 C4 doub Y N 112 DA C6 N6 sing N N 113 DA C6 N1 doub Y N 114 DA N6 H61 sing N N 115 DA N6 H62 sing N N 116 DA N1 C2 sing Y N 117 DA C2 N3 doub Y N 118 DA C2 H2 sing N N 119 DA N3 C4 sing Y N 120 DT OP3 P sing N N 121 DT OP3 HOP3 sing N N 122 DT P OP1 doub N N 123 DT P OP2 sing N N 124 DT P "O5'" sing N N 125 DT OP2 HOP2 sing N N 126 DT "O5'" "C5'" sing N N 127 DT "C5'" "C4'" sing N N 128 DT "C5'" "H5'" sing N N 129 DT "C5'" "H5''" sing N N 130 DT "C4'" "O4'" sing N N 131 DT "C4'" "C3'" sing N N 132 DT "C4'" "H4'" sing N N 133 DT "O4'" "C1'" sing N N 134 DT "C3'" "O3'" sing N N 135 DT "C3'" "C2'" sing N N 136 DT "C3'" "H3'" sing N N 137 DT "O3'" "HO3'" sing N N 138 DT "C2'" "C1'" sing N N 139 DT "C2'" "H2'" sing N N 140 DT "C2'" "H2''" sing N N 141 DT "C1'" N1 sing N N 142 DT "C1'" "H1'" sing N N 143 DT N1 C2 sing N N 144 DT N1 C6 sing N N 145 DT C2 O2 doub N N 146 DT C2 N3 sing N N 147 DT N3 C4 sing N N 148 DT N3 H3 sing N N 149 DT C4 O4 doub N N 150 DT C4 C5 sing N N 151 DT C5 C7 sing N N 152 DT C5 C6 doub N N 153 DT C7 H71 sing N N 154 DT C7 H72 sing N N 155 DT C7 H73 sing N N 156 DT C6 H6 sing N N 157 GLN N CA sing N N 158 GLN N H sing N N 159 GLN N H2 sing N N 160 GLN CA C sing N N 161 GLN CA CB sing N N 162 GLN CA HA sing N N 163 GLN C O doub N N 164 GLN C OXT sing N N 165 GLN CB CG sing N N 166 GLN CB HB2 sing N N 167 GLN CB HB3 sing N N 168 GLN CG CD sing N N 169 GLN CG HG2 sing N N 170 GLN CG HG3 sing N N 171 GLN CD OE1 doub N N 172 GLN CD NE2 sing N N 173 GLN NE2 HE21 sing N N 174 GLN NE2 HE22 sing N N 175 GLN OXT HXT sing N N 176 GLU N CA sing N N 177 GLU N H sing N N 178 GLU N H2 sing N N 179 GLU CA C sing N N 180 GLU CA CB sing N N 181 GLU CA HA sing N N 182 GLU C O doub N N 183 GLU C OXT sing N N 184 GLU CB CG sing N N 185 GLU CB HB2 sing N N 186 GLU CB HB3 sing N N 187 GLU CG CD sing N N 188 GLU CG HG2 sing N N 189 GLU CG HG3 sing N N 190 GLU CD OE1 doub N N 191 GLU CD OE2 sing N N 192 GLU OE2 HE2 sing N N 193 GLU OXT HXT sing N N 194 GLY N CA sing N N 195 GLY N H sing N N 196 GLY N H2 sing N N 197 GLY CA C sing N N 198 GLY CA HA2 sing N N 199 GLY CA HA3 sing N N 200 GLY C O doub N N 201 GLY C OXT sing N N 202 GLY OXT HXT sing N N 203 HIS N CA sing N N 204 HIS N H sing N N 205 HIS N H2 sing N N 206 HIS CA C sing N N 207 HIS CA CB sing N N 208 HIS CA HA sing N N 209 HIS C O doub N N 210 HIS C OXT sing N N 211 HIS CB CG sing N N 212 HIS CB HB2 sing N N 213 HIS CB HB3 sing N N 214 HIS CG ND1 sing Y N 215 HIS CG CD2 doub Y N 216 HIS ND1 CE1 doub Y N 217 HIS ND1 HD1 sing N N 218 HIS CD2 NE2 sing Y N 219 HIS CD2 HD2 sing N N 220 HIS CE1 NE2 sing Y N 221 HIS CE1 HE1 sing N N 222 HIS NE2 HE2 sing N N 223 HIS OXT HXT sing N N 224 HOH O H1 sing N N 225 HOH O H2 sing N N 226 ILE N CA sing N N 227 ILE N H sing N N 228 ILE N H2 sing N N 229 ILE CA C sing N N 230 ILE CA CB sing N N 231 ILE CA HA sing N N 232 ILE C O doub N N 233 ILE C OXT sing N N 234 ILE CB CG1 sing N N 235 ILE CB CG2 sing N N 236 ILE CB HB sing N N 237 ILE CG1 CD1 sing N N 238 ILE CG1 HG12 sing N N 239 ILE CG1 HG13 sing N N 240 ILE CG2 HG21 sing N N 241 ILE CG2 HG22 sing N N 242 ILE CG2 HG23 sing N N 243 ILE CD1 HD11 sing N N 244 ILE CD1 HD12 sing N N 245 ILE CD1 HD13 sing N N 246 ILE OXT HXT sing N N 247 LEU N CA sing N N 248 LEU N H sing N N 249 LEU N H2 sing N N 250 LEU CA C sing N N 251 LEU CA CB sing N N 252 LEU CA HA sing N N 253 LEU C O doub N N 254 LEU C OXT sing N N 255 LEU CB CG sing N N 256 LEU CB HB2 sing N N 257 LEU CB HB3 sing N N 258 LEU CG CD1 sing N N 259 LEU CG CD2 sing N N 260 LEU CG HG sing N N 261 LEU CD1 HD11 sing N N 262 LEU CD1 HD12 sing N N 263 LEU CD1 HD13 sing N N 264 LEU CD2 HD21 sing N N 265 LEU CD2 HD22 sing N N 266 LEU CD2 HD23 sing N N 267 LEU OXT HXT sing N N 268 LYS N CA sing N N 269 LYS N H sing N N 270 LYS N H2 sing N N 271 LYS CA C sing N N 272 LYS CA CB sing N N 273 LYS CA HA sing N N 274 LYS C O doub N N 275 LYS C OXT sing N N 276 LYS CB CG sing N N 277 LYS CB HB2 sing N N 278 LYS CB HB3 sing N N 279 LYS CG CD sing N N 280 LYS CG HG2 sing N N 281 LYS CG HG3 sing N N 282 LYS CD CE sing N N 283 LYS CD HD2 sing N N 284 LYS CD HD3 sing N N 285 LYS CE NZ sing N N 286 LYS CE HE2 sing N N 287 LYS CE HE3 sing N N 288 LYS NZ HZ1 sing N N 289 LYS NZ HZ2 sing N N 290 LYS NZ HZ3 sing N N 291 LYS OXT HXT sing N N 292 MET N CA sing N N 293 MET N H sing N N 294 MET N H2 sing N N 295 MET CA C sing N N 296 MET CA CB sing N N 297 MET CA HA sing N N 298 MET C O doub N N 299 MET C OXT sing N N 300 MET CB CG sing N N 301 MET CB HB2 sing N N 302 MET CB HB3 sing N N 303 MET CG SD sing N N 304 MET CG HG2 sing N N 305 MET CG HG3 sing N N 306 MET SD CE sing N N 307 MET CE HE1 sing N N 308 MET CE HE2 sing N N 309 MET CE HE3 sing N N 310 MET OXT HXT sing N N 311 PHE N CA sing N N 312 PHE N H sing N N 313 PHE N H2 sing N N 314 PHE CA C sing N N 315 PHE CA CB sing N N 316 PHE CA HA sing N N 317 PHE C O doub N N 318 PHE C OXT sing N N 319 PHE CB CG sing N N 320 PHE CB HB2 sing N N 321 PHE CB HB3 sing N N 322 PHE CG CD1 doub Y N 323 PHE CG CD2 sing Y N 324 PHE CD1 CE1 sing Y N 325 PHE CD1 HD1 sing N N 326 PHE CD2 CE2 doub Y N 327 PHE CD2 HD2 sing N N 328 PHE CE1 CZ doub Y N 329 PHE CE1 HE1 sing N N 330 PHE CE2 CZ sing Y N 331 PHE CE2 HE2 sing N N 332 PHE CZ HZ sing N N 333 PHE OXT HXT sing N N 334 PO4 P O1 doub N N 335 PO4 P O2 sing N N 336 PO4 P O3 sing N N 337 PO4 P O4 sing N N 338 PRO N CA sing N N 339 PRO N CD sing N N 340 PRO N H sing N N 341 PRO CA C sing N N 342 PRO CA CB sing N N 343 PRO CA HA sing N N 344 PRO C O doub N N 345 PRO C OXT sing N N 346 PRO CB CG sing N N 347 PRO CB HB2 sing N N 348 PRO CB HB3 sing N N 349 PRO CG CD sing N N 350 PRO CG HG2 sing N N 351 PRO CG HG3 sing N N 352 PRO CD HD2 sing N N 353 PRO CD HD3 sing N N 354 PRO OXT HXT sing N N 355 SER N CA sing N N 356 SER N H sing N N 357 SER N H2 sing N N 358 SER CA C sing N N 359 SER CA CB sing N N 360 SER CA HA sing N N 361 SER C O doub N N 362 SER C OXT sing N N 363 SER CB OG sing N N 364 SER CB HB2 sing N N 365 SER CB HB3 sing N N 366 SER OG HG sing N N 367 SER OXT HXT sing N N 368 THR N CA sing N N 369 THR N H sing N N 370 THR N H2 sing N N 371 THR CA C sing N N 372 THR CA CB sing N N 373 THR CA HA sing N N 374 THR C O doub N N 375 THR C OXT sing N N 376 THR CB OG1 sing N N 377 THR CB CG2 sing N N 378 THR CB HB sing N N 379 THR OG1 HG1 sing N N 380 THR CG2 HG21 sing N N 381 THR CG2 HG22 sing N N 382 THR CG2 HG23 sing N N 383 THR OXT HXT sing N N 384 TRP N CA sing N N 385 TRP N H sing N N 386 TRP N H2 sing N N 387 TRP CA C sing N N 388 TRP CA CB sing N N 389 TRP CA HA sing N N 390 TRP C O doub N N 391 TRP C OXT sing N N 392 TRP CB CG sing N N 393 TRP CB HB2 sing N N 394 TRP CB HB3 sing N N 395 TRP CG CD1 doub Y N 396 TRP CG CD2 sing Y N 397 TRP CD1 NE1 sing Y N 398 TRP CD1 HD1 sing N N 399 TRP CD2 CE2 doub Y N 400 TRP CD2 CE3 sing Y N 401 TRP NE1 CE2 sing Y N 402 TRP NE1 HE1 sing N N 403 TRP CE2 CZ2 sing Y N 404 TRP CE3 CZ3 doub Y N 405 TRP CE3 HE3 sing N N 406 TRP CZ2 CH2 doub Y N 407 TRP CZ2 HZ2 sing N N 408 TRP CZ3 CH2 sing Y N 409 TRP CZ3 HZ3 sing N N 410 TRP CH2 HH2 sing N N 411 TRP OXT HXT sing N N 412 TYR N CA sing N N 413 TYR N H sing N N 414 TYR N H2 sing N N 415 TYR CA C sing N N 416 TYR CA CB sing N N 417 TYR CA HA sing N N 418 TYR C O doub N N 419 TYR C OXT sing N N 420 TYR CB CG sing N N 421 TYR CB HB2 sing N N 422 TYR CB HB3 sing N N 423 TYR CG CD1 doub Y N 424 TYR CG CD2 sing Y N 425 TYR CD1 CE1 sing Y N 426 TYR CD1 HD1 sing N N 427 TYR CD2 CE2 doub Y N 428 TYR CD2 HD2 sing N N 429 TYR CE1 CZ doub Y N 430 TYR CE1 HE1 sing N N 431 TYR CE2 CZ sing Y N 432 TYR CE2 HE2 sing N N 433 TYR CZ OH sing N N 434 TYR OH HH sing N N 435 TYR OXT HXT sing N N 436 VAL N CA sing N N 437 VAL N H sing N N 438 VAL N H2 sing N N 439 VAL CA C sing N N 440 VAL CA CB sing N N 441 VAL CA HA sing N N 442 VAL C O doub N N 443 VAL C OXT sing N N 444 VAL CB CG1 sing N N 445 VAL CB CG2 sing N N 446 VAL CB HB sing N N 447 VAL CG1 HG11 sing N N 448 VAL CG1 HG12 sing N N 449 VAL CG1 HG13 sing N N 450 VAL CG2 HG21 sing N N 451 VAL CG2 HG22 sing N N 452 VAL CG2 HG23 sing N N 453 VAL OXT HXT sing N N 454 # _ndb_struct_conf_na.entry_id 9D5L _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 B DA 3 1_555 B DT 12 12_555 0.753 -0.298 0.096 3.231 -11.712 -17.436 1 C_DA1:DT10_C C 1 ? C 10 ? 20 1 1 B DA 4 1_555 B DT 11 12_555 -0.224 -0.390 -0.019 -0.822 -6.978 1.358 2 C_DA2:DT9_C C 2 ? C 9 ? 20 1 1 B DT 5 1_555 B DA 10 12_555 -0.443 -0.035 0.322 -0.425 -15.979 6.549 3 C_DT3:DA8_C C 3 ? C 8 ? 20 1 1 B DT 6 1_555 B DA 9 12_555 -0.277 0.765 0.387 -8.224 -11.052 5.583 4 C_DT4:DA7_C C 4 ? C 7 ? ? ? 1 B DT 7 1_555 B DA 8 12_555 -0.802 -0.254 0.629 -11.436 -7.739 1.506 5 C_DT5:DA6_C C 5 ? C 6 ? 20 1 1 B DA 8 1_555 B DT 7 12_555 0.802 -0.254 0.629 11.436 -7.739 1.506 6 C_DA6:DT5_C C 6 ? C 5 ? 20 1 1 B DA 9 1_555 B DT 6 12_555 0.277 0.765 0.387 8.224 -11.052 5.583 7 C_DA7:DT4_C C 7 ? C 4 ? ? ? 1 B DA 10 1_555 B DT 5 12_555 0.443 -0.035 0.322 0.425 -15.979 6.549 8 C_DA8:DT3_C C 8 ? C 3 ? 20 1 1 B DT 11 1_555 B DA 4 12_555 0.224 -0.390 -0.019 0.822 -6.978 1.358 9 C_DT9:DA2_C C 9 ? C 2 ? 20 1 1 B DT 12 1_555 B DA 3 12_555 -0.753 -0.298 0.096 -3.231 -11.712 -17.436 10 C_DT10:DA1_C C 10 ? C 1 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 B DA 3 1_555 B DT 12 12_555 B DA 4 1_555 B DT 11 12_555 0.731 -0.306 3.375 2.644 -0.467 33.660 -0.448 -0.812 3.424 -0.805 -4.556 33.764 1 CC_DA1DA2:DT9DT10_CC C 1 ? C 10 ? C 2 ? C 9 ? 1 B DA 4 1_555 B DT 11 12_555 B DT 5 1_555 B DA 10 12_555 0.035 -0.311 3.281 -2.140 2.989 33.103 -1.041 -0.417 3.233 5.226 3.741 33.300 2 CC_DA2DT3:DA8DT9_CC C 2 ? C 9 ? C 3 ? C 8 ? 1 B DT 5 1_555 B DA 10 12_555 B DT 6 1_555 B DA 9 12_555 -0.442 -0.479 3.536 -0.255 -4.303 35.069 -0.096 0.686 3.571 -7.107 0.422 35.325 3 CC_DT3DT4:DA7DA8_CC C 3 ? C 8 ? C 4 ? C 7 ? 1 B DT 6 1_555 B DA 9 12_555 B DT 7 1_555 B DA 8 12_555 0.594 0.036 3.381 -0.354 -2.463 34.197 0.461 -1.065 3.364 -4.182 0.601 34.284 4 CC_DT4DT5:DA6DA7_CC C 4 ? C 7 ? C 5 ? C 6 ? 1 B DT 7 1_555 B DA 8 12_555 B DA 8 1_555 B DT 7 12_555 0.000 0.239 2.788 0.000 1.406 36.481 0.216 0.000 2.795 2.245 0.000 36.507 5 CC_DT5DA6:DT5DA6_CC C 5 ? C 6 ? C 6 ? C 5 ? 1 B DA 8 1_555 B DT 7 12_555 B DA 9 1_555 B DT 6 12_555 -0.594 0.036 3.381 0.354 -2.463 34.197 0.461 1.065 3.364 -4.182 -0.601 34.284 6 CC_DA6DA7:DT4DT5_CC C 6 ? C 5 ? C 7 ? C 4 ? 1 B DA 9 1_555 B DT 6 12_555 B DA 10 1_555 B DT 5 12_555 0.442 -0.479 3.536 0.255 -4.303 35.069 -0.096 -0.686 3.571 -7.107 -0.422 35.325 7 CC_DA7DA8:DT3DT4_CC C 7 ? C 4 ? C 8 ? C 3 ? 1 B DA 10 1_555 B DT 5 12_555 B DT 11 1_555 B DA 4 12_555 -0.035 -0.311 3.281 2.140 2.989 33.103 -1.041 0.417 3.233 5.226 -3.741 33.300 8 CC_DA8DT9:DA2DT3_CC C 8 ? C 3 ? C 9 ? C 2 ? 1 B DT 11 1_555 B DA 4 12_555 B DT 12 1_555 B DA 3 12_555 -0.731 -0.306 3.375 -2.644 -0.467 33.660 -0.448 0.812 3.424 -0.805 4.556 33.764 9 CC_DT9DT10:DA1DA2_CC C 9 ? C 2 ? C 10 ? C 1 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Canadian Institutes of Health Research (CIHR)' Canada PJT-155941 1 'Canadian Institutes of Health Research (CIHR)' Canada PJT-189946 2 # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 5D17 _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'P 61 2 2' _space_group.name_Hall 'P 61 2 (x,y,z+5/12)' _space_group.IT_number 178 _space_group.crystal_system hexagonal _space_group.id 1 # _atom_sites.entry_id 9D5L _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.015681 _atom_sites.fract_transf_matrix[1][2] 0.009054 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.018107 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.004535 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? H ? ? 0.51345 0.48472 ? ? 24.73122 6.32584 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 7.96527 ? ? ? 9.05267 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? S ? ? 9.55732 6.39887 ? ? 1.23737 29.19336 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_ #