data_3VGX # _entry.id 3VGX # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.398 _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 3VGX pdb_00003vgx 10.2210/pdb3vgx/pdb RCSB RCSB095030 ? ? WWPDB D_1000095030 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2012-04-25 2 'Structure model' 1 1 2013-06-26 3 'Structure model' 1 2 2023-11-08 4 'Structure model' 1 3 2024-11-06 # _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 ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Refinement description' 6 4 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_initial_refinement_model 5 3 'Structure model' pdbx_struct_special_symmetry 6 3 'Structure model' struct_conn 7 3 'Structure model' struct_ref_seq_dif 8 3 'Structure model' struct_site 9 4 'Structure model' pdbx_entry_details 10 4 'Structure model' pdbx_modification_feature # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 3 'Structure model' '_struct_ref_seq_dif.details' 5 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3VGX _pdbx_database_status.recvd_initial_deposition_date 2011-08-22 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3VGY . unspecified PDB 3VH7 . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Yao, X.' 1 'Waltersperger, S.' 2 'Wang, M.' 3 'Cui, S.' 4 # _citation.id primary _citation.title 'Discovery of critical residues for viral entry and inhibition through structural Insight of HIV-1 fusion inhibitor CP621-652.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 287 _citation.page_first 20281 _citation.page_last 20289 _citation.year 2012 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22511760 _citation.pdbx_database_id_DOI 10.1074/jbc.M112.354126 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chong, H.' 1 ? primary 'Yao, X.' 2 ? primary 'Qiu, Z.' 3 ? primary 'Qin, B.' 4 ? primary 'Han, R.' 5 ? primary 'Waltersperger, S.' 6 ? primary 'Wang, M.' 7 ? primary 'Cui, S.' 8 ? primary 'He, Y.' 9 ? # 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 syn 'Envelope glycoprotein gp160' 4515.291 1 ? ? 'NHR (UNP RESIDIES 553-590)' ? 2 polymer syn 'Envelope glycoprotein gp160' 4026.382 1 ? ? 'CHR (UNP RESIDIES 621-652)' ? 3 non-polymer syn 'ACETIC ACID' 60.052 1 ? ? ? ? 4 non-polymer syn GLYCEROL 92.094 1 ? ? ? ? 5 water nat water 18.015 87 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 'Env polyprotein, Surface protein gp120, SU, Glycoprotein 120, gp120, Transmembrane protein gp41, TM, Glycoprotein 41, gp41' 2 'Env polyprotein, Surface protein gp120, SU, Glycoprotein 120, gp120, Transmembrane protein gp41, TM, Glycoprotein 41, gp41' # 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 yes '(ACE)NNLLRAIEAQQHLLQLTVWGIKQLQARILAVERYLKDQ(NH2)' XNNLLRAIEAQQHLLQLTVWGIKQLQARILAVERYLKDQX C ? 2 'polypeptide(L)' no no QIWNNMTWMEWDREINNYTSLIHSLIEESQNQ QIWNNMTWMEWDREINNYTSLIHSLIEESQNQ D ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'ACETIC ACID' ACY 4 GLYCEROL GOL 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ACE n 1 2 ASN n 1 3 ASN n 1 4 LEU n 1 5 LEU n 1 6 ARG n 1 7 ALA n 1 8 ILE n 1 9 GLU n 1 10 ALA n 1 11 GLN n 1 12 GLN n 1 13 HIS n 1 14 LEU n 1 15 LEU n 1 16 GLN n 1 17 LEU n 1 18 THR n 1 19 VAL n 1 20 TRP n 1 21 GLY n 1 22 ILE n 1 23 LYS n 1 24 GLN n 1 25 LEU n 1 26 GLN n 1 27 ALA n 1 28 ARG n 1 29 ILE n 1 30 LEU n 1 31 ALA n 1 32 VAL n 1 33 GLU n 1 34 ARG n 1 35 TYR n 1 36 LEU n 1 37 LYS n 1 38 ASP n 1 39 GLN n 1 40 NH2 n 2 1 GLN n 2 2 ILE n 2 3 TRP n 2 4 ASN n 2 5 ASN n 2 6 MET n 2 7 THR n 2 8 TRP n 2 9 MET n 2 10 GLU n 2 11 TRP n 2 12 ASP n 2 13 ARG n 2 14 GLU n 2 15 ILE n 2 16 ASN n 2 17 ASN n 2 18 TYR n 2 19 THR n 2 20 SER n 2 21 LEU n 2 22 ILE n 2 23 HIS n 2 24 SER n 2 25 LEU n 2 26 ILE n 2 27 GLU n 2 28 GLU n 2 29 SER n 2 30 GLN n 2 31 ASN n 2 32 GLN n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? 'Human immunodeficiency virus type 1' HIV-1 11676 'This sequence occurs naturally in humans.' 2 1 sample ? ? 'Human immunodeficiency virus type 1' HIV-1 11676 'This sequence occurs naturally in humans.' # 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 ACE non-polymer . 'ACETYL GROUP' ? 'C2 H4 O' 44.053 ACY non-polymer . 'ACETIC ACID' ? 'C2 H4 O2' 60.052 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 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 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 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 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 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 ACE 1 552 552 ACE ACE C . n A 1 2 ASN 2 553 553 ASN ASN C . n A 1 3 ASN 3 554 554 ASN ASN C . n A 1 4 LEU 4 555 555 LEU LEU C . n A 1 5 LEU 5 556 556 LEU LEU C . n A 1 6 ARG 6 557 557 ARG ARG C . n A 1 7 ALA 7 558 558 ALA ALA C . n A 1 8 ILE 8 559 559 ILE ILE C . n A 1 9 GLU 9 560 560 GLU GLU C . n A 1 10 ALA 10 561 561 ALA ALA C . n A 1 11 GLN 11 562 562 GLN GLN C . n A 1 12 GLN 12 563 563 GLN GLN C . n A 1 13 HIS 13 564 564 HIS HIS C . n A 1 14 LEU 14 565 565 LEU LEU C . n A 1 15 LEU 15 566 566 LEU LEU C . n A 1 16 GLN 16 567 567 GLN GLN C . n A 1 17 LEU 17 568 568 LEU LEU C . n A 1 18 THR 18 569 569 THR THR C . n A 1 19 VAL 19 570 570 VAL VAL C . n A 1 20 TRP 20 571 571 TRP TRP C . n A 1 21 GLY 21 572 572 GLY GLY C . n A 1 22 ILE 22 573 573 ILE ILE C . n A 1 23 LYS 23 574 574 LYS LYS C . n A 1 24 GLN 24 575 575 GLN GLN C . n A 1 25 LEU 25 576 576 LEU LEU C . n A 1 26 GLN 26 577 577 GLN GLN C . n A 1 27 ALA 27 578 578 ALA ALA C . n A 1 28 ARG 28 579 579 ARG ARG C . n A 1 29 ILE 29 580 580 ILE ILE C . n A 1 30 LEU 30 581 581 LEU LEU C . n A 1 31 ALA 31 582 582 ALA ALA C . n A 1 32 VAL 32 583 583 VAL VAL C . n A 1 33 GLU 33 584 584 GLU GLU C . n A 1 34 ARG 34 585 585 ARG ARG C . n A 1 35 TYR 35 586 586 TYR TYR C . n A 1 36 LEU 36 587 587 LEU LEU C . n A 1 37 LYS 37 588 588 LYS LYS C . n A 1 38 ASP 38 589 589 ASP ASP C . n A 1 39 GLN 39 590 590 GLN GLN C . n A 1 40 NH2 40 591 591 NH2 NH2 C . n B 2 1 GLN 1 621 ? ? ? D . n B 2 2 ILE 2 622 ? ? ? D . n B 2 3 TRP 3 623 ? ? ? D . n B 2 4 ASN 4 624 624 ASN ASN D . n B 2 5 ASN 5 625 625 ASN ASN D . n B 2 6 MET 6 626 626 MET MET D . n B 2 7 THR 7 627 627 THR THR D . n B 2 8 TRP 8 628 628 TRP TRP D . n B 2 9 MET 9 629 629 MET MET D . n B 2 10 GLU 10 630 630 GLU GLU D . n B 2 11 TRP 11 631 631 TRP TRP D . n B 2 12 ASP 12 632 632 ASP ASP D . n B 2 13 ARG 13 633 633 ARG ARG D . n B 2 14 GLU 14 634 634 GLU GLU D . n B 2 15 ILE 15 635 635 ILE ILE D . n B 2 16 ASN 16 636 636 ASN ASN D . n B 2 17 ASN 17 637 637 ASN ASN D . n B 2 18 TYR 18 638 638 TYR TYR D . n B 2 19 THR 19 639 639 THR THR D . n B 2 20 SER 20 640 640 SER SER D . n B 2 21 LEU 21 641 641 LEU LEU D . n B 2 22 ILE 22 642 642 ILE ILE D . n B 2 23 HIS 23 643 643 HIS HIS D . n B 2 24 SER 24 644 644 SER SER D . n B 2 25 LEU 25 645 645 LEU LEU D . n B 2 26 ILE 26 646 646 ILE ILE D . n B 2 27 GLU 27 647 647 GLU GLU D . n B 2 28 GLU 28 648 648 GLU GLU D . n B 2 29 SER 29 649 649 SER SER D . n B 2 30 GLN 30 650 650 GLN GLN D . n B 2 31 ASN 31 651 651 ASN ASN D . n B 2 32 GLN 32 652 ? ? ? D . 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 ACY 1 601 1 ACY ACY C . D 4 GOL 1 602 1 GOL GOL C . E 5 HOH 1 701 1 HOH HOH C . E 5 HOH 2 702 2 HOH HOH C . E 5 HOH 3 703 3 HOH HOH C . E 5 HOH 4 704 4 HOH HOH C . E 5 HOH 5 705 5 HOH HOH C . E 5 HOH 6 706 6 HOH HOH C . E 5 HOH 7 707 7 HOH HOH C . E 5 HOH 8 708 8 HOH HOH C . E 5 HOH 9 709 9 HOH HOH C . E 5 HOH 10 710 10 HOH HOH C . E 5 HOH 11 711 11 HOH HOH C . E 5 HOH 12 712 12 HOH HOH C . E 5 HOH 13 713 13 HOH HOH C . E 5 HOH 14 714 16 HOH HOH C . E 5 HOH 15 715 17 HOH HOH C . E 5 HOH 16 716 18 HOH HOH C . E 5 HOH 17 717 19 HOH HOH C . E 5 HOH 18 718 20 HOH HOH C . E 5 HOH 19 719 21 HOH HOH C . E 5 HOH 20 720 22 HOH HOH C . E 5 HOH 21 721 24 HOH HOH C . E 5 HOH 22 722 25 HOH HOH C . E 5 HOH 23 723 26 HOH HOH C . E 5 HOH 24 724 27 HOH HOH C . E 5 HOH 25 725 28 HOH HOH C . E 5 HOH 26 726 29 HOH HOH C . E 5 HOH 27 727 30 HOH HOH C . E 5 HOH 28 728 32 HOH HOH C . E 5 HOH 29 729 34 HOH HOH C . E 5 HOH 30 730 36 HOH HOH C . E 5 HOH 31 731 37 HOH HOH C . E 5 HOH 32 732 38 HOH HOH C . E 5 HOH 33 733 39 HOH HOH C . E 5 HOH 34 734 40 HOH HOH C . E 5 HOH 35 735 41 HOH HOH C . E 5 HOH 36 736 44 HOH HOH C . E 5 HOH 37 737 46 HOH HOH C . E 5 HOH 38 738 47 HOH HOH C . E 5 HOH 39 739 48 HOH HOH C . E 5 HOH 40 740 49 HOH HOH C . E 5 HOH 41 741 51 HOH HOH C . E 5 HOH 42 742 52 HOH HOH C . E 5 HOH 43 743 53 HOH HOH C . E 5 HOH 44 744 54 HOH HOH C . E 5 HOH 45 745 55 HOH HOH C . E 5 HOH 46 746 56 HOH HOH C . E 5 HOH 47 747 57 HOH HOH C . E 5 HOH 48 748 58 HOH HOH C . E 5 HOH 49 749 59 HOH HOH C . E 5 HOH 50 750 60 HOH HOH C . E 5 HOH 51 751 61 HOH HOH C . E 5 HOH 52 752 62 HOH HOH C . E 5 HOH 53 753 66 HOH HOH C . E 5 HOH 54 754 69 HOH HOH C . E 5 HOH 55 755 72 HOH HOH C . E 5 HOH 56 756 74 HOH HOH C . E 5 HOH 57 757 76 HOH HOH C . E 5 HOH 58 758 77 HOH HOH C . E 5 HOH 59 759 82 HOH HOH C . E 5 HOH 60 760 83 HOH HOH C . E 5 HOH 61 761 84 HOH HOH C . E 5 HOH 62 762 85 HOH HOH C . F 5 HOH 1 701 14 HOH HOH D . F 5 HOH 2 702 15 HOH HOH D . F 5 HOH 3 703 23 HOH HOH D . F 5 HOH 4 704 31 HOH HOH D . F 5 HOH 5 705 33 HOH HOH D . F 5 HOH 6 706 35 HOH HOH D . F 5 HOH 7 707 42 HOH HOH D . F 5 HOH 8 708 43 HOH HOH D . F 5 HOH 9 709 45 HOH HOH D . F 5 HOH 10 710 50 HOH HOH D . F 5 HOH 11 711 63 HOH HOH D . F 5 HOH 12 712 64 HOH HOH D . F 5 HOH 13 713 65 HOH HOH D . F 5 HOH 14 714 67 HOH HOH D . F 5 HOH 15 715 68 HOH HOH D . F 5 HOH 16 716 70 HOH HOH D . F 5 HOH 17 717 71 HOH HOH D . F 5 HOH 18 718 73 HOH HOH D . F 5 HOH 19 719 75 HOH HOH D . F 5 HOH 20 720 78 HOH HOH D . F 5 HOH 21 721 79 HOH HOH D . F 5 HOH 22 722 80 HOH HOH D . F 5 HOH 23 723 81 HOH HOH D . F 5 HOH 24 724 86 HOH HOH D . F 5 HOH 25 725 87 HOH HOH D . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CrystalClear 'data collection' . ? 1 PHASER phasing . ? 2 PHENIX refinement '(phenix.refine: 1.6.1_357)' ? 3 d*TREK 'data reduction' . ? 4 d*TREK 'data scaling' . ? 5 # _cell.entry_id 3VGX _cell.length_a 44.967 _cell.length_b 44.967 _cell.length_c 209.237 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3VGX _symmetry.space_group_name_H-M 'H 3 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3VGX _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.39 _exptl_crystal.density_percent_sol 48.53 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 295 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pdbx_details '0.05M Tris HCl, 0.05M Potassium, 0.01M Magnesium chloride, 15% (w/v) PEG 6000, pH 8.5, VAPOR DIFFUSION, temperature 295K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'RIGAKU SATURN 944' _diffrn_detector.pdbx_collection_date 2011-07-14 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Osmic VariMax optic' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.54 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU MICROMAX-007 HF' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.54 # _reflns.entry_id 3VGX _reflns.observed_criterion_sigma_I 3.0 _reflns.observed_criterion_sigma_F 3.0 _reflns.d_resolution_low 23.711 _reflns.d_resolution_high 1.739 _reflns.number_obs 8601 _reflns.number_all 8804 _reflns.percent_possible_obs 99.8 _reflns.pdbx_Rmerge_I_obs 0.034 _reflns.pdbx_Rsym_value 0.037 _reflns.pdbx_netI_over_sigmaI 33.0 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 6.51 _reflns.R_free_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.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.74 _reflns_shell.d_res_low 1.80 _reflns_shell.percent_possible_all 98.7 _reflns_shell.Rmerge_I_obs 0.179 _reflns_shell.pdbx_Rsym_value 0.207 _reflns_shell.meanI_over_sigI_obs 5.6 _reflns_shell.pdbx_redundancy 3.84 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.number_possible ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.meanI_over_sigI_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3VGX _refine.ls_number_reflns_obs 8595 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.06 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 23.711 _refine.ls_d_res_high 1.74 _refine.ls_percent_reflns_obs 97.44 _refine.ls_R_factor_obs 0.1923 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1921 _refine.ls_R_factor_R_free 0.1968 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.78 _refine.ls_number_reflns_R_free 411 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] 1.5435 _refine.aniso_B[2][2] 1.5435 _refine.aniso_B[3][3] -3.0869 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] -0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.463 _refine.solvent_model_param_bsol 61.247 _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 'PDB ID 3F4Y' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.22 _refine.pdbx_overall_phase_error 19.80 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 562 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 10 _refine_hist.number_atoms_solvent 87 _refine_hist.number_atoms_total 659 _refine_hist.d_res_high 1.74 _refine_hist.d_res_low 23.711 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function f_bond_d 0.005 ? ? 605 'X-RAY DIFFRACTION' ? f_angle_d 0.832 ? ? 824 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 14.652 ? ? 233 'X-RAY DIFFRACTION' ? f_chiral_restr 0.051 ? ? 92 'X-RAY DIFFRACTION' ? f_plane_restr 0.003 ? ? 107 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.number_reflns_obs 'X-RAY DIFFRACTION' 3 1.7393 1.9908 2576 0.2063 94.00 0.2537 . . 118 . . . . 'X-RAY DIFFRACTION' 3 1.9908 2.5078 2730 0.1633 99.00 0.1872 . . 151 . . . . 'X-RAY DIFFRACTION' 3 2.5078 23.7135 2878 0.1948 99.00 0.1858 . . 142 . . . . # _database_PDB_matrix.entry_id 3VGX _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 3VGX _struct.title 'Structure of gp41 T21/Cp621-652' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3VGX _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN' _struct_keywords.text '6-helix bundle, membrane fusion, MEMBRANE PROTEIN' # 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 ? E N N 5 ? F N N 5 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin _struct_ref.pdbx_db_isoform 1 UNP ENV_HV1B1 P03375 1 NNLLRAIEAQQHLLQLTVWGIKQLQARILAVERYLKDQ 558 ? 2 UNP ENV_HV1B1 P03375 2 QIWNNMTWMEWDREINNYTSLIHSLIEESQNQ 626 ? # 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 3VGX C 2 ? 39 ? P03375 553 ? 590 ? 553 590 2 2 3VGX D 1 ? 32 ? P03375 621 ? 652 ? 621 652 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 3VGX ACE C 1 ? UNP P03375 ? ? acetylation 552 1 1 3VGX NH2 C 40 ? UNP P03375 ? ? amidation 591 2 # _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 # 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)' 10550 ? 1 MORE -93 ? 1 'SSA (A^2)' 11000 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # 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' 2_545 -y,x-y-1,z -0.5000000000 -0.8660254038 0.0000000000 22.4835000000 0.8660254038 -0.5000000000 0.0000000000 -38.9425643320 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5000000000 0.8660254038 0.0000000000 44.9670000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # _struct_biol.id 1 _struct_biol.details ? # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 2 _struct_conf.beg_label_comp_id THR _struct_conf.beg_label_asym_id B _struct_conf.beg_label_seq_id 7 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id ASN _struct_conf.end_label_asym_id B _struct_conf.end_label_seq_id 31 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id THR _struct_conf.beg_auth_asym_id D _struct_conf.beg_auth_seq_id 627 _struct_conf.end_auth_comp_id ASN _struct_conf.end_auth_asym_id D _struct_conf.end_auth_seq_id 651 _struct_conf.pdbx_PDB_helix_class 1 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 25 # _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 covale1 covale both ? A ACE 1 C ? ? ? 1_555 A ASN 2 N ? ? C ACE 552 C ASN 553 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale2 covale both ? A GLN 39 C ? ? ? 1_555 A NH2 40 N ? ? C GLN 590 C NH2 591 1_555 ? ? ? ? ? ? ? 1.332 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_modification_feature.ordinal _pdbx_modification_feature.label_comp_id _pdbx_modification_feature.label_asym_id _pdbx_modification_feature.label_seq_id _pdbx_modification_feature.label_alt_id _pdbx_modification_feature.modified_residue_label_comp_id _pdbx_modification_feature.modified_residue_label_asym_id _pdbx_modification_feature.modified_residue_label_seq_id _pdbx_modification_feature.modified_residue_label_alt_id _pdbx_modification_feature.auth_comp_id _pdbx_modification_feature.auth_asym_id _pdbx_modification_feature.auth_seq_id _pdbx_modification_feature.PDB_ins_code _pdbx_modification_feature.symmetry _pdbx_modification_feature.modified_residue_auth_comp_id _pdbx_modification_feature.modified_residue_auth_asym_id _pdbx_modification_feature.modified_residue_auth_seq_id _pdbx_modification_feature.modified_residue_PDB_ins_code _pdbx_modification_feature.modified_residue_symmetry _pdbx_modification_feature.comp_id_linking_atom _pdbx_modification_feature.modified_residue_id_linking_atom _pdbx_modification_feature.modified_residue_id _pdbx_modification_feature.ref_pcm_id _pdbx_modification_feature.ref_comp_id _pdbx_modification_feature.type _pdbx_modification_feature.category 1 ACE A 1 ? ASN A 2 ? ACE C 552 ? 1_555 ASN C 553 ? 1_555 . . ASN 17 ACE None 'Terminal acetylation' 2 NH2 A 40 ? GLN A 39 ? NH2 C 591 ? 1_555 GLN C 590 ? 1_555 . . GLN 18 NH2 None 'Terminal amidation' # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software C ACY 601 ? 4 'BINDING SITE FOR RESIDUE ACY C 601' AC2 Software C GOL 602 ? 2 'BINDING SITE FOR RESIDUE GOL C 602' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 ARG A 34 ? ARG C 585 . ? 1_555 ? 2 AC1 4 ARG A 34 ? ARG C 585 . ? 16_544 ? 3 AC1 4 LYS A 37 ? LYS C 588 . ? 1_555 ? 4 AC1 4 LYS A 37 ? LYS C 588 . ? 16_544 ? 5 AC2 2 HOH E . ? HOH C 701 . ? 1_555 ? 6 AC2 2 HOH E . ? HOH C 733 . ? 2_545 ? # _pdbx_entry_details.entry_id 3VGX _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification Y # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 C _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 753 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 C _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 761 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.13 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 C ACY 601 ? C ACY . 2 1 C HOH 707 ? E HOH . 3 1 C HOH 746 ? E HOH . 4 1 C HOH 748 ? E HOH . # 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 D GLN 621 ? B GLN 1 2 1 Y 1 D ILE 622 ? B ILE 2 3 1 Y 1 D TRP 623 ? B TRP 3 4 1 Y 1 D GLN 652 ? B GLN 32 # 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 ACE C C N N 1 ACE O O N N 2 ACE CH3 C N N 3 ACE H H N N 4 ACE H1 H N N 5 ACE H2 H N N 6 ACE H3 H N N 7 ACY C C N N 8 ACY O O N N 9 ACY OXT O N N 10 ACY CH3 C N N 11 ACY HXT H N N 12 ACY H1 H N N 13 ACY H2 H N N 14 ACY H3 H N N 15 ALA N N N N 16 ALA CA C N S 17 ALA C C N N 18 ALA O O N N 19 ALA CB C N N 20 ALA OXT O N N 21 ALA H H N N 22 ALA H2 H N N 23 ALA HA H N N 24 ALA HB1 H N N 25 ALA HB2 H N N 26 ALA HB3 H N N 27 ALA HXT H N N 28 ARG N N N N 29 ARG CA C N S 30 ARG C C N N 31 ARG O O N N 32 ARG CB C N N 33 ARG CG C N N 34 ARG CD C N N 35 ARG NE N N N 36 ARG CZ C N N 37 ARG NH1 N N N 38 ARG NH2 N N N 39 ARG OXT O N N 40 ARG H H N N 41 ARG H2 H N N 42 ARG HA H N N 43 ARG HB2 H N N 44 ARG HB3 H N N 45 ARG HG2 H N N 46 ARG HG3 H N N 47 ARG HD2 H N N 48 ARG HD3 H N N 49 ARG HE H N N 50 ARG HH11 H N N 51 ARG HH12 H N N 52 ARG HH21 H N N 53 ARG HH22 H N N 54 ARG HXT H N N 55 ASN N N N N 56 ASN CA C N S 57 ASN C C N N 58 ASN O O N N 59 ASN CB C N N 60 ASN CG C N N 61 ASN OD1 O N N 62 ASN ND2 N N N 63 ASN OXT O N N 64 ASN H H N N 65 ASN H2 H N N 66 ASN HA H N N 67 ASN HB2 H N N 68 ASN HB3 H N N 69 ASN HD21 H N N 70 ASN HD22 H N N 71 ASN HXT H N N 72 ASP N N N N 73 ASP CA C N S 74 ASP C C N N 75 ASP O O N N 76 ASP CB C N N 77 ASP CG C N N 78 ASP OD1 O N N 79 ASP OD2 O N N 80 ASP OXT O N N 81 ASP H H N N 82 ASP H2 H N N 83 ASP HA H N N 84 ASP HB2 H N N 85 ASP HB3 H N N 86 ASP HD2 H N N 87 ASP HXT H N N 88 GLN N N N N 89 GLN CA C N S 90 GLN C C N N 91 GLN O O N N 92 GLN CB C N N 93 GLN CG C N N 94 GLN CD C N N 95 GLN OE1 O N N 96 GLN NE2 N N N 97 GLN OXT O N N 98 GLN H H N N 99 GLN H2 H N N 100 GLN HA H N N 101 GLN HB2 H N N 102 GLN HB3 H N N 103 GLN HG2 H N N 104 GLN HG3 H N N 105 GLN HE21 H N N 106 GLN HE22 H N N 107 GLN HXT H N N 108 GLU N N N N 109 GLU CA C N S 110 GLU C C N N 111 GLU O O N N 112 GLU CB C N N 113 GLU CG C N N 114 GLU CD C N N 115 GLU OE1 O N N 116 GLU OE2 O N N 117 GLU OXT O N N 118 GLU H H N N 119 GLU H2 H N N 120 GLU HA H N N 121 GLU HB2 H N N 122 GLU HB3 H N N 123 GLU HG2 H N N 124 GLU HG3 H N N 125 GLU HE2 H N N 126 GLU HXT H N N 127 GLY N N N N 128 GLY CA C N N 129 GLY C C N N 130 GLY O O N N 131 GLY OXT O N N 132 GLY H H N N 133 GLY H2 H N N 134 GLY HA2 H N N 135 GLY HA3 H N N 136 GLY HXT H N N 137 GOL C1 C N N 138 GOL O1 O N N 139 GOL C2 C N N 140 GOL O2 O N N 141 GOL C3 C N N 142 GOL O3 O N N 143 GOL H11 H N N 144 GOL H12 H N N 145 GOL HO1 H N N 146 GOL H2 H N N 147 GOL HO2 H N N 148 GOL H31 H N N 149 GOL H32 H N N 150 GOL HO3 H N N 151 HIS N N N N 152 HIS CA C N S 153 HIS C C N N 154 HIS O O N N 155 HIS CB C N N 156 HIS CG C Y N 157 HIS ND1 N Y N 158 HIS CD2 C Y N 159 HIS CE1 C Y N 160 HIS NE2 N Y N 161 HIS OXT O N N 162 HIS H H N N 163 HIS H2 H N N 164 HIS HA H N N 165 HIS HB2 H N N 166 HIS HB3 H N N 167 HIS HD1 H N N 168 HIS HD2 H N N 169 HIS HE1 H N N 170 HIS HE2 H N N 171 HIS HXT H N N 172 HOH O O N N 173 HOH H1 H N N 174 HOH H2 H N N 175 ILE N N N N 176 ILE CA C N S 177 ILE C C N N 178 ILE O O N N 179 ILE CB C N S 180 ILE CG1 C N N 181 ILE CG2 C N N 182 ILE CD1 C N N 183 ILE OXT O N N 184 ILE H H N N 185 ILE H2 H N N 186 ILE HA H N N 187 ILE HB H N N 188 ILE HG12 H N N 189 ILE HG13 H N N 190 ILE HG21 H N N 191 ILE HG22 H N N 192 ILE HG23 H N N 193 ILE HD11 H N N 194 ILE HD12 H N N 195 ILE HD13 H N N 196 ILE HXT H N N 197 LEU N N N N 198 LEU CA C N S 199 LEU C C N N 200 LEU O O N N 201 LEU CB C N N 202 LEU CG C N N 203 LEU CD1 C N N 204 LEU CD2 C N N 205 LEU OXT O N N 206 LEU H H N N 207 LEU H2 H N N 208 LEU HA H N N 209 LEU HB2 H N N 210 LEU HB3 H N N 211 LEU HG H N N 212 LEU HD11 H N N 213 LEU HD12 H N N 214 LEU HD13 H N N 215 LEU HD21 H N N 216 LEU HD22 H N N 217 LEU HD23 H N N 218 LEU HXT H N N 219 LYS N N N N 220 LYS CA C N S 221 LYS C C N N 222 LYS O O N N 223 LYS CB C N N 224 LYS CG C N N 225 LYS CD C N N 226 LYS CE C N N 227 LYS NZ N N N 228 LYS OXT O N N 229 LYS H H N N 230 LYS H2 H N N 231 LYS HA H N N 232 LYS HB2 H N N 233 LYS HB3 H N N 234 LYS HG2 H N N 235 LYS HG3 H N N 236 LYS HD2 H N N 237 LYS HD3 H N N 238 LYS HE2 H N N 239 LYS HE3 H N N 240 LYS HZ1 H N N 241 LYS HZ2 H N N 242 LYS HZ3 H N N 243 LYS HXT H N N 244 MET N N N N 245 MET CA C N S 246 MET C C N N 247 MET O O N N 248 MET CB C N N 249 MET CG C N N 250 MET SD S N N 251 MET CE C N N 252 MET OXT O N N 253 MET H H N N 254 MET H2 H N N 255 MET HA H N N 256 MET HB2 H N N 257 MET HB3 H N N 258 MET HG2 H N N 259 MET HG3 H N N 260 MET HE1 H N N 261 MET HE2 H N N 262 MET HE3 H N N 263 MET HXT H N N 264 NH2 N N N N 265 NH2 HN1 H N N 266 NH2 HN2 H N N 267 SER N N N N 268 SER CA C N S 269 SER C C N N 270 SER O O N N 271 SER CB C N N 272 SER OG O N N 273 SER OXT O N N 274 SER H H N N 275 SER H2 H N N 276 SER HA H N N 277 SER HB2 H N N 278 SER HB3 H N N 279 SER HG H N N 280 SER HXT H N N 281 THR N N N N 282 THR CA C N S 283 THR C C N N 284 THR O O N N 285 THR CB C N R 286 THR OG1 O N N 287 THR CG2 C N N 288 THR OXT O N N 289 THR H H N N 290 THR H2 H N N 291 THR HA H N N 292 THR HB H N N 293 THR HG1 H N N 294 THR HG21 H N N 295 THR HG22 H N N 296 THR HG23 H N N 297 THR HXT H N N 298 TRP N N N N 299 TRP CA C N S 300 TRP C C N N 301 TRP O O N N 302 TRP CB C N N 303 TRP CG C Y N 304 TRP CD1 C Y N 305 TRP CD2 C Y N 306 TRP NE1 N Y N 307 TRP CE2 C Y N 308 TRP CE3 C Y N 309 TRP CZ2 C Y N 310 TRP CZ3 C Y N 311 TRP CH2 C Y N 312 TRP OXT O N N 313 TRP H H N N 314 TRP H2 H N N 315 TRP HA H N N 316 TRP HB2 H N N 317 TRP HB3 H N N 318 TRP HD1 H N N 319 TRP HE1 H N N 320 TRP HE3 H N N 321 TRP HZ2 H N N 322 TRP HZ3 H N N 323 TRP HH2 H N N 324 TRP HXT H N N 325 TYR N N N N 326 TYR CA C N S 327 TYR C C N N 328 TYR O O N N 329 TYR CB C N N 330 TYR CG C Y N 331 TYR CD1 C Y N 332 TYR CD2 C Y N 333 TYR CE1 C Y N 334 TYR CE2 C Y N 335 TYR CZ C Y N 336 TYR OH O N N 337 TYR OXT O N N 338 TYR H H N N 339 TYR H2 H N N 340 TYR HA H N N 341 TYR HB2 H N N 342 TYR HB3 H N N 343 TYR HD1 H N N 344 TYR HD2 H N N 345 TYR HE1 H N N 346 TYR HE2 H N N 347 TYR HH H N N 348 TYR HXT H N N 349 VAL N N N N 350 VAL CA C N S 351 VAL C C N N 352 VAL O O N N 353 VAL CB C N N 354 VAL CG1 C N N 355 VAL CG2 C N N 356 VAL OXT O N N 357 VAL H H N N 358 VAL H2 H N N 359 VAL HA H N N 360 VAL HB H N N 361 VAL HG11 H N N 362 VAL HG12 H N N 363 VAL HG13 H N N 364 VAL HG21 H N N 365 VAL HG22 H N N 366 VAL HG23 H N N 367 VAL HXT H N N 368 # 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 ACE C O doub N N 1 ACE C CH3 sing N N 2 ACE C H sing N N 3 ACE CH3 H1 sing N N 4 ACE CH3 H2 sing N N 5 ACE CH3 H3 sing N N 6 ACY C O doub N N 7 ACY C OXT sing N N 8 ACY C CH3 sing N N 9 ACY OXT HXT sing N N 10 ACY CH3 H1 sing N N 11 ACY CH3 H2 sing N N 12 ACY CH3 H3 sing N N 13 ALA N CA sing N N 14 ALA N H sing N N 15 ALA N H2 sing N N 16 ALA CA C sing N N 17 ALA CA CB sing N N 18 ALA CA HA sing N N 19 ALA C O doub N N 20 ALA C OXT sing N N 21 ALA CB HB1 sing N N 22 ALA CB HB2 sing N N 23 ALA CB HB3 sing N N 24 ALA OXT HXT sing N N 25 ARG N CA sing N N 26 ARG N H sing N N 27 ARG N H2 sing N N 28 ARG CA C sing N N 29 ARG CA CB sing N N 30 ARG CA HA sing N N 31 ARG C O doub N N 32 ARG C OXT sing N N 33 ARG CB CG sing N N 34 ARG CB HB2 sing N N 35 ARG CB HB3 sing N N 36 ARG CG CD sing N N 37 ARG CG HG2 sing N N 38 ARG CG HG3 sing N N 39 ARG CD NE sing N N 40 ARG CD HD2 sing N N 41 ARG CD HD3 sing N N 42 ARG NE CZ sing N N 43 ARG NE HE sing N N 44 ARG CZ NH1 sing N N 45 ARG CZ NH2 doub N N 46 ARG NH1 HH11 sing N N 47 ARG NH1 HH12 sing N N 48 ARG NH2 HH21 sing N N 49 ARG NH2 HH22 sing N N 50 ARG OXT HXT sing N N 51 ASN N CA sing N N 52 ASN N H sing N N 53 ASN N H2 sing N N 54 ASN CA C sing N N 55 ASN CA CB sing N N 56 ASN CA HA sing N N 57 ASN C O doub N N 58 ASN C OXT sing N N 59 ASN CB CG sing N N 60 ASN CB HB2 sing N N 61 ASN CB HB3 sing N N 62 ASN CG OD1 doub N N 63 ASN CG ND2 sing N N 64 ASN ND2 HD21 sing N N 65 ASN ND2 HD22 sing N N 66 ASN OXT HXT sing N N 67 ASP N CA sing N N 68 ASP N H sing N N 69 ASP N H2 sing N N 70 ASP CA C sing N N 71 ASP CA CB sing N N 72 ASP CA HA sing N N 73 ASP C O doub N N 74 ASP C OXT sing N N 75 ASP CB CG sing N N 76 ASP CB HB2 sing N N 77 ASP CB HB3 sing N N 78 ASP CG OD1 doub N N 79 ASP CG OD2 sing N N 80 ASP OD2 HD2 sing N N 81 ASP OXT HXT sing N N 82 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 GOL C1 O1 sing N N 129 GOL C1 C2 sing N N 130 GOL C1 H11 sing N N 131 GOL C1 H12 sing N N 132 GOL O1 HO1 sing N N 133 GOL C2 O2 sing N N 134 GOL C2 C3 sing N N 135 GOL C2 H2 sing N N 136 GOL O2 HO2 sing N N 137 GOL C3 O3 sing N N 138 GOL C3 H31 sing N N 139 GOL C3 H32 sing N N 140 GOL O3 HO3 sing N N 141 HIS N CA sing N N 142 HIS N H sing N N 143 HIS N H2 sing N N 144 HIS CA C sing N N 145 HIS CA CB sing N N 146 HIS CA HA sing N N 147 HIS C O doub N N 148 HIS C OXT sing N N 149 HIS CB CG sing N N 150 HIS CB HB2 sing N N 151 HIS CB HB3 sing N N 152 HIS CG ND1 sing Y N 153 HIS CG CD2 doub Y N 154 HIS ND1 CE1 doub Y N 155 HIS ND1 HD1 sing N N 156 HIS CD2 NE2 sing Y N 157 HIS CD2 HD2 sing N N 158 HIS CE1 NE2 sing Y N 159 HIS CE1 HE1 sing N N 160 HIS NE2 HE2 sing N N 161 HIS OXT HXT sing N N 162 HOH O H1 sing N N 163 HOH O H2 sing N N 164 ILE N CA sing N N 165 ILE N H sing N N 166 ILE N H2 sing N N 167 ILE CA C sing N N 168 ILE CA CB sing N N 169 ILE CA HA sing N N 170 ILE C O doub N N 171 ILE C OXT sing N N 172 ILE CB CG1 sing N N 173 ILE CB CG2 sing N N 174 ILE CB HB sing N N 175 ILE CG1 CD1 sing N N 176 ILE CG1 HG12 sing N N 177 ILE CG1 HG13 sing N N 178 ILE CG2 HG21 sing N N 179 ILE CG2 HG22 sing N N 180 ILE CG2 HG23 sing N N 181 ILE CD1 HD11 sing N N 182 ILE CD1 HD12 sing N N 183 ILE CD1 HD13 sing N N 184 ILE OXT HXT sing N N 185 LEU N CA sing N N 186 LEU N H sing N N 187 LEU N H2 sing N N 188 LEU CA C sing N N 189 LEU CA CB sing N N 190 LEU CA HA sing N N 191 LEU C O doub N N 192 LEU C OXT sing N N 193 LEU CB CG sing N N 194 LEU CB HB2 sing N N 195 LEU CB HB3 sing N N 196 LEU CG CD1 sing N N 197 LEU CG CD2 sing N N 198 LEU CG HG sing N N 199 LEU CD1 HD11 sing N N 200 LEU CD1 HD12 sing N N 201 LEU CD1 HD13 sing N N 202 LEU CD2 HD21 sing N N 203 LEU CD2 HD22 sing N N 204 LEU CD2 HD23 sing N N 205 LEU OXT HXT sing N N 206 LYS N CA sing N N 207 LYS N H sing N N 208 LYS N H2 sing N N 209 LYS CA C sing N N 210 LYS CA CB sing N N 211 LYS CA HA sing N N 212 LYS C O doub N N 213 LYS C OXT sing N N 214 LYS CB CG sing N N 215 LYS CB HB2 sing N N 216 LYS CB HB3 sing N N 217 LYS CG CD sing N N 218 LYS CG HG2 sing N N 219 LYS CG HG3 sing N N 220 LYS CD CE sing N N 221 LYS CD HD2 sing N N 222 LYS CD HD3 sing N N 223 LYS CE NZ sing N N 224 LYS CE HE2 sing N N 225 LYS CE HE3 sing N N 226 LYS NZ HZ1 sing N N 227 LYS NZ HZ2 sing N N 228 LYS NZ HZ3 sing N N 229 LYS OXT HXT sing N N 230 MET N CA sing N N 231 MET N H sing N N 232 MET N H2 sing N N 233 MET CA C sing N N 234 MET CA CB sing N N 235 MET CA HA sing N N 236 MET C O doub N N 237 MET C OXT sing N N 238 MET CB CG sing N N 239 MET CB HB2 sing N N 240 MET CB HB3 sing N N 241 MET CG SD sing N N 242 MET CG HG2 sing N N 243 MET CG HG3 sing N N 244 MET SD CE sing N N 245 MET CE HE1 sing N N 246 MET CE HE2 sing N N 247 MET CE HE3 sing N N 248 MET OXT HXT sing N N 249 NH2 N HN1 sing N N 250 NH2 N HN2 sing N N 251 SER N CA sing N N 252 SER N H sing N N 253 SER N H2 sing N N 254 SER CA C sing N N 255 SER CA CB sing N N 256 SER CA HA sing N N 257 SER C O doub N N 258 SER C OXT sing N N 259 SER CB OG sing N N 260 SER CB HB2 sing N N 261 SER CB HB3 sing N N 262 SER OG HG sing N N 263 SER OXT HXT sing N N 264 THR N CA sing N N 265 THR N H sing N N 266 THR N H2 sing N N 267 THR CA C sing N N 268 THR CA CB sing N N 269 THR CA HA sing N N 270 THR C O doub N N 271 THR C OXT sing N N 272 THR CB OG1 sing N N 273 THR CB CG2 sing N N 274 THR CB HB sing N N 275 THR OG1 HG1 sing N N 276 THR CG2 HG21 sing N N 277 THR CG2 HG22 sing N N 278 THR CG2 HG23 sing N N 279 THR OXT HXT sing N N 280 TRP N CA sing N N 281 TRP N H sing N N 282 TRP N H2 sing N N 283 TRP CA C sing N N 284 TRP CA CB sing N N 285 TRP CA HA sing N N 286 TRP C O doub N N 287 TRP C OXT sing N N 288 TRP CB CG sing N N 289 TRP CB HB2 sing N N 290 TRP CB HB3 sing N N 291 TRP CG CD1 doub Y N 292 TRP CG CD2 sing Y N 293 TRP CD1 NE1 sing Y N 294 TRP CD1 HD1 sing N N 295 TRP CD2 CE2 doub Y N 296 TRP CD2 CE3 sing Y N 297 TRP NE1 CE2 sing Y N 298 TRP NE1 HE1 sing N N 299 TRP CE2 CZ2 sing Y N 300 TRP CE3 CZ3 doub Y N 301 TRP CE3 HE3 sing N N 302 TRP CZ2 CH2 doub Y N 303 TRP CZ2 HZ2 sing N N 304 TRP CZ3 CH2 sing Y N 305 TRP CZ3 HZ3 sing N N 306 TRP CH2 HH2 sing N N 307 TRP OXT HXT sing N N 308 TYR N CA sing N N 309 TYR N H sing N N 310 TYR N H2 sing N N 311 TYR CA C sing N N 312 TYR CA CB sing N N 313 TYR CA HA sing N N 314 TYR C O doub N N 315 TYR C OXT sing N N 316 TYR CB CG sing N N 317 TYR CB HB2 sing N N 318 TYR CB HB3 sing N N 319 TYR CG CD1 doub Y N 320 TYR CG CD2 sing Y N 321 TYR CD1 CE1 sing Y N 322 TYR CD1 HD1 sing N N 323 TYR CD2 CE2 doub Y N 324 TYR CD2 HD2 sing N N 325 TYR CE1 CZ doub Y N 326 TYR CE1 HE1 sing N N 327 TYR CE2 CZ sing Y N 328 TYR CE2 HE2 sing N N 329 TYR CZ OH sing N N 330 TYR OH HH sing N N 331 TYR OXT HXT sing N N 332 VAL N CA sing N N 333 VAL N H sing N N 334 VAL N H2 sing N N 335 VAL CA C sing N N 336 VAL CA CB sing N N 337 VAL CA HA sing N N 338 VAL C O doub N N 339 VAL C OXT sing N N 340 VAL CB CG1 sing N N 341 VAL CB CG2 sing N N 342 VAL CB HB sing N N 343 VAL CG1 HG11 sing N N 344 VAL CG1 HG12 sing N N 345 VAL CG1 HG13 sing N N 346 VAL CG2 HG21 sing N N 347 VAL CG2 HG22 sing N N 348 VAL CG2 HG23 sing N N 349 VAL OXT HXT sing N N 350 # _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 3F4Y _pdbx_initial_refinement_model.details 'PDB ID 3F4Y' # _atom_sites.entry_id 3VGX _atom_sites.fract_transf_matrix[1][1] 0.022239 _atom_sites.fract_transf_matrix[1][2] 0.012839 _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] 0.025679 _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] 0.004779 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C H N O S # loop_