data_4EW0 # _entry.id 4EW0 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 4EW0 pdb_00004ew0 10.2210/pdb4ew0/pdb NDB NA1776 ? ? RCSB RCSB072138 ? ? WWPDB D_1000072138 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1NGN 'apo-structure of mouse MBD4 glycosylase domain' unspecified PDB 4EVV 'complex structure of mouse MBD4 glycosylase with a G:T mismatch' unspecified PDB 4EW4 . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4EW0 _pdbx_database_status.recvd_initial_deposition_date 2012-04-26 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _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_ _audit_author.name _audit_author.pdbx_ordinal 'Hashimoto, H.' 1 'Zhang, X.' 2 'Cheng, X.' 3 # _citation.id primary _citation.title ;Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation. ; _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_volume 40 _citation.page_first 8276 _citation.page_last 8284 _citation.year 2012 _citation.journal_id_ASTM NARHAD _citation.country UK _citation.journal_id_ISSN 0305-1048 _citation.journal_id_CSD 0389 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 22740654 _citation.pdbx_database_id_DOI 10.1093/nar/gks628 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hashimoto, H.' 1 ? primary 'Zhang, X.' 2 ? primary 'Cheng, X.' 3 ? # _cell.entry_id 4EW0 _cell.length_a 40.08 _cell.length_b 110.23 _cell.length_c 118.45 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _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 4EW0 _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? # 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 'Methyl-CpG-binding domain protein 4' 17563.209 1 3.2.2.- D534N 'glycosylase domain, UNP residues 411-554' ? 2 polymer syn ;DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3') ; 3374.210 1 ? ? ? ? 3 polymer syn ;DNA (5'-D(*CP*CP*AP*TP*GP*(5HU)P*GP*CP*TP*GP*A)-3') ; 3365.197 1 ? ? ? ? 4 non-polymer syn 1,2-ETHANEDIOL 62.068 3 ? ? ? ? 5 non-polymer syn 'NICKEL (II) ION' 58.693 1 ? ? ? ? 6 water nat water 18.015 31 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Methyl-CpG-binding protein MBD4, Mismatch-specific DNA N-glycosylase' # 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 ;HMKWTPPRSPFNLVQEILFHDPWKLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAK TIIKFSDEYLTKQWRYPIELHGIGKYGNDSYRIFCVNEWKQVHPENHKLNKYHDWLWENHEKLSLS ; ;HMKWTPPRSPFNLVQEILFHDPWKLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAK TIIKFSDEYLTKQWRYPIELHGIGKYGNDSYRIFCVNEWKQVHPENHKLNKYHDWLWENHEKLSLS ; A ? 2 polydeoxyribonucleotide no no '(DT)(DC)(DA)(DG)(DC)(DG)(DC)(DA)(DT)(DG)(DG)' TCAGCGCATGG B ? 3 polydeoxyribonucleotide no yes '(DC)(DC)(DA)(DT)(DG)(5HU)(DG)(DC)(DT)(DG)(DA)' CCATGUGCTGA C ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 HIS n 1 2 MET n 1 3 LYS n 1 4 TRP n 1 5 THR n 1 6 PRO n 1 7 PRO n 1 8 ARG n 1 9 SER n 1 10 PRO n 1 11 PHE n 1 12 ASN n 1 13 LEU n 1 14 VAL n 1 15 GLN n 1 16 GLU n 1 17 ILE n 1 18 LEU n 1 19 PHE n 1 20 HIS n 1 21 ASP n 1 22 PRO n 1 23 TRP n 1 24 LYS n 1 25 LEU n 1 26 LEU n 1 27 ILE n 1 28 ALA n 1 29 THR n 1 30 ILE n 1 31 PHE n 1 32 LEU n 1 33 ASN n 1 34 ARG n 1 35 THR n 1 36 SER n 1 37 GLY n 1 38 LYS n 1 39 MET n 1 40 ALA n 1 41 ILE n 1 42 PRO n 1 43 VAL n 1 44 LEU n 1 45 TRP n 1 46 GLU n 1 47 PHE n 1 48 LEU n 1 49 GLU n 1 50 LYS n 1 51 TYR n 1 52 PRO n 1 53 SER n 1 54 ALA n 1 55 GLU n 1 56 VAL n 1 57 ALA n 1 58 ARG n 1 59 ALA n 1 60 ALA n 1 61 ASP n 1 62 TRP n 1 63 ARG n 1 64 ASP n 1 65 VAL n 1 66 SER n 1 67 GLU n 1 68 LEU n 1 69 LEU n 1 70 LYS n 1 71 PRO n 1 72 LEU n 1 73 GLY n 1 74 LEU n 1 75 TYR n 1 76 ASP n 1 77 LEU n 1 78 ARG n 1 79 ALA n 1 80 LYS n 1 81 THR n 1 82 ILE n 1 83 ILE n 1 84 LYS n 1 85 PHE n 1 86 SER n 1 87 ASP n 1 88 GLU n 1 89 TYR n 1 90 LEU n 1 91 THR n 1 92 LYS n 1 93 GLN n 1 94 TRP n 1 95 ARG n 1 96 TYR n 1 97 PRO n 1 98 ILE n 1 99 GLU n 1 100 LEU n 1 101 HIS n 1 102 GLY n 1 103 ILE n 1 104 GLY n 1 105 LYS n 1 106 TYR n 1 107 GLY n 1 108 ASN n 1 109 ASP n 1 110 SER n 1 111 TYR n 1 112 ARG n 1 113 ILE n 1 114 PHE n 1 115 CYS n 1 116 VAL n 1 117 ASN n 1 118 GLU n 1 119 TRP n 1 120 LYS n 1 121 GLN n 1 122 VAL n 1 123 HIS n 1 124 PRO n 1 125 GLU n 1 126 ASN n 1 127 HIS n 1 128 LYS n 1 129 LEU n 1 130 ASN n 1 131 LYS n 1 132 TYR n 1 133 HIS n 1 134 ASP n 1 135 TRP n 1 136 LEU n 1 137 TRP n 1 138 GLU n 1 139 ASN n 1 140 HIS n 1 141 GLU n 1 142 LYS n 1 143 LEU n 1 144 SER n 1 145 LEU n 1 146 SER n 2 1 DT n 2 2 DC n 2 3 DA n 2 4 DG n 2 5 DC n 2 6 DG n 2 7 DC n 2 8 DA n 2 9 DT n 2 10 DG n 2 11 DG n 3 1 DC n 3 2 DC n 3 3 DA n 3 4 DT n 3 5 DG n 3 6 5HU n 3 7 DG n 3 8 DC n 3 9 DT n 3 10 DG n 3 11 DA 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 ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name mouse _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene Mbd4 _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 'Mus musculus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 10090 _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 pXC1088 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # 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 2 1 sample ? ? ? ? ? 'oligonucleotide synthesis' 3 1 sample ? ? ? ? ? 'oligonucleotide synthesis' # 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 MBD4_MOUSE Q9Z2D7 1 ;KWTPPRSPFNLVQEILFHDPWKLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTI IKFSDEYLTKQWRYPIELHGIGKYGNDSYRIFCVNEWKQVHPEDHKLNKYHDWLWENHEKLSLS ; 411 ? 2 PDB 4EW0 4EW0 2 TCAGCGCATGG ? ? 3 PDB 4EW0 4EW0 3 CCATGXGCTGA ? ? # 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 4EW0 A 3 ? 146 ? Q9Z2D7 411 ? 554 ? 411 554 2 2 4EW0 B 1 ? 11 ? 4EW0 1 ? 11 ? 1 11 3 3 4EW0 C 1 ? 11 ? 4EW0 12 ? 22 ? 12 22 # 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 4EW0 HIS A 1 ? UNP Q9Z2D7 ? ? 'expression tag' 409 1 1 4EW0 MET A 2 ? UNP Q9Z2D7 ? ? 'expression tag' 410 2 1 4EW0 ASN A 126 ? UNP Q9Z2D7 ASP 534 'engineered mutation' 534 3 # 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 5HU 'DNA linking' n "5-HYDROXYMETHYLURIDINE-2'-DEOXY-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O9 P' 338.208 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 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 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 NI non-polymer . 'NICKEL (II) ION' ? 'Ni 2' 58.693 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 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 # _exptl.entry_id 4EW0 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.69 _exptl_crystal.density_percent_sol 54.30 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.6 _exptl_crystal_grow.pdbx_details '25% polyethylene glycol 3350, 200 mM NaCl, 100 mM BIS-TRIS-HCl, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 289K' _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 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date 2012-03-11 _diffrn_detector.details 'Si (220)' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Rosenbaum-Rock double-crystal monochromator' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 22-BM' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 22-BM _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0 # _reflns.entry_id 4EW0 _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 26.09 _reflns.d_resolution_high 2.39 _reflns.number_obs 10704 _reflns.number_all ? _reflns.percent_possible_obs 99.5 _reflns.pdbx_Rmerge_I_obs 0.093 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 21.9 _reflns.B_iso_Wilson_estimate 59.68 _reflns.pdbx_redundancy 11.6 _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 2.39 _reflns_shell.d_res_low 2.48 _reflns_shell.percent_possible_all 97.7 _reflns_shell.Rmerge_I_obs 0.559 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 3.5 _reflns_shell.pdbx_redundancy 9.3 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1021 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 4EW0 _refine.ls_number_reflns_obs 10680 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.34 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 26.086 _refine.ls_d_res_high 2.39 _refine.ls_percent_reflns_obs 99.54 _refine.ls_R_factor_obs 0.2786 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2777 _refine.ls_R_factor_R_free 0.2958 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.00 _refine.ls_number_reflns_R_free 534 _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] -0.4100 _refine.aniso_B[2][2] -6.1938 _refine.aniso_B[3][3] 6.6038 _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 0.308 _refine.solvent_model_param_bsol 49.304 _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 1NGN _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 ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.49 _refine.pdbx_overall_phase_error 33.98 _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.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 1189 _refine_hist.pdbx_number_atoms_nucleic_acid 445 _refine_hist.pdbx_number_atoms_ligand 13 _refine_hist.number_atoms_solvent 31 _refine_hist.number_atoms_total 1678 _refine_hist.d_res_high 2.39 _refine_hist.d_res_low 26.086 # 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_restraint_function _refine_ls_restr.pdbx_refine_id f_bond_d 0.004 ? ? 1747 ? 'X-RAY DIFFRACTION' f_angle_d 0.741 ? ? 2465 ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 21.385 ? ? 654 ? 'X-RAY DIFFRACTION' f_chiral_restr 0.045 ? ? 261 ? 'X-RAY DIFFRACTION' f_plane_restr 0.003 ? ? 233 ? 'X-RAY DIFFRACTION' # loop_ _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.number_reflns_obs _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.pdbx_refine_id . 2.39 2.6343 2464 0.4114 99.00 0.4379 . . 129 . . . . 'X-RAY DIFFRACTION' . 2.6343 3.0150 2504 0.3629 100.00 0.4081 . . 132 . . . . 'X-RAY DIFFRACTION' . 3.0150 3.7967 2539 0.2739 100.00 0.3061 . . 133 . . . . 'X-RAY DIFFRACTION' . 3.7967 26.0878 2639 0.2449 99.00 0.2519 . . 140 . . . . 'X-RAY DIFFRACTION' # _struct.entry_id 4EW0 _struct.title 'mouse MBD4 glycosylase domain in complex with a G:5hmU (5-hydroxymethyluracil) mismatch' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4EW0 _struct_keywords.pdbx_keywords HYDROLASE/DNA _struct_keywords.text ;5-hydroxymethyluracil, deamination, 5-methylcytosine, active DNA demethylation, Helix-hairpin-Helix, DNA glycosylase, HYDROLASE-DNA complex ; # 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 4 ? F N N 4 ? G N N 5 ? H N N 6 ? I N N 6 ? J N N 6 ? # _struct_biol.id 1 _struct_biol.details ? # 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 1 LEU A 13 ? LEU A 18 ? LEU A 421 LEU A 426 5 ? 6 HELX_P HELX_P2 2 ASP A 21 ? LEU A 32 ? ASP A 429 LEU A 440 1 ? 12 HELX_P HELX_P3 3 SER A 36 ? TYR A 51 ? SER A 444 TYR A 459 1 ? 16 HELX_P HELX_P4 4 SER A 53 ? ARG A 58 ? SER A 461 ARG A 466 1 ? 6 HELX_P HELX_P5 5 ASP A 61 ? LYS A 70 ? ASP A 469 LYS A 478 1 ? 10 HELX_P HELX_P6 6 PRO A 71 ? GLY A 73 ? PRO A 479 GLY A 481 5 ? 3 HELX_P HELX_P7 7 LEU A 74 ? THR A 91 ? LEU A 482 THR A 499 1 ? 18 HELX_P HELX_P8 8 TYR A 96 ? LEU A 100 ? TYR A 504 LEU A 508 5 ? 5 HELX_P HELX_P9 9 GLY A 104 ? CYS A 115 ? GLY A 512 CYS A 523 1 ? 12 HELX_P HELX_P10 10 ASN A 126 ? SER A 144 ? ASN A 534 SER A 552 1 ? 19 # _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 ? C DG 5 "O3'" ? ? ? 1_555 C 5HU 6 P ? ? C DG 16 C 5HU 17 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale2 covale both ? C 5HU 6 "O3'" ? ? ? 1_555 C DG 7 P ? ? C 5HU 17 C DG 18 1_555 ? ? ? ? ? ? ? 1.607 ? ? metalc1 metalc ? ? A ILE 98 O ? ? ? 1_555 G NI . NI ? ? A ILE 506 A NI 604 1_555 ? ? ? ? ? ? ? 2.071 ? ? metalc2 metalc ? ? G NI . NI ? ? ? 1_555 C DT 9 OP1 ? ? A NI 604 C DT 20 1_555 ? ? ? ? ? ? ? 2.056 ? ? hydrog1 hydrog ? ? B DT 1 N3 ? ? ? 1_555 C DA 11 N1 ? ? B DT 1 C DA 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? B DT 1 O4 ? ? ? 1_555 C DA 11 N6 ? ? B DT 1 C DA 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? B DC 2 N3 ? ? ? 1_555 C DG 10 N1 ? ? B DC 2 C DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? B DC 2 N4 ? ? ? 1_555 C DG 10 O6 ? ? B DC 2 C DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? B DC 2 O2 ? ? ? 1_555 C DG 10 N2 ? ? B DC 2 C DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? B DA 3 N1 ? ? ? 1_555 C DT 9 N3 ? ? B DA 3 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? B DA 3 N6 ? ? ? 1_555 C DT 9 O4 ? ? B DA 3 C DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? B DG 4 N1 ? ? ? 1_555 C DC 8 N3 ? ? B DG 4 C DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? B DG 4 N2 ? ? ? 1_555 C DC 8 O2 ? ? B DG 4 C DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? B DG 4 O6 ? ? ? 1_555 C DC 8 N4 ? ? B DG 4 C DC 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? B DC 5 N3 ? ? ? 1_555 C DG 7 N1 ? ? B DC 5 C DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? B DC 5 N4 ? ? ? 1_555 C DG 7 O6 ? ? B DC 5 C DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? B DC 5 O2 ? ? ? 1_555 C DG 7 N2 ? ? B DC 5 C DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? B DC 7 N3 ? ? ? 1_555 C DG 5 N1 ? ? B DC 7 C DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? B DC 7 N4 ? ? ? 1_555 C DG 5 O6 ? ? B DC 7 C DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? B DC 7 O2 ? ? ? 1_555 C DG 5 N2 ? ? B DC 7 C DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? B DA 8 N1 ? ? ? 1_555 C DT 4 N3 ? ? B DA 8 C DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? B DA 8 N6 ? ? ? 1_555 C DT 4 O4 ? ? B DA 8 C DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? B DT 9 N3 ? ? ? 1_555 C DA 3 N1 ? ? B DT 9 C DA 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? B DT 9 O4 ? ? ? 1_555 C DA 3 N6 ? ? B DT 9 C DA 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? B DG 10 N1 ? ? ? 1_555 C DC 2 N3 ? ? B DG 10 C DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? B DG 10 N2 ? ? ? 1_555 C DC 2 O2 ? ? B DG 10 C DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? B DG 10 O6 ? ? ? 1_555 C DC 2 N4 ? ? B DG 10 C DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? B DG 11 N1 ? ? ? 1_555 C DC 1 N3 ? ? B DG 11 C DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? B DG 11 N2 ? ? ? 1_555 C DC 1 O2 ? ? B DG 11 C DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? B DG 11 O6 ? ? ? 1_555 C DC 1 N4 ? ? B DG 11 C DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # 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 A EDO 601 ? 5 'BINDING SITE FOR RESIDUE EDO A 601' AC2 Software A EDO 602 ? 2 'BINDING SITE FOR RESIDUE EDO A 602' AC3 Software A EDO 603 ? 4 'BINDING SITE FOR RESIDUE EDO A 603' AC4 Software A NI 604 ? 4 'BINDING SITE FOR RESIDUE NI A 604' # 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 5 LYS A 105 ? LYS A 513 . ? 1_555 ? 2 AC1 5 TYR A 106 ? TYR A 514 . ? 1_555 ? 3 AC1 5 ASP A 109 ? ASP A 517 . ? 1_555 ? 4 AC1 5 GLU A 125 ? GLU A 533 . ? 1_555 ? 5 AC1 5 ASN A 126 ? ASN A 534 . ? 1_555 ? 6 AC2 2 TRP A 94 ? TRP A 502 . ? 1_555 ? 7 AC2 2 GLU A 138 ? GLU A 546 . ? 1_655 ? 8 AC3 4 ARG A 8 ? ARG A 416 . ? 1_555 ? 9 AC3 4 ASN A 12 ? ASN A 420 . ? 1_555 ? 10 AC3 4 LEU A 13 ? LEU A 421 . ? 1_555 ? 11 AC3 4 ILE A 17 ? ILE A 425 . ? 1_555 ? 12 AC4 4 ILE A 98 ? ILE A 506 . ? 1_555 ? 13 AC4 4 LEU A 100 ? LEU A 508 . ? 1_555 ? 14 AC4 4 ILE A 103 ? ILE A 511 . ? 1_555 ? 15 AC4 4 DT C 9 ? DT C 20 . ? 1_555 ? # _database_PDB_matrix.entry_id 4EW0 _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 # _atom_sites.entry_id 4EW0 _atom_sites.fract_transf_matrix[1][1] 0.024950 _atom_sites.fract_transf_matrix[1][2] 0.000000 _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] 0.009072 _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] 0.008442 _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 N NI O P S # 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 HIS 1 409 ? ? ? A . n A 1 2 MET 2 410 ? ? ? A . n A 1 3 LYS 3 411 ? ? ? A . n A 1 4 TRP 4 412 412 TRP TRP A . n A 1 5 THR 5 413 413 THR THR A . n A 1 6 PRO 6 414 414 PRO PRO A . n A 1 7 PRO 7 415 415 PRO PRO A . n A 1 8 ARG 8 416 416 ARG ARG A . n A 1 9 SER 9 417 417 SER SER A . n A 1 10 PRO 10 418 418 PRO PRO A . n A 1 11 PHE 11 419 419 PHE PHE A . n A 1 12 ASN 12 420 420 ASN ASN A . n A 1 13 LEU 13 421 421 LEU LEU A . n A 1 14 VAL 14 422 422 VAL VAL A . n A 1 15 GLN 15 423 423 GLN GLN A . n A 1 16 GLU 16 424 424 GLU GLU A . n A 1 17 ILE 17 425 425 ILE ILE A . n A 1 18 LEU 18 426 426 LEU LEU A . n A 1 19 PHE 19 427 427 PHE PHE A . n A 1 20 HIS 20 428 428 HIS HIS A . n A 1 21 ASP 21 429 429 ASP ASP A . n A 1 22 PRO 22 430 430 PRO PRO A . n A 1 23 TRP 23 431 431 TRP TRP A . n A 1 24 LYS 24 432 432 LYS LYS A . n A 1 25 LEU 25 433 433 LEU LEU A . n A 1 26 LEU 26 434 434 LEU LEU A . n A 1 27 ILE 27 435 435 ILE ILE A . n A 1 28 ALA 28 436 436 ALA ALA A . n A 1 29 THR 29 437 437 THR THR A . n A 1 30 ILE 30 438 438 ILE ILE A . n A 1 31 PHE 31 439 439 PHE PHE A . n A 1 32 LEU 32 440 440 LEU LEU A . n A 1 33 ASN 33 441 441 ASN ASN A . n A 1 34 ARG 34 442 442 ARG ARG A . n A 1 35 THR 35 443 443 THR THR A . n A 1 36 SER 36 444 444 SER SER A . n A 1 37 GLY 37 445 445 GLY GLY A . n A 1 38 LYS 38 446 446 LYS LYS A . n A 1 39 MET 39 447 447 MET MET A . n A 1 40 ALA 40 448 448 ALA ALA A . n A 1 41 ILE 41 449 449 ILE ILE A . n A 1 42 PRO 42 450 450 PRO PRO A . n A 1 43 VAL 43 451 451 VAL VAL A . n A 1 44 LEU 44 452 452 LEU LEU A . n A 1 45 TRP 45 453 453 TRP TRP A . n A 1 46 GLU 46 454 454 GLU GLU A . n A 1 47 PHE 47 455 455 PHE PHE A . n A 1 48 LEU 48 456 456 LEU LEU A . n A 1 49 GLU 49 457 457 GLU GLU A . n A 1 50 LYS 50 458 458 LYS LYS A . n A 1 51 TYR 51 459 459 TYR TYR A . n A 1 52 PRO 52 460 460 PRO PRO A . n A 1 53 SER 53 461 461 SER SER A . n A 1 54 ALA 54 462 462 ALA ALA A . n A 1 55 GLU 55 463 463 GLU GLU A . n A 1 56 VAL 56 464 464 VAL VAL A . n A 1 57 ALA 57 465 465 ALA ALA A . n A 1 58 ARG 58 466 466 ARG ARG A . n A 1 59 ALA 59 467 467 ALA ALA A . n A 1 60 ALA 60 468 468 ALA ALA A . n A 1 61 ASP 61 469 469 ASP ASP A . n A 1 62 TRP 62 470 470 TRP TRP A . n A 1 63 ARG 63 471 471 ARG ARG A . n A 1 64 ASP 64 472 472 ASP ASP A . n A 1 65 VAL 65 473 473 VAL VAL A . n A 1 66 SER 66 474 474 SER SER A . n A 1 67 GLU 67 475 475 GLU GLU A . n A 1 68 LEU 68 476 476 LEU LEU A . n A 1 69 LEU 69 477 477 LEU LEU A . n A 1 70 LYS 70 478 478 LYS LYS A . n A 1 71 PRO 71 479 479 PRO PRO A . n A 1 72 LEU 72 480 480 LEU LEU A . n A 1 73 GLY 73 481 481 GLY GLY A . n A 1 74 LEU 74 482 482 LEU LEU A . n A 1 75 TYR 75 483 483 TYR TYR A . n A 1 76 ASP 76 484 484 ASP ASP A . n A 1 77 LEU 77 485 485 LEU LEU A . n A 1 78 ARG 78 486 486 ARG ARG A . n A 1 79 ALA 79 487 487 ALA ALA A . n A 1 80 LYS 80 488 488 LYS LYS A . n A 1 81 THR 81 489 489 THR THR A . n A 1 82 ILE 82 490 490 ILE ILE A . n A 1 83 ILE 83 491 491 ILE ILE A . n A 1 84 LYS 84 492 492 LYS LYS A . n A 1 85 PHE 85 493 493 PHE PHE A . n A 1 86 SER 86 494 494 SER SER A . n A 1 87 ASP 87 495 495 ASP ASP A . n A 1 88 GLU 88 496 496 GLU GLU A . n A 1 89 TYR 89 497 497 TYR TYR A . n A 1 90 LEU 90 498 498 LEU LEU A . n A 1 91 THR 91 499 499 THR THR A . n A 1 92 LYS 92 500 500 LYS LYS A . n A 1 93 GLN 93 501 501 GLN GLN A . n A 1 94 TRP 94 502 502 TRP TRP A . n A 1 95 ARG 95 503 503 ARG ARG A . n A 1 96 TYR 96 504 504 TYR TYR A . n A 1 97 PRO 97 505 505 PRO PRO A . n A 1 98 ILE 98 506 506 ILE ILE A . n A 1 99 GLU 99 507 507 GLU GLU A . n A 1 100 LEU 100 508 508 LEU LEU A . n A 1 101 HIS 101 509 509 HIS HIS A . n A 1 102 GLY 102 510 510 GLY GLY A . n A 1 103 ILE 103 511 511 ILE ILE A . n A 1 104 GLY 104 512 512 GLY GLY A . n A 1 105 LYS 105 513 513 LYS LYS A . n A 1 106 TYR 106 514 514 TYR TYR A . n A 1 107 GLY 107 515 515 GLY GLY A . n A 1 108 ASN 108 516 516 ASN ASN A . n A 1 109 ASP 109 517 517 ASP ASP A . n A 1 110 SER 110 518 518 SER SER A . n A 1 111 TYR 111 519 519 TYR TYR A . n A 1 112 ARG 112 520 520 ARG ARG A . n A 1 113 ILE 113 521 521 ILE ILE A . n A 1 114 PHE 114 522 522 PHE PHE A . n A 1 115 CYS 115 523 523 CYS CYS A . n A 1 116 VAL 116 524 524 VAL VAL A . n A 1 117 ASN 117 525 525 ASN ASN A . n A 1 118 GLU 118 526 526 GLU GLU A . n A 1 119 TRP 119 527 527 TRP TRP A . n A 1 120 LYS 120 528 528 LYS LYS A . n A 1 121 GLN 121 529 529 GLN GLN A . n A 1 122 VAL 122 530 530 VAL VAL A . n A 1 123 HIS 123 531 531 HIS HIS A . n A 1 124 PRO 124 532 532 PRO PRO A . n A 1 125 GLU 125 533 533 GLU GLU A . n A 1 126 ASN 126 534 534 ASN ASN A . n A 1 127 HIS 127 535 535 HIS HIS A . n A 1 128 LYS 128 536 536 LYS LYS A . n A 1 129 LEU 129 537 537 LEU LEU A . n A 1 130 ASN 130 538 538 ASN ASN A . n A 1 131 LYS 131 539 539 LYS LYS A . n A 1 132 TYR 132 540 540 TYR TYR A . n A 1 133 HIS 133 541 541 HIS HIS A . n A 1 134 ASP 134 542 542 ASP ASP A . n A 1 135 TRP 135 543 543 TRP TRP A . n A 1 136 LEU 136 544 544 LEU LEU A . n A 1 137 TRP 137 545 545 TRP TRP A . n A 1 138 GLU 138 546 546 GLU GLU A . n A 1 139 ASN 139 547 547 ASN ASN A . n A 1 140 HIS 140 548 548 HIS HIS A . n A 1 141 GLU 141 549 549 GLU GLU A . n A 1 142 LYS 142 550 550 LYS LYS A . n A 1 143 LEU 143 551 551 LEU LEU A . n A 1 144 SER 144 552 552 SER SER A . n A 1 145 LEU 145 553 553 LEU LEU A . n A 1 146 SER 146 554 554 SER SER A . n B 2 1 DT 1 1 1 DT DT B . n B 2 2 DC 2 2 2 DC DC B . n B 2 3 DA 3 3 3 DA DA B . n B 2 4 DG 4 4 4 DG DG B . n B 2 5 DC 5 5 5 DC DC B . n B 2 6 DG 6 6 6 DG DG B . n B 2 7 DC 7 7 7 DC DC B . n B 2 8 DA 8 8 8 DA DA B . n B 2 9 DT 9 9 9 DT DT B . n B 2 10 DG 10 10 10 DG DG B . n B 2 11 DG 11 11 11 DG DG B . n C 3 1 DC 1 12 12 DC DC C . n C 3 2 DC 2 13 13 DC DC C . n C 3 3 DA 3 14 14 DA DA C . n C 3 4 DT 4 15 15 DT DT C . n C 3 5 DG 5 16 16 DG DG C . n C 3 6 5HU 6 17 17 5HU 5HU C . n C 3 7 DG 7 18 18 DG DG C . n C 3 8 DC 8 19 19 DC DC C . n C 3 9 DT 9 20 20 DT DT C . n C 3 10 DG 10 21 21 DG DG C . n C 3 11 DA 11 22 22 DA DA 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 D 4 EDO 1 601 1 EDO EDO A . E 4 EDO 1 602 2 EDO EDO A . F 4 EDO 1 603 3 EDO EDO A . G 5 NI 1 604 4 NI NI A . H 6 HOH 1 701 1 HOH HOH A . H 6 HOH 2 702 2 HOH HOH A . H 6 HOH 3 703 7 HOH HOH A . H 6 HOH 4 704 8 HOH HOH A . H 6 HOH 5 705 9 HOH HOH A . H 6 HOH 6 706 13 HOH HOH A . H 6 HOH 7 707 14 HOH HOH A . H 6 HOH 8 708 15 HOH HOH A . H 6 HOH 9 709 16 HOH HOH A . H 6 HOH 10 710 21 HOH HOH A . H 6 HOH 11 711 25 HOH HOH A . H 6 HOH 12 712 26 HOH HOH A . H 6 HOH 13 713 31 HOH HOH A . H 6 HOH 14 714 32 HOH HOH A . H 6 HOH 15 715 33 HOH HOH A . H 6 HOH 16 716 34 HOH HOH A . H 6 HOH 17 717 35 HOH HOH A . H 6 HOH 18 718 36 HOH HOH A . H 6 HOH 19 719 37 HOH HOH A . H 6 HOH 20 720 38 HOH HOH A . H 6 HOH 21 721 39 HOH HOH A . H 6 HOH 22 722 40 HOH HOH A . I 6 HOH 1 101 4 HOH HOH B . I 6 HOH 2 102 20 HOH HOH B . I 6 HOH 3 103 23 HOH HOH B . I 6 HOH 4 104 24 HOH HOH B . I 6 HOH 5 105 27 HOH HOH B . J 6 HOH 1 101 6 HOH HOH C . J 6 HOH 2 102 18 HOH HOH C . J 6 HOH 3 103 19 HOH HOH C . J 6 HOH 4 104 30 HOH HOH C . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id C _pdbx_struct_mod_residue.label_comp_id 5HU _pdbx_struct_mod_residue.label_seq_id 6 _pdbx_struct_mod_residue.auth_asym_id C _pdbx_struct_mod_residue.auth_comp_id 5HU _pdbx_struct_mod_residue.auth_seq_id 17 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DU _pdbx_struct_mod_residue.details ? # _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J # 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)' 4240 ? 1 MORE -15 ? 1 'SSA (A^2)' 9570 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 704 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id H _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id O _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id A _pdbx_struct_conn_angle.ptnr1_label_comp_id ILE _pdbx_struct_conn_angle.ptnr1_label_seq_id 98 _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id A _pdbx_struct_conn_angle.ptnr1_auth_comp_id ILE _pdbx_struct_conn_angle.ptnr1_auth_seq_id 506 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id NI _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id G _pdbx_struct_conn_angle.ptnr2_label_comp_id NI _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id A _pdbx_struct_conn_angle.ptnr2_auth_comp_id NI _pdbx_struct_conn_angle.ptnr2_auth_seq_id 604 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id OP1 _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id C _pdbx_struct_conn_angle.ptnr3_label_comp_id DT _pdbx_struct_conn_angle.ptnr3_label_seq_id 9 _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id C _pdbx_struct_conn_angle.ptnr3_auth_comp_id DT _pdbx_struct_conn_angle.ptnr3_auth_seq_id 20 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 1_555 _pdbx_struct_conn_angle.value 157.4 _pdbx_struct_conn_angle.value_esd ? # 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 2012-07-11 2 'Structure model' 1 1 2012-10-10 3 'Structure model' 1 2 2023-09-13 # _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' # 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_conn_angle 6 3 'Structure model' struct_conn 7 3 'Structure model' struct_ref_seq_dif 8 3 'Structure model' struct_site # 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' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 11 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 12 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 13 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 14 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 15 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 16 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 17 3 'Structure model' '_struct_conn.pdbx_dist_value' 18 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 19 3 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 20 3 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 21 3 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 22 3 'Structure model' '_struct_conn.ptnr1_label_asym_id' 23 3 'Structure model' '_struct_conn.ptnr1_label_atom_id' 24 3 'Structure model' '_struct_conn.ptnr1_label_comp_id' 25 3 'Structure model' '_struct_conn.ptnr1_label_seq_id' 26 3 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 27 3 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 28 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 29 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 30 3 'Structure model' '_struct_conn.ptnr2_label_atom_id' 31 3 'Structure model' '_struct_conn.ptnr2_label_comp_id' 32 3 'Structure model' '_struct_conn.ptnr2_label_seq_id' 33 3 'Structure model' '_struct_ref_seq_dif.details' 34 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 35 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 36 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 PHENIX 'model building' . ? 2 PHENIX refinement '(phenix.refine: 1.7.3_928)' ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 PHENIX phasing . ? 6 # _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 DA _pdbx_validate_rmsd_angle.auth_seq_id_1 22 _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 DA _pdbx_validate_rmsd_angle.auth_seq_id_2 22 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 N9 _pdbx_validate_rmsd_angle.auth_asym_id_3 C _pdbx_validate_rmsd_angle.auth_comp_id_3 DA _pdbx_validate_rmsd_angle.auth_seq_id_3 22 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 110.79 _pdbx_validate_rmsd_angle.angle_target_value 108.30 _pdbx_validate_rmsd_angle.angle_deviation 2.49 _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 LEU A 551 ? ? -95.13 -86.05 2 1 SER A 552 ? ? -168.44 -33.16 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A GLU 454 ? CG ? A GLU 46 CG 2 1 Y 1 A GLU 454 ? CD ? A GLU 46 CD 3 1 Y 1 A GLU 454 ? OE1 ? A GLU 46 OE1 4 1 Y 1 A GLU 454 ? OE2 ? A GLU 46 OE2 5 1 Y 1 A LYS 458 ? CG ? A LYS 50 CG 6 1 Y 1 A LYS 458 ? CD ? A LYS 50 CD 7 1 Y 1 A LYS 458 ? CE ? A LYS 50 CE 8 1 Y 1 A LYS 458 ? NZ ? A LYS 50 NZ 9 1 Y 1 A ARG 471 ? CG ? A ARG 63 CG 10 1 Y 1 A ARG 471 ? CD ? A ARG 63 CD 11 1 Y 1 A ARG 471 ? NE ? A ARG 63 NE 12 1 Y 1 A ARG 471 ? CZ ? A ARG 63 CZ 13 1 Y 1 A ARG 471 ? NH1 ? A ARG 63 NH1 14 1 Y 1 A ARG 471 ? NH2 ? A ARG 63 NH2 15 1 Y 1 A GLU 475 ? CG ? A GLU 67 CG 16 1 Y 1 A GLU 475 ? CD ? A GLU 67 CD 17 1 Y 1 A GLU 475 ? OE1 ? A GLU 67 OE1 18 1 Y 1 A GLU 475 ? OE2 ? A GLU 67 OE2 19 1 Y 1 A GLN 501 ? CG ? A GLN 93 CG 20 1 Y 1 A GLN 501 ? CD ? A GLN 93 CD 21 1 Y 1 A GLN 501 ? OE1 ? A GLN 93 OE1 22 1 Y 1 A GLN 501 ? NE2 ? A GLN 93 NE2 23 1 Y 1 A GLU 549 ? CG ? A GLU 141 CG 24 1 Y 1 A GLU 549 ? CD ? A GLU 141 CD 25 1 Y 1 A GLU 549 ? OE1 ? A GLU 141 OE1 26 1 Y 1 A GLU 549 ? OE2 ? A GLU 141 OE2 27 1 Y 1 A LYS 550 ? CG ? A LYS 142 CG 28 1 Y 1 A LYS 550 ? CD ? A LYS 142 CD 29 1 Y 1 A LYS 550 ? CE ? A LYS 142 CE 30 1 Y 1 A LYS 550 ? NZ ? A LYS 142 NZ 31 1 Y 1 C DC 12 ? "O5'" ? C DC 1 "O5'" 32 1 Y 1 C DC 12 ? "C5'" ? C DC 1 "C5'" # 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 HIS 409 ? A HIS 1 2 1 Y 1 A MET 410 ? A MET 2 3 1 Y 1 A LYS 411 ? A LYS 3 # 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 5HU P P N N 1 5HU OP1 O N N 2 5HU OP2 O N N 3 5HU OP3 O N N 4 5HU "O5'" O N N 5 5HU "C5'" C N N 6 5HU "C4'" C N R 7 5HU "O4'" O N N 8 5HU "C3'" C N S 9 5HU "O3'" O N N 10 5HU "C2'" C N N 11 5HU "C1'" C N R 12 5HU N1 N N N 13 5HU C2 C N N 14 5HU O2 O N N 15 5HU N3 N N N 16 5HU C4 C N N 17 5HU O4 O N N 18 5HU C5 C N N 19 5HU C5A C N N 20 5HU C6 C N N 21 5HU O5B O N N 22 5HU HO2P H N N 23 5HU HO3P H N N 24 5HU "H5'" H N N 25 5HU "H5''" H N N 26 5HU "HC4'" H N N 27 5HU "HC3'" H N N 28 5HU "HO3'" H N N 29 5HU "H2'" H N N 30 5HU "H2''" H N N 31 5HU "HC1'" H N N 32 5HU HN3 H N N 33 5HU H5A1 H N N 34 5HU H5A2 H N N 35 5HU HC6 H N N 36 5HU HO5B H N N 37 ALA N N N N 38 ALA CA C N S 39 ALA C C N N 40 ALA O O N N 41 ALA CB C N N 42 ALA OXT O N N 43 ALA H H N N 44 ALA H2 H N N 45 ALA HA H N N 46 ALA HB1 H N N 47 ALA HB2 H N N 48 ALA HB3 H N N 49 ALA HXT H N N 50 ARG N N N N 51 ARG CA C N S 52 ARG C C N N 53 ARG O O N N 54 ARG CB C N N 55 ARG CG C N N 56 ARG CD C N N 57 ARG NE N N N 58 ARG CZ C N N 59 ARG NH1 N N N 60 ARG NH2 N N N 61 ARG OXT O N N 62 ARG H H N N 63 ARG H2 H N N 64 ARG HA H N N 65 ARG HB2 H N N 66 ARG HB3 H N N 67 ARG HG2 H N N 68 ARG HG3 H N N 69 ARG HD2 H N N 70 ARG HD3 H N N 71 ARG HE H N N 72 ARG HH11 H N N 73 ARG HH12 H N N 74 ARG HH21 H N N 75 ARG HH22 H N N 76 ARG HXT H N N 77 ASN N N N N 78 ASN CA C N S 79 ASN C C N N 80 ASN O O N N 81 ASN CB C N N 82 ASN CG C N N 83 ASN OD1 O N N 84 ASN ND2 N N N 85 ASN OXT O N N 86 ASN H H N N 87 ASN H2 H N N 88 ASN HA H N N 89 ASN HB2 H N N 90 ASN HB3 H N N 91 ASN HD21 H N N 92 ASN HD22 H N N 93 ASN HXT H N N 94 ASP N N N N 95 ASP CA C N S 96 ASP C C N N 97 ASP O O N N 98 ASP CB C N N 99 ASP CG C N N 100 ASP OD1 O N N 101 ASP OD2 O N N 102 ASP OXT O N N 103 ASP H H N N 104 ASP H2 H N N 105 ASP HA H N N 106 ASP HB2 H N N 107 ASP HB3 H N N 108 ASP HD2 H N N 109 ASP HXT H N N 110 CYS N N N N 111 CYS CA C N R 112 CYS C C N N 113 CYS O O N N 114 CYS CB C N N 115 CYS SG S N N 116 CYS OXT O N N 117 CYS H H N N 118 CYS H2 H N N 119 CYS HA H N N 120 CYS HB2 H N N 121 CYS HB3 H N N 122 CYS HG H N N 123 CYS HXT H N N 124 DA OP3 O N N 125 DA P P N N 126 DA OP1 O N N 127 DA OP2 O N N 128 DA "O5'" O N N 129 DA "C5'" C N N 130 DA "C4'" C N R 131 DA "O4'" O N N 132 DA "C3'" C N S 133 DA "O3'" O N N 134 DA "C2'" C N N 135 DA "C1'" C N R 136 DA N9 N Y N 137 DA C8 C Y N 138 DA N7 N Y N 139 DA C5 C Y N 140 DA C6 C Y N 141 DA N6 N N N 142 DA N1 N Y N 143 DA C2 C Y N 144 DA N3 N Y N 145 DA C4 C Y N 146 DA HOP3 H N N 147 DA HOP2 H N N 148 DA "H5'" H N N 149 DA "H5''" H N N 150 DA "H4'" H N N 151 DA "H3'" H N N 152 DA "HO3'" H N N 153 DA "H2'" H N N 154 DA "H2''" H N N 155 DA "H1'" H N N 156 DA H8 H N N 157 DA H61 H N N 158 DA H62 H N N 159 DA H2 H N N 160 DC OP3 O N N 161 DC P P N N 162 DC OP1 O N N 163 DC OP2 O N N 164 DC "O5'" O N N 165 DC "C5'" C N N 166 DC "C4'" C N R 167 DC "O4'" O N N 168 DC "C3'" C N S 169 DC "O3'" O N N 170 DC "C2'" C N N 171 DC "C1'" C N R 172 DC N1 N N N 173 DC C2 C N N 174 DC O2 O N N 175 DC N3 N N N 176 DC C4 C N N 177 DC N4 N N N 178 DC C5 C N N 179 DC C6 C N N 180 DC HOP3 H N N 181 DC HOP2 H N N 182 DC "H5'" H N N 183 DC "H5''" H N N 184 DC "H4'" H N N 185 DC "H3'" H N N 186 DC "HO3'" H N N 187 DC "H2'" H N N 188 DC "H2''" H N N 189 DC "H1'" H N N 190 DC H41 H N N 191 DC H42 H N N 192 DC H5 H N N 193 DC H6 H N N 194 DG OP3 O N N 195 DG P P N N 196 DG OP1 O N N 197 DG OP2 O N N 198 DG "O5'" O N N 199 DG "C5'" C N N 200 DG "C4'" C N R 201 DG "O4'" O N N 202 DG "C3'" C N S 203 DG "O3'" O N N 204 DG "C2'" C N N 205 DG "C1'" C N R 206 DG N9 N Y N 207 DG C8 C Y N 208 DG N7 N Y N 209 DG C5 C Y N 210 DG C6 C N N 211 DG O6 O N N 212 DG N1 N N N 213 DG C2 C N N 214 DG N2 N N N 215 DG N3 N N N 216 DG C4 C Y N 217 DG HOP3 H N N 218 DG HOP2 H N N 219 DG "H5'" H N N 220 DG "H5''" H N N 221 DG "H4'" H N N 222 DG "H3'" H N N 223 DG "HO3'" H N N 224 DG "H2'" H N N 225 DG "H2''" H N N 226 DG "H1'" H N N 227 DG H8 H N N 228 DG H1 H N N 229 DG H21 H N N 230 DG H22 H N N 231 DT OP3 O N N 232 DT P P N N 233 DT OP1 O N N 234 DT OP2 O N N 235 DT "O5'" O N N 236 DT "C5'" C N N 237 DT "C4'" C N R 238 DT "O4'" O N N 239 DT "C3'" C N S 240 DT "O3'" O N N 241 DT "C2'" C N N 242 DT "C1'" C N R 243 DT N1 N N N 244 DT C2 C N N 245 DT O2 O N N 246 DT N3 N N N 247 DT C4 C N N 248 DT O4 O N N 249 DT C5 C N N 250 DT C7 C N N 251 DT C6 C N N 252 DT HOP3 H N N 253 DT HOP2 H N N 254 DT "H5'" H N N 255 DT "H5''" H N N 256 DT "H4'" H N N 257 DT "H3'" H N N 258 DT "HO3'" H N N 259 DT "H2'" H N N 260 DT "H2''" H N N 261 DT "H1'" H N N 262 DT H3 H N N 263 DT H71 H N N 264 DT H72 H N N 265 DT H73 H N N 266 DT H6 H N N 267 EDO C1 C N N 268 EDO O1 O N N 269 EDO C2 C N N 270 EDO O2 O N N 271 EDO H11 H N N 272 EDO H12 H N N 273 EDO HO1 H N N 274 EDO H21 H N N 275 EDO H22 H N N 276 EDO HO2 H N N 277 GLN N N N N 278 GLN CA C N S 279 GLN C C N N 280 GLN O O N N 281 GLN CB C N N 282 GLN CG C N N 283 GLN CD C N N 284 GLN OE1 O N N 285 GLN NE2 N N N 286 GLN OXT O N N 287 GLN H H N N 288 GLN H2 H N N 289 GLN HA H N N 290 GLN HB2 H N N 291 GLN HB3 H N N 292 GLN HG2 H N N 293 GLN HG3 H N N 294 GLN HE21 H N N 295 GLN HE22 H N N 296 GLN HXT H N N 297 GLU N N N N 298 GLU CA C N S 299 GLU C C N N 300 GLU O O N N 301 GLU CB C N N 302 GLU CG C N N 303 GLU CD C N N 304 GLU OE1 O N N 305 GLU OE2 O N N 306 GLU OXT O N N 307 GLU H H N N 308 GLU H2 H N N 309 GLU HA H N N 310 GLU HB2 H N N 311 GLU HB3 H N N 312 GLU HG2 H N N 313 GLU HG3 H N N 314 GLU HE2 H N N 315 GLU HXT H N N 316 GLY N N N N 317 GLY CA C N N 318 GLY C C N N 319 GLY O O N N 320 GLY OXT O N N 321 GLY H H N N 322 GLY H2 H N N 323 GLY HA2 H N N 324 GLY HA3 H N N 325 GLY HXT H N N 326 HIS N N N N 327 HIS CA C N S 328 HIS C C N N 329 HIS O O N N 330 HIS CB C N N 331 HIS CG C Y N 332 HIS ND1 N Y N 333 HIS CD2 C Y N 334 HIS CE1 C Y N 335 HIS NE2 N Y N 336 HIS OXT O N N 337 HIS H H N N 338 HIS H2 H N N 339 HIS HA H N N 340 HIS HB2 H N N 341 HIS HB3 H N N 342 HIS HD1 H N N 343 HIS HD2 H N N 344 HIS HE1 H N N 345 HIS HE2 H N N 346 HIS HXT H N N 347 HOH O O N N 348 HOH H1 H N N 349 HOH H2 H N N 350 ILE N N N N 351 ILE CA C N S 352 ILE C C N N 353 ILE O O N N 354 ILE CB C N S 355 ILE CG1 C N N 356 ILE CG2 C N N 357 ILE CD1 C N N 358 ILE OXT O N N 359 ILE H H N N 360 ILE H2 H N N 361 ILE HA H N N 362 ILE HB H N N 363 ILE HG12 H N N 364 ILE HG13 H N N 365 ILE HG21 H N N 366 ILE HG22 H N N 367 ILE HG23 H N N 368 ILE HD11 H N N 369 ILE HD12 H N N 370 ILE HD13 H N N 371 ILE HXT H N N 372 LEU N N N N 373 LEU CA C N S 374 LEU C C N N 375 LEU O O N N 376 LEU CB C N N 377 LEU CG C N N 378 LEU CD1 C N N 379 LEU CD2 C N N 380 LEU OXT O N N 381 LEU H H N N 382 LEU H2 H N N 383 LEU HA H N N 384 LEU HB2 H N N 385 LEU HB3 H N N 386 LEU HG H N N 387 LEU HD11 H N N 388 LEU HD12 H N N 389 LEU HD13 H N N 390 LEU HD21 H N N 391 LEU HD22 H N N 392 LEU HD23 H N N 393 LEU HXT H N N 394 LYS N N N N 395 LYS CA C N S 396 LYS C C N N 397 LYS O O N N 398 LYS CB C N N 399 LYS CG C N N 400 LYS CD C N N 401 LYS CE C N N 402 LYS NZ N N N 403 LYS OXT O N N 404 LYS H H N N 405 LYS H2 H N N 406 LYS HA H N N 407 LYS HB2 H N N 408 LYS HB3 H N N 409 LYS HG2 H N N 410 LYS HG3 H N N 411 LYS HD2 H N N 412 LYS HD3 H N N 413 LYS HE2 H N N 414 LYS HE3 H N N 415 LYS HZ1 H N N 416 LYS HZ2 H N N 417 LYS HZ3 H N N 418 LYS HXT H N N 419 MET N N N N 420 MET CA C N S 421 MET C C N N 422 MET O O N N 423 MET CB C N N 424 MET CG C N N 425 MET SD S N N 426 MET CE C N N 427 MET OXT O N N 428 MET H H N N 429 MET H2 H N N 430 MET HA H N N 431 MET HB2 H N N 432 MET HB3 H N N 433 MET HG2 H N N 434 MET HG3 H N N 435 MET HE1 H N N 436 MET HE2 H N N 437 MET HE3 H N N 438 MET HXT H N N 439 NI NI NI N N 440 PHE N N N N 441 PHE CA C N S 442 PHE C C N N 443 PHE O O N N 444 PHE CB C N N 445 PHE CG C Y N 446 PHE CD1 C Y N 447 PHE CD2 C Y N 448 PHE CE1 C Y N 449 PHE CE2 C Y N 450 PHE CZ C Y N 451 PHE OXT O N N 452 PHE H H N N 453 PHE H2 H N N 454 PHE HA H N N 455 PHE HB2 H N N 456 PHE HB3 H N N 457 PHE HD1 H N N 458 PHE HD2 H N N 459 PHE HE1 H N N 460 PHE HE2 H N N 461 PHE HZ H N N 462 PHE HXT H N N 463 PRO N N N N 464 PRO CA C N S 465 PRO C C N N 466 PRO O O N N 467 PRO CB C N N 468 PRO CG C N N 469 PRO CD C N N 470 PRO OXT O N N 471 PRO H H N N 472 PRO HA H N N 473 PRO HB2 H N N 474 PRO HB3 H N N 475 PRO HG2 H N N 476 PRO HG3 H N N 477 PRO HD2 H N N 478 PRO HD3 H N N 479 PRO HXT H N N 480 SER N N N N 481 SER CA C N S 482 SER C C N N 483 SER O O N N 484 SER CB C N N 485 SER OG O N N 486 SER OXT O N N 487 SER H H N N 488 SER H2 H N N 489 SER HA H N N 490 SER HB2 H N N 491 SER HB3 H N N 492 SER HG H N N 493 SER HXT H N N 494 THR N N N N 495 THR CA C N S 496 THR C C N N 497 THR O O N N 498 THR CB C N R 499 THR OG1 O N N 500 THR CG2 C N N 501 THR OXT O N N 502 THR H H N N 503 THR H2 H N N 504 THR HA H N N 505 THR HB H N N 506 THR HG1 H N N 507 THR HG21 H N N 508 THR HG22 H N N 509 THR HG23 H N N 510 THR HXT H N N 511 TRP N N N N 512 TRP CA C N S 513 TRP C C N N 514 TRP O O N N 515 TRP CB C N N 516 TRP CG C Y N 517 TRP CD1 C Y N 518 TRP CD2 C Y N 519 TRP NE1 N Y N 520 TRP CE2 C Y N 521 TRP CE3 C Y N 522 TRP CZ2 C Y N 523 TRP CZ3 C Y N 524 TRP CH2 C Y N 525 TRP OXT O N N 526 TRP H H N N 527 TRP H2 H N N 528 TRP HA H N N 529 TRP HB2 H N N 530 TRP HB3 H N N 531 TRP HD1 H N N 532 TRP HE1 H N N 533 TRP HE3 H N N 534 TRP HZ2 H N N 535 TRP HZ3 H N N 536 TRP HH2 H N N 537 TRP HXT H N N 538 TYR N N N N 539 TYR CA C N S 540 TYR C C N N 541 TYR O O N N 542 TYR CB C N N 543 TYR CG C Y N 544 TYR CD1 C Y N 545 TYR CD2 C Y N 546 TYR CE1 C Y N 547 TYR CE2 C Y N 548 TYR CZ C Y N 549 TYR OH O N N 550 TYR OXT O N N 551 TYR H H N N 552 TYR H2 H N N 553 TYR HA H N N 554 TYR HB2 H N N 555 TYR HB3 H N N 556 TYR HD1 H N N 557 TYR HD2 H N N 558 TYR HE1 H N N 559 TYR HE2 H N N 560 TYR HH H N N 561 TYR HXT H N N 562 VAL N N N N 563 VAL CA C N S 564 VAL C C N N 565 VAL O O N N 566 VAL CB C N N 567 VAL CG1 C N N 568 VAL CG2 C N N 569 VAL OXT O N N 570 VAL H H N N 571 VAL H2 H N N 572 VAL HA H N N 573 VAL HB H N N 574 VAL HG11 H N N 575 VAL HG12 H N N 576 VAL HG13 H N N 577 VAL HG21 H N N 578 VAL HG22 H N N 579 VAL HG23 H N N 580 VAL HXT H N N 581 # 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 5HU P OP1 doub N N 1 5HU P OP2 sing N N 2 5HU P OP3 sing N N 3 5HU P "O5'" sing N N 4 5HU OP2 HO2P sing N N 5 5HU OP3 HO3P sing N N 6 5HU "O5'" "C5'" sing N N 7 5HU "C5'" "C4'" sing N N 8 5HU "C5'" "H5'" sing N N 9 5HU "C5'" "H5''" sing N N 10 5HU "C4'" "O4'" sing N N 11 5HU "C4'" "C3'" sing N N 12 5HU "C4'" "HC4'" sing N N 13 5HU "O4'" "C1'" sing N N 14 5HU "C3'" "O3'" sing N N 15 5HU "C3'" "C2'" sing N N 16 5HU "C3'" "HC3'" sing N N 17 5HU "O3'" "HO3'" sing N N 18 5HU "C2'" "C1'" sing N N 19 5HU "C2'" "H2'" sing N N 20 5HU "C2'" "H2''" sing N N 21 5HU "C1'" N1 sing N N 22 5HU "C1'" "HC1'" sing N N 23 5HU N1 C2 sing N N 24 5HU N1 C6 sing N N 25 5HU C2 O2 doub N N 26 5HU C2 N3 sing N N 27 5HU N3 C4 sing N N 28 5HU N3 HN3 sing N N 29 5HU C4 O4 doub N N 30 5HU C4 C5 sing N N 31 5HU C5 C5A sing N N 32 5HU C5 C6 doub N N 33 5HU C5A O5B sing N N 34 5HU C5A H5A1 sing N N 35 5HU C5A H5A2 sing N N 36 5HU C6 HC6 sing N N 37 5HU O5B HO5B sing N N 38 ALA N CA sing N N 39 ALA N H sing N N 40 ALA N H2 sing N N 41 ALA CA C sing N N 42 ALA CA CB sing N N 43 ALA CA HA sing N N 44 ALA C O doub N N 45 ALA C OXT sing N N 46 ALA CB HB1 sing N N 47 ALA CB HB2 sing N N 48 ALA CB HB3 sing N N 49 ALA OXT HXT sing N N 50 ARG N CA sing N N 51 ARG N H sing N N 52 ARG N H2 sing N N 53 ARG CA C sing N N 54 ARG CA CB sing N N 55 ARG CA HA sing N N 56 ARG C O doub N N 57 ARG C OXT sing N N 58 ARG CB CG sing N N 59 ARG CB HB2 sing N N 60 ARG CB HB3 sing N N 61 ARG CG CD sing N N 62 ARG CG HG2 sing N N 63 ARG CG HG3 sing N N 64 ARG CD NE sing N N 65 ARG CD HD2 sing N N 66 ARG CD HD3 sing N N 67 ARG NE CZ sing N N 68 ARG NE HE sing N N 69 ARG CZ NH1 sing N N 70 ARG CZ NH2 doub N N 71 ARG NH1 HH11 sing N N 72 ARG NH1 HH12 sing N N 73 ARG NH2 HH21 sing N N 74 ARG NH2 HH22 sing N N 75 ARG OXT HXT sing N N 76 ASN N CA sing N N 77 ASN N H sing N N 78 ASN N H2 sing N N 79 ASN CA C sing N N 80 ASN CA CB sing N N 81 ASN CA HA sing N N 82 ASN C O doub N N 83 ASN C OXT sing N N 84 ASN CB CG sing N N 85 ASN CB HB2 sing N N 86 ASN CB HB3 sing N N 87 ASN CG OD1 doub N N 88 ASN CG ND2 sing N N 89 ASN ND2 HD21 sing N N 90 ASN ND2 HD22 sing N N 91 ASN OXT HXT sing N N 92 ASP N CA sing N N 93 ASP N H sing N N 94 ASP N H2 sing N N 95 ASP CA C sing N N 96 ASP CA CB sing N N 97 ASP CA HA sing N N 98 ASP C O doub N N 99 ASP C OXT sing N N 100 ASP CB CG sing N N 101 ASP CB HB2 sing N N 102 ASP CB HB3 sing N N 103 ASP CG OD1 doub N N 104 ASP CG OD2 sing N N 105 ASP OD2 HD2 sing N N 106 ASP OXT HXT sing N N 107 CYS N CA sing N N 108 CYS N H sing N N 109 CYS N H2 sing N N 110 CYS CA C sing N N 111 CYS CA CB sing N N 112 CYS CA HA sing N N 113 CYS C O doub N N 114 CYS C OXT sing N N 115 CYS CB SG sing N N 116 CYS CB HB2 sing N N 117 CYS CB HB3 sing N N 118 CYS SG HG sing N N 119 CYS OXT HXT sing N N 120 DA OP3 P sing N N 121 DA OP3 HOP3 sing N N 122 DA P OP1 doub N N 123 DA P OP2 sing N N 124 DA P "O5'" sing N N 125 DA OP2 HOP2 sing N N 126 DA "O5'" "C5'" sing N N 127 DA "C5'" "C4'" sing N N 128 DA "C5'" "H5'" sing N N 129 DA "C5'" "H5''" sing N N 130 DA "C4'" "O4'" sing N N 131 DA "C4'" "C3'" sing N N 132 DA "C4'" "H4'" sing N N 133 DA "O4'" "C1'" sing N N 134 DA "C3'" "O3'" sing N N 135 DA "C3'" "C2'" sing N N 136 DA "C3'" "H3'" sing N N 137 DA "O3'" "HO3'" sing N N 138 DA "C2'" "C1'" sing N N 139 DA "C2'" "H2'" sing N N 140 DA "C2'" "H2''" sing N N 141 DA "C1'" N9 sing N N 142 DA "C1'" "H1'" sing N N 143 DA N9 C8 sing Y N 144 DA N9 C4 sing Y N 145 DA C8 N7 doub Y N 146 DA C8 H8 sing N N 147 DA N7 C5 sing Y N 148 DA C5 C6 sing Y N 149 DA C5 C4 doub Y N 150 DA C6 N6 sing N N 151 DA C6 N1 doub Y N 152 DA N6 H61 sing N N 153 DA N6 H62 sing N N 154 DA N1 C2 sing Y N 155 DA C2 N3 doub Y N 156 DA C2 H2 sing N N 157 DA N3 C4 sing Y N 158 DC OP3 P sing N N 159 DC OP3 HOP3 sing N N 160 DC P OP1 doub N N 161 DC P OP2 sing N N 162 DC P "O5'" sing N N 163 DC OP2 HOP2 sing N N 164 DC "O5'" "C5'" sing N N 165 DC "C5'" "C4'" sing N N 166 DC "C5'" "H5'" sing N N 167 DC "C5'" "H5''" sing N N 168 DC "C4'" "O4'" sing N N 169 DC "C4'" "C3'" sing N N 170 DC "C4'" "H4'" sing N N 171 DC "O4'" "C1'" sing N N 172 DC "C3'" "O3'" sing N N 173 DC "C3'" "C2'" sing N N 174 DC "C3'" "H3'" sing N N 175 DC "O3'" "HO3'" sing N N 176 DC "C2'" "C1'" sing N N 177 DC "C2'" "H2'" sing N N 178 DC "C2'" "H2''" sing N N 179 DC "C1'" N1 sing N N 180 DC "C1'" "H1'" sing N N 181 DC N1 C2 sing N N 182 DC N1 C6 sing N N 183 DC C2 O2 doub N N 184 DC C2 N3 sing N N 185 DC N3 C4 doub N N 186 DC C4 N4 sing N N 187 DC C4 C5 sing N N 188 DC N4 H41 sing N N 189 DC N4 H42 sing N N 190 DC C5 C6 doub N N 191 DC C5 H5 sing N N 192 DC C6 H6 sing N N 193 DG OP3 P sing N N 194 DG OP3 HOP3 sing N N 195 DG P OP1 doub N N 196 DG P OP2 sing N N 197 DG P "O5'" sing N N 198 DG OP2 HOP2 sing N N 199 DG "O5'" "C5'" sing N N 200 DG "C5'" "C4'" sing N N 201 DG "C5'" "H5'" sing N N 202 DG "C5'" "H5''" sing N N 203 DG "C4'" "O4'" sing N N 204 DG "C4'" "C3'" sing N N 205 DG "C4'" "H4'" sing N N 206 DG "O4'" "C1'" sing N N 207 DG "C3'" "O3'" sing N N 208 DG "C3'" "C2'" sing N N 209 DG "C3'" "H3'" sing N N 210 DG "O3'" "HO3'" sing N N 211 DG "C2'" "C1'" sing N N 212 DG "C2'" "H2'" sing N N 213 DG "C2'" "H2''" sing N N 214 DG "C1'" N9 sing N N 215 DG "C1'" "H1'" sing N N 216 DG N9 C8 sing Y N 217 DG N9 C4 sing Y N 218 DG C8 N7 doub Y N 219 DG C8 H8 sing N N 220 DG N7 C5 sing Y N 221 DG C5 C6 sing N N 222 DG C5 C4 doub Y N 223 DG C6 O6 doub N N 224 DG C6 N1 sing N N 225 DG N1 C2 sing N N 226 DG N1 H1 sing N N 227 DG C2 N2 sing N N 228 DG C2 N3 doub N N 229 DG N2 H21 sing N N 230 DG N2 H22 sing N N 231 DG N3 C4 sing N N 232 DT OP3 P sing N N 233 DT OP3 HOP3 sing N N 234 DT P OP1 doub N N 235 DT P OP2 sing N N 236 DT P "O5'" sing N N 237 DT OP2 HOP2 sing N N 238 DT "O5'" "C5'" sing N N 239 DT "C5'" "C4'" sing N N 240 DT "C5'" "H5'" sing N N 241 DT "C5'" "H5''" sing N N 242 DT "C4'" "O4'" sing N N 243 DT "C4'" "C3'" sing N N 244 DT "C4'" "H4'" sing N N 245 DT "O4'" "C1'" sing N N 246 DT "C3'" "O3'" sing N N 247 DT "C3'" "C2'" sing N N 248 DT "C3'" "H3'" sing N N 249 DT "O3'" "HO3'" sing N N 250 DT "C2'" "C1'" sing N N 251 DT "C2'" "H2'" sing N N 252 DT "C2'" "H2''" sing N N 253 DT "C1'" N1 sing N N 254 DT "C1'" "H1'" sing N N 255 DT N1 C2 sing N N 256 DT N1 C6 sing N N 257 DT C2 O2 doub N N 258 DT C2 N3 sing N N 259 DT N3 C4 sing N N 260 DT N3 H3 sing N N 261 DT C4 O4 doub N N 262 DT C4 C5 sing N N 263 DT C5 C7 sing N N 264 DT C5 C6 doub N N 265 DT C7 H71 sing N N 266 DT C7 H72 sing N N 267 DT C7 H73 sing N N 268 DT C6 H6 sing N N 269 EDO C1 O1 sing N N 270 EDO C1 C2 sing N N 271 EDO C1 H11 sing N N 272 EDO C1 H12 sing N N 273 EDO O1 HO1 sing N N 274 EDO C2 O2 sing N N 275 EDO C2 H21 sing N N 276 EDO C2 H22 sing N N 277 EDO O2 HO2 sing N N 278 GLN N CA sing N N 279 GLN N H sing N N 280 GLN N H2 sing N N 281 GLN CA C sing N N 282 GLN CA CB sing N N 283 GLN CA HA sing N N 284 GLN C O doub N N 285 GLN C OXT sing N N 286 GLN CB CG sing N N 287 GLN CB HB2 sing N N 288 GLN CB HB3 sing N N 289 GLN CG CD sing N N 290 GLN CG HG2 sing N N 291 GLN CG HG3 sing N N 292 GLN CD OE1 doub N N 293 GLN CD NE2 sing N N 294 GLN NE2 HE21 sing N N 295 GLN NE2 HE22 sing N N 296 GLN OXT HXT sing N N 297 GLU N CA sing N N 298 GLU N H sing N N 299 GLU N H2 sing N N 300 GLU CA C sing N N 301 GLU CA CB sing N N 302 GLU CA HA sing N N 303 GLU C O doub N N 304 GLU C OXT sing N N 305 GLU CB CG sing N N 306 GLU CB HB2 sing N N 307 GLU CB HB3 sing N N 308 GLU CG CD sing N N 309 GLU CG HG2 sing N N 310 GLU CG HG3 sing N N 311 GLU CD OE1 doub N N 312 GLU CD OE2 sing N N 313 GLU OE2 HE2 sing N N 314 GLU OXT HXT sing N N 315 GLY N CA sing N N 316 GLY N H sing N N 317 GLY N H2 sing N N 318 GLY CA C sing N N 319 GLY CA HA2 sing N N 320 GLY CA HA3 sing N N 321 GLY C O doub N N 322 GLY C OXT sing N N 323 GLY OXT HXT sing N N 324 HIS N CA sing N N 325 HIS N H sing N N 326 HIS N H2 sing N N 327 HIS CA C sing N N 328 HIS CA CB sing N N 329 HIS CA HA sing N N 330 HIS C O doub N N 331 HIS C OXT sing N N 332 HIS CB CG sing N N 333 HIS CB HB2 sing N N 334 HIS CB HB3 sing N N 335 HIS CG ND1 sing Y N 336 HIS CG CD2 doub Y N 337 HIS ND1 CE1 doub Y N 338 HIS ND1 HD1 sing N N 339 HIS CD2 NE2 sing Y N 340 HIS CD2 HD2 sing N N 341 HIS CE1 NE2 sing Y N 342 HIS CE1 HE1 sing N N 343 HIS NE2 HE2 sing N N 344 HIS OXT HXT sing N N 345 HOH O H1 sing N N 346 HOH O H2 sing N N 347 ILE N CA sing N N 348 ILE N H sing N N 349 ILE N H2 sing N N 350 ILE CA C sing N N 351 ILE CA CB sing N N 352 ILE CA HA sing N N 353 ILE C O doub N N 354 ILE C OXT sing N N 355 ILE CB CG1 sing N N 356 ILE CB CG2 sing N N 357 ILE CB HB sing N N 358 ILE CG1 CD1 sing N N 359 ILE CG1 HG12 sing N N 360 ILE CG1 HG13 sing N N 361 ILE CG2 HG21 sing N N 362 ILE CG2 HG22 sing N N 363 ILE CG2 HG23 sing N N 364 ILE CD1 HD11 sing N N 365 ILE CD1 HD12 sing N N 366 ILE CD1 HD13 sing N N 367 ILE OXT HXT sing N N 368 LEU N CA sing N N 369 LEU N H sing N N 370 LEU N H2 sing N N 371 LEU CA C sing N N 372 LEU CA CB sing N N 373 LEU CA HA sing N N 374 LEU C O doub N N 375 LEU C OXT sing N N 376 LEU CB CG sing N N 377 LEU CB HB2 sing N N 378 LEU CB HB3 sing N N 379 LEU CG CD1 sing N N 380 LEU CG CD2 sing N N 381 LEU CG HG sing N N 382 LEU CD1 HD11 sing N N 383 LEU CD1 HD12 sing N N 384 LEU CD1 HD13 sing N N 385 LEU CD2 HD21 sing N N 386 LEU CD2 HD22 sing N N 387 LEU CD2 HD23 sing N N 388 LEU OXT HXT sing N N 389 LYS N CA sing N N 390 LYS N H sing N N 391 LYS N H2 sing N N 392 LYS CA C sing N N 393 LYS CA CB sing N N 394 LYS CA HA sing N N 395 LYS C O doub N N 396 LYS C OXT sing N N 397 LYS CB CG sing N N 398 LYS CB HB2 sing N N 399 LYS CB HB3 sing N N 400 LYS CG CD sing N N 401 LYS CG HG2 sing N N 402 LYS CG HG3 sing N N 403 LYS CD CE sing N N 404 LYS CD HD2 sing N N 405 LYS CD HD3 sing N N 406 LYS CE NZ sing N N 407 LYS CE HE2 sing N N 408 LYS CE HE3 sing N N 409 LYS NZ HZ1 sing N N 410 LYS NZ HZ2 sing N N 411 LYS NZ HZ3 sing N N 412 LYS OXT HXT sing N N 413 MET N CA sing N N 414 MET N H sing N N 415 MET N H2 sing N N 416 MET CA C sing N N 417 MET CA CB sing N N 418 MET CA HA sing N N 419 MET C O doub N N 420 MET C OXT sing N N 421 MET CB CG sing N N 422 MET CB HB2 sing N N 423 MET CB HB3 sing N N 424 MET CG SD sing N N 425 MET CG HG2 sing N N 426 MET CG HG3 sing N N 427 MET SD CE sing N N 428 MET CE HE1 sing N N 429 MET CE HE2 sing N N 430 MET CE HE3 sing N N 431 MET OXT HXT sing N N 432 PHE N CA sing N N 433 PHE N H sing N N 434 PHE N H2 sing N N 435 PHE CA C sing N N 436 PHE CA CB sing N N 437 PHE CA HA sing N N 438 PHE C O doub N N 439 PHE C OXT sing N N 440 PHE CB CG sing N N 441 PHE CB HB2 sing N N 442 PHE CB HB3 sing N N 443 PHE CG CD1 doub Y N 444 PHE CG CD2 sing Y N 445 PHE CD1 CE1 sing Y N 446 PHE CD1 HD1 sing N N 447 PHE CD2 CE2 doub Y N 448 PHE CD2 HD2 sing N N 449 PHE CE1 CZ doub Y N 450 PHE CE1 HE1 sing N N 451 PHE CE2 CZ sing Y N 452 PHE CE2 HE2 sing N N 453 PHE CZ HZ sing N N 454 PHE OXT HXT sing N N 455 PRO N CA sing N N 456 PRO N CD sing N N 457 PRO N H sing N N 458 PRO CA C sing N N 459 PRO CA CB sing N N 460 PRO CA HA sing N N 461 PRO C O doub N N 462 PRO C OXT sing N N 463 PRO CB CG sing N N 464 PRO CB HB2 sing N N 465 PRO CB HB3 sing N N 466 PRO CG CD sing N N 467 PRO CG HG2 sing N N 468 PRO CG HG3 sing N N 469 PRO CD HD2 sing N N 470 PRO CD HD3 sing N N 471 PRO OXT HXT sing N N 472 SER N CA sing N N 473 SER N H sing N N 474 SER N H2 sing N N 475 SER CA C sing N N 476 SER CA CB sing N N 477 SER CA HA sing N N 478 SER C O doub N N 479 SER C OXT sing N N 480 SER CB OG sing N N 481 SER CB HB2 sing N N 482 SER CB HB3 sing N N 483 SER OG HG sing N N 484 SER OXT HXT sing N N 485 THR N CA sing N N 486 THR N H sing N N 487 THR N H2 sing N N 488 THR CA C sing N N 489 THR CA CB sing N N 490 THR CA HA sing N N 491 THR C O doub N N 492 THR C OXT sing N N 493 THR CB OG1 sing N N 494 THR CB CG2 sing N N 495 THR CB HB sing N N 496 THR OG1 HG1 sing N N 497 THR CG2 HG21 sing N N 498 THR CG2 HG22 sing N N 499 THR CG2 HG23 sing N N 500 THR OXT HXT sing N N 501 TRP N CA sing N N 502 TRP N H sing N N 503 TRP N H2 sing N N 504 TRP CA C sing N N 505 TRP CA CB sing N N 506 TRP CA HA sing N N 507 TRP C O doub N N 508 TRP C OXT sing N N 509 TRP CB CG sing N N 510 TRP CB HB2 sing N N 511 TRP CB HB3 sing N N 512 TRP CG CD1 doub Y N 513 TRP CG CD2 sing Y N 514 TRP CD1 NE1 sing Y N 515 TRP CD1 HD1 sing N N 516 TRP CD2 CE2 doub Y N 517 TRP CD2 CE3 sing Y N 518 TRP NE1 CE2 sing Y N 519 TRP NE1 HE1 sing N N 520 TRP CE2 CZ2 sing Y N 521 TRP CE3 CZ3 doub Y N 522 TRP CE3 HE3 sing N N 523 TRP CZ2 CH2 doub Y N 524 TRP CZ2 HZ2 sing N N 525 TRP CZ3 CH2 sing Y N 526 TRP CZ3 HZ3 sing N N 527 TRP CH2 HH2 sing N N 528 TRP OXT HXT sing N N 529 TYR N CA sing N N 530 TYR N H sing N N 531 TYR N H2 sing N N 532 TYR CA C sing N N 533 TYR CA CB sing N N 534 TYR CA HA sing N N 535 TYR C O doub N N 536 TYR C OXT sing N N 537 TYR CB CG sing N N 538 TYR CB HB2 sing N N 539 TYR CB HB3 sing N N 540 TYR CG CD1 doub Y N 541 TYR CG CD2 sing Y N 542 TYR CD1 CE1 sing Y N 543 TYR CD1 HD1 sing N N 544 TYR CD2 CE2 doub Y N 545 TYR CD2 HD2 sing N N 546 TYR CE1 CZ doub Y N 547 TYR CE1 HE1 sing N N 548 TYR CE2 CZ sing Y N 549 TYR CE2 HE2 sing N N 550 TYR CZ OH sing N N 551 TYR OH HH sing N N 552 TYR OXT HXT sing N N 553 VAL N CA sing N N 554 VAL N H sing N N 555 VAL N H2 sing N N 556 VAL CA C sing N N 557 VAL CA CB sing N N 558 VAL CA HA sing N N 559 VAL C O doub N N 560 VAL C OXT sing N N 561 VAL CB CG1 sing N N 562 VAL CB CG2 sing N N 563 VAL CB HB sing N N 564 VAL CG1 HG11 sing N N 565 VAL CG1 HG12 sing N N 566 VAL CG1 HG13 sing N N 567 VAL CG2 HG21 sing N N 568 VAL CG2 HG22 sing N N 569 VAL CG2 HG23 sing N N 570 VAL OXT HXT sing N N 571 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4EW0 'double helix' 4EW0 'b-form double helix' 4EW0 'mismatched base pair' # 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 DT 1 1_555 C DA 11 1_555 -0.146 -0.316 0.255 -18.660 -6.881 -3.247 1 B_DT1:DA22_C B 1 ? C 22 ? 20 1 1 B DC 2 1_555 C DG 10 1_555 -0.515 -0.407 -0.132 -3.033 -3.042 -0.785 2 B_DC2:DG21_C B 2 ? C 21 ? 19 1 1 B DA 3 1_555 C DT 9 1_555 0.616 0.087 0.089 -5.378 -17.278 -6.403 3 B_DA3:DT20_C B 3 ? C 20 ? 20 1 1 B DG 4 1_555 C DC 8 1_555 -0.716 -0.232 0.035 2.102 -11.039 1.554 4 B_DG4:DC19_C B 4 ? C 19 ? 19 1 1 B DC 5 1_555 C DG 7 1_555 0.226 0.185 -0.327 13.631 -8.939 -0.360 5 B_DC5:DG18_C B 5 ? C 18 ? 19 1 1 B DC 7 1_555 C DG 5 1_555 0.226 -0.283 0.449 -0.439 -10.414 -1.784 6 B_DC7:DG16_C B 7 ? C 16 ? 19 1 1 B DA 8 1_555 C DT 4 1_555 0.509 0.201 0.250 -5.447 -10.665 3.746 7 B_DA8:DT15_C B 8 ? C 15 ? 20 1 1 B DT 9 1_555 C DA 3 1_555 -0.453 -0.447 0.443 6.442 -10.635 -4.620 8 B_DT9:DA14_C B 9 ? C 14 ? 20 1 1 B DG 10 1_555 C DC 2 1_555 0.921 0.145 0.288 13.415 -4.942 0.327 9 B_DG10:DC13_C B 10 ? C 13 ? 19 1 1 B DG 11 1_555 C DC 1 1_555 0.939 0.066 -0.046 3.558 -31.223 8.039 10 B_DG11:DC12_C B 11 ? C 12 ? 19 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 DT 1 1_555 C DA 11 1_555 B DC 2 1_555 C DG 10 1_555 -0.348 -0.346 2.965 4.503 -1.220 31.814 -0.429 1.354 2.900 -2.211 -8.159 32.146 1 BB_DT1DC2:DG21DA22_CC B 1 ? C 22 ? B 2 ? C 21 ? 1 B DC 2 1_555 C DG 10 1_555 B DA 3 1_555 C DT 9 1_555 -1.119 1.370 3.543 -5.310 -1.729 43.888 1.996 0.943 3.594 -2.302 7.071 44.224 2 BB_DC2DA3:DT20DG21_CC B 2 ? C 21 ? B 3 ? C 20 ? 1 B DA 3 1_555 C DT 9 1_555 B DG 4 1_555 C DC 8 1_555 0.723 -0.236 3.121 0.615 4.045 24.132 -1.753 -1.525 3.058 9.587 -1.458 24.471 3 BB_DA3DG4:DC19DT20_CC B 3 ? C 20 ? B 4 ? C 19 ? 1 B DG 4 1_555 C DC 8 1_555 B DC 5 1_555 C DG 7 1_555 -0.111 0.307 3.046 2.704 4.556 33.257 -0.165 0.604 3.042 7.898 -4.688 33.664 4 BB_DG4DC5:DG18DC19_CC B 4 ? C 19 ? B 5 ? C 18 ? 1 B DC 7 1_555 C DG 5 1_555 B DA 8 1_555 C DT 4 1_555 -0.021 -0.131 3.262 3.243 9.894 38.381 -1.338 0.406 3.124 14.722 -4.825 39.717 5 BB_DC7DA8:DT15DG16_CC B 7 ? C 16 ? B 8 ? C 15 ? 1 B DA 8 1_555 C DT 4 1_555 B DT 9 1_555 C DA 3 1_555 -0.524 -0.388 3.130 -4.883 -5.297 24.744 0.592 -0.172 3.185 -12.039 11.097 25.756 6 BB_DA8DT9:DA14DT15_CC B 8 ? C 15 ? B 9 ? C 14 ? 1 B DT 9 1_555 C DA 3 1_555 B DG 10 1_555 C DC 2 1_555 0.480 -0.062 3.298 2.444 -4.116 43.437 0.317 -0.408 3.311 -5.542 -3.290 43.687 7 BB_DT9DG10:DC13DA14_CC B 9 ? C 14 ? B 10 ? C 13 ? 1 B DG 10 1_555 C DC 2 1_555 B DG 11 1_555 C DC 1 1_555 0.304 -0.511 3.726 -2.030 12.042 39.919 -2.139 -0.666 3.421 17.158 2.892 41.673 8 BB_DG10DG11:DC12DC13_CC B 10 ? C 13 ? B 11 ? C 12 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 4 1,2-ETHANEDIOL EDO 5 'NICKEL (II) ION' NI 6 water HOH # _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 1NGN _pdbx_initial_refinement_model.details ? #