data_3BTY # _entry.id 3BTY # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.350 _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 3BTY pdb_00003bty 10.2210/pdb3bty/pdb NDB PD1129 ? ? RCSB RCSB045952 ? ? WWPDB D_1000045952 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2FD8 'E. coli homolog' unspecified PDB 2IUW 'human homolog' unspecified PDB 3BTX . unspecified PDB 3BTZ . unspecified PDB 3BU0 . unspecified PDB 3BUC . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3BTY _pdbx_database_status.recvd_initial_deposition_date 2007-12-31 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Yang, C.-G.' 1 'Yi, C.' 2 'He, C.' 3 # _citation.id primary _citation.title 'Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA.' _citation.journal_abbrev Nature _citation.journal_volume 452 _citation.page_first 961 _citation.page_last 965 _citation.year 2008 _citation.journal_id_ASTM NATUAS _citation.country UK _citation.journal_id_ISSN 0028-0836 _citation.journal_id_CSD 0006 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18432238 _citation.pdbx_database_id_DOI 10.1038/nature06889 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yang, C.G.' 1 ? primary 'Yi, C.' 2 ? primary 'Duguid, E.M.' 3 ? primary 'Sullivan, C.T.' 4 ? primary 'Jian, X.' 5 ? primary 'Rice, P.A.' 6 ? primary 'He, C.' 7 ? # _cell.entry_id 3BTY _cell.length_a 77.915 _cell.length_b 77.915 _cell.length_c 226.040 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _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 3BTY _symmetry.space_group_name_H-M 'P 65 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _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 syn ;DNA (5'-D(*DCP*DTP*DGP*DTP*DAP*DTP*(MA7)P*DAP*DCP*DTP*DGP*DCP*DG)-3') ; 3981.631 1 ? ? ? ? 2 polymer syn ;DNA (5'-D(*DTP*DCP*DGP*DCP*DAP*DGP*DTP*DTP*DAP*DTP*DAP*DCP*DA)-3') ; 3950.598 1 ? ? ? ? 3 polymer man 'Alpha-ketoglutarate-dependent dioxygenase alkB homolog 2' 23136.414 1 1.14.11.- 'C67S, C165S, C192S, G169C' ? ? 4 non-polymer syn propane-1-thiol 76.161 1 ? ? ? ? 5 water nat water 18.015 124 ? ? ? ? # _entity_name_com.entity_id 3 _entity_name_com.name 'Alkylated DNA repair protein alkB homolog 2, Oxy DC1' # 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 polydeoxyribonucleotide no yes '(DC)(DT)(DG)(DT)(DA)(DT)(MA7)(DA)(DC)(DT)(DG)(DC)(DG)' CTGTATAACTGCG B ? 2 polydeoxyribonucleotide no no '(DT)(DC)(DG)(DC)(DA)(DG)(DT)(DT)(DA)(DT)(DA)(DC)(DA)' TCGCAGTTATACA C ? 3 'polypeptide(L)' no no ;SWRHIRAEGLDSSYTVLFGKAEADEIFQELEKEVEYFTGALARVQVFGKWHSVPRKQATYGDAGLTYTFSGLTLSPKPWI PVLERIRDHVSGVTGQTFNFVLINRYKDGSDHICEHRDDERELAPGSPIASVSFGASRDFVFRHKDSRGKSPSRRVAVVR LPLAHGSLLMMNHPTNTHWYHSLPVRKKVLAPRVNLTFRKILL ; ;SWRHIRAEGLDSSYTVLFGKAEADEIFQELEKEVEYFTGALARVQVFGKWHSVPRKQATYGDAGLTYTFSGLTLSPKPWI PVLERIRDHVSGVTGQTFNFVLINRYKDGSDHICEHRDDERELAPGSPIASVSFGASRDFVFRHKDSRGKSPSRRVAVVR LPLAHGSLLMMNHPTNTHWYHSLPVRKKVLAPRVNLTFRKILL ; A ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DT n 1 3 DG n 1 4 DT n 1 5 DA n 1 6 DT n 1 7 MA7 n 1 8 DA n 1 9 DC n 1 10 DT n 1 11 DG n 1 12 DC n 1 13 DG n 2 1 DT n 2 2 DC n 2 3 DG n 2 4 DC n 2 5 DA n 2 6 DG n 2 7 DT n 2 8 DT n 2 9 DA n 2 10 DT n 2 11 DA n 2 12 DC n 2 13 DA n 3 1 SER n 3 2 TRP n 3 3 ARG n 3 4 HIS n 3 5 ILE n 3 6 ARG n 3 7 ALA n 3 8 GLU n 3 9 GLY n 3 10 LEU n 3 11 ASP n 3 12 SER n 3 13 SER n 3 14 TYR n 3 15 THR n 3 16 VAL n 3 17 LEU n 3 18 PHE n 3 19 GLY n 3 20 LYS n 3 21 ALA n 3 22 GLU n 3 23 ALA n 3 24 ASP n 3 25 GLU n 3 26 ILE n 3 27 PHE n 3 28 GLN n 3 29 GLU n 3 30 LEU n 3 31 GLU n 3 32 LYS n 3 33 GLU n 3 34 VAL n 3 35 GLU n 3 36 TYR n 3 37 PHE n 3 38 THR n 3 39 GLY n 3 40 ALA n 3 41 LEU n 3 42 ALA n 3 43 ARG n 3 44 VAL n 3 45 GLN n 3 46 VAL n 3 47 PHE n 3 48 GLY n 3 49 LYS n 3 50 TRP n 3 51 HIS n 3 52 SER n 3 53 VAL n 3 54 PRO n 3 55 ARG n 3 56 LYS n 3 57 GLN n 3 58 ALA n 3 59 THR n 3 60 TYR n 3 61 GLY n 3 62 ASP n 3 63 ALA n 3 64 GLY n 3 65 LEU n 3 66 THR n 3 67 TYR n 3 68 THR n 3 69 PHE n 3 70 SER n 3 71 GLY n 3 72 LEU n 3 73 THR n 3 74 LEU n 3 75 SER n 3 76 PRO n 3 77 LYS n 3 78 PRO n 3 79 TRP n 3 80 ILE n 3 81 PRO n 3 82 VAL n 3 83 LEU n 3 84 GLU n 3 85 ARG n 3 86 ILE n 3 87 ARG n 3 88 ASP n 3 89 HIS n 3 90 VAL n 3 91 SER n 3 92 GLY n 3 93 VAL n 3 94 THR n 3 95 GLY n 3 96 GLN n 3 97 THR n 3 98 PHE n 3 99 ASN n 3 100 PHE n 3 101 VAL n 3 102 LEU n 3 103 ILE n 3 104 ASN n 3 105 ARG n 3 106 TYR n 3 107 LYS n 3 108 ASP n 3 109 GLY n 3 110 SER n 3 111 ASP n 3 112 HIS n 3 113 ILE n 3 114 CYS n 3 115 GLU n 3 116 HIS n 3 117 ARG n 3 118 ASP n 3 119 ASP n 3 120 GLU n 3 121 ARG n 3 122 GLU n 3 123 LEU n 3 124 ALA n 3 125 PRO n 3 126 GLY n 3 127 SER n 3 128 PRO n 3 129 ILE n 3 130 ALA n 3 131 SER n 3 132 VAL n 3 133 SER n 3 134 PHE n 3 135 GLY n 3 136 ALA n 3 137 SER n 3 138 ARG n 3 139 ASP n 3 140 PHE n 3 141 VAL n 3 142 PHE n 3 143 ARG n 3 144 HIS n 3 145 LYS n 3 146 ASP n 3 147 SER n 3 148 ARG n 3 149 GLY n 3 150 LYS n 3 151 SER n 3 152 PRO n 3 153 SER n 3 154 ARG n 3 155 ARG n 3 156 VAL n 3 157 ALA n 3 158 VAL n 3 159 VAL n 3 160 ARG n 3 161 LEU n 3 162 PRO n 3 163 LEU n 3 164 ALA n 3 165 HIS n 3 166 GLY n 3 167 SER n 3 168 LEU n 3 169 LEU n 3 170 MET n 3 171 MET n 3 172 ASN n 3 173 HIS n 3 174 PRO n 3 175 THR n 3 176 ASN n 3 177 THR n 3 178 HIS n 3 179 TRP n 3 180 TYR n 3 181 HIS n 3 182 SER n 3 183 LEU n 3 184 PRO n 3 185 VAL n 3 186 ARG n 3 187 LYS n 3 188 LYS n 3 189 VAL n 3 190 LEU n 3 191 ALA n 3 192 PRO n 3 193 ARG n 3 194 VAL n 3 195 ASN n 3 196 LEU n 3 197 THR n 3 198 PHE n 3 199 ARG n 3 200 LYS n 3 201 ILE n 3 202 LEU n 3 203 LEU n # _entity_src_gen.entity_id 3 _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 human _entity_src_gen.gene_src_genus Homo _entity_src_gen.pdbx_gene_src_gene 'ALKBH2, ABH2' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 12q24.11 _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 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _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 BL21(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus Escherichia _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species 'Escherichia coli' _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 'BL21(DE3)' _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 plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pET28a _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # 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 ALKB2_HUMAN Q6NS38 3 ;SWRHIRAEGLDCSYTVLFGKAEADEIFQELEKEVEYFTGALARVQVFGKWHSVPRKQATYGDAGLTYTFSGLTLSPKPWI PVLERIRDHVSGVTGQTFNFVLINRYKDGCDHIGEHRDDERELAPGSPIASVSFGACRDFVFRHKDSRGKSPSRRVAVVR LPLAHGSLLMMNHPTNTHWYHSLPVRKKVLAPRVNLTFRKILL ; 56 ? 2 PDB 3BTY 3BTY 1 CTGTATAACTGCG ? ? 3 PDB 3BTY 3BTY 2 TCGCAGTTATACA ? ? # 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 3BTY A 1 ? 203 ? Q6NS38 56 ? 258 ? 56 258 2 2 3BTY B 1 ? 13 ? 3BTY 1 ? 13 ? 1 13 3 3 3BTY C 1 ? 13 ? 3BTY 1 ? 13 ? 1 13 # 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 3BTY SER A 12 ? UNP Q6NS38 CYS 67 'engineered mutation' 67 1 1 3BTY SER A 110 ? UNP Q6NS38 CYS 165 'engineered mutation' 165 2 1 3BTY CYS A 114 ? UNP Q6NS38 GLY 169 'engineered mutation' 169 3 1 3BTY SER A 137 ? UNP Q6NS38 CYS 192 'engineered mutation' 192 4 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 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 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 MA7 'DNA linking' n "1N-METHYLADENOSINE-5'-MONOPHOSPHATE" ? 'C11 H17 N5 O6 P 1' 346.256 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 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 XL3 non-polymer . propane-1-thiol ? 'C3 H8 S' 76.161 # _exptl.entry_id 3BTY _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.19 _exptl_crystal.density_percent_sol 61.43 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_details ;8% PEG 8000, 0.1M sodium chloride, 0.05M magnesium chloride, 0.1M cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K ; _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'PEG 8000' ? ? ? 1 2 1 'sodium chloride' ? ? ? 1 3 1 'magnesium chloride' ? ? ? 1 4 1 cacodylate ? ? ? 1 5 2 'PEG 8000' ? ? ? 1 6 2 'sodium chloride' ? ? ? 1 7 2 'magnesium chloride' ? ? ? 1 8 2 cacodylate ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-BM' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-BM _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 3BTY _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 2.35 _reflns.d_resolution_low 50 _reflns.number_all 17062 _reflns.number_obs 17062 _reflns.percent_possible_obs 95.6 _reflns.pdbx_Rmerge_I_obs 0.052 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 30.0 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 14.5 _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _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_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.35 _reflns_shell.d_res_low 2.39 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs 0.675 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.2 _reflns_shell.pdbx_redundancy 13.3 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 860 _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 3BTY _refine.ls_number_reflns_obs 16153 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.00 _refine.ls_d_res_high 2.35 _refine.ls_percent_reflns_obs 96.05 _refine.ls_R_factor_obs 0.22518 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.22337 _refine.ls_R_factor_R_free 0.25893 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.1 _refine.ls_number_reflns_R_free 874 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.940 _refine.correlation_coeff_Fo_to_Fc_free 0.920 _refine.B_iso_mean 50.670 _refine.aniso_B[1][1] -1.76 _refine.aniso_B[2][2] -1.76 _refine.aniso_B[3][3] 2.63 _refine.aniso_B[1][2] -0.88 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.307 _refine.pdbx_overall_ESU_R_Free 0.235 _refine.overall_SU_ML 0.184 _refine.overall_SU_B 14.355 _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _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_overall_phase_error ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _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 1617 _refine_hist.pdbx_number_atoms_nucleic_acid 526 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 124 _refine_hist.number_atoms_total 2271 _refine_hist.d_res_high 2.35 _refine_hist.d_res_low 20.00 # 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 r_bond_refined_d 0.006 0.021 ? 2254 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.116 2.246 ? 3159 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 5.603 5.000 ? 198 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 29.429 21.519 ? 79 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 12.703 15.000 ? 275 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 12.192 15.000 ? 18 'X-RAY DIFFRACTION' ? r_chiral_restr 0.063 0.200 ? 344 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.003 0.020 ? 1543 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.165 0.200 ? 843 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.293 0.200 ? 1428 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.134 0.200 ? 149 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.138 0.200 ? 41 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.108 0.200 ? 7 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 0.250 1.500 ? 1024 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 0.440 2.000 ? 1614 'X-RAY DIFFRACTION' ? r_scbond_it 0.688 3.000 ? 1573 'X-RAY DIFFRACTION' ? r_scangle_it 1.184 4.500 ? 1545 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.35 _refine_ls_shell.d_res_low 2.411 _refine_ls_shell.number_reflns_R_work 1193 _refine_ls_shell.R_factor_R_work 0.301 _refine_ls_shell.percent_reflns_obs 99.84 _refine_ls_shell.R_factor_R_free 0.308 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 65 _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 'X-RAY DIFFRACTION' # _struct.entry_id 3BTY _struct.title 'Crystal structure of human ABH2 bound to dsDNA containing 1meA through cross-linking away from active site' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3BTY _struct_keywords.pdbx_keywords Oxidoreductase/DNA _struct_keywords.text ;protein/DNA interaction, human dioxygenase, DNA repair, cross-linking, DNA damage, Iron, Metal-binding, Nucleus, Oxidoreductase, Oxidoreductase-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 5 ? F N N 5 ? G N N 5 ? # _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 GLY C 19 ? VAL C 34 ? GLY A 74 VAL A 89 1 ? 16 HELX_P HELX_P2 2 THR C 38 ? LEU C 41 ? THR A 93 LEU A 96 5 ? 4 HELX_P HELX_P3 3 ILE C 80 ? GLY C 95 ? ILE A 135 GLY A 150 1 ? 16 HELX_P HELX_P4 4 PRO C 174 ? HIS C 178 ? PRO A 229 HIS A 233 1 ? 5 # _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 DT 6 "O3'" ? ? ? 1_555 A MA7 7 P ? ? B DT 6 B MA7 7 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale2 covale both ? A MA7 7 "O3'" ? ? ? 1_555 A DA 8 P ? ? B MA7 7 B DA 8 1_555 ? ? ? ? ? ? ? 1.591 ? ? covale3 covale none ? A DC 9 N4 ? ? ? 1_555 D XL3 . CA ? ? B DC 9 B XL3 14 1_555 ? ? ? ? ? ? ? 1.467 ? ? covale4 covale none ? D XL3 . SG ? ? ? 1_555 C CYS 114 SG ? ? B XL3 14 A CYS 169 1_555 ? ? ? ? ? ? ? 2.039 ? ? hydrog1 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 12 N3 ? ? B DG 3 C DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 12 O2 ? ? B DG 3 C DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 12 N4 ? ? B DG 3 C DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 11 N1 ? ? B DT 4 C DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 11 N6 ? ? B DT 4 C DA 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? B DA 5 C DT 8 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ? hydrog7 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 10 N3 ? ? B DA 5 C DT 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 10 O4 ? ? B DA 5 C DT 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DT 8 O4 ? ? B DT 6 C DT 8 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog10 hydrog ? ? A DT 6 O2 ? ? ? 1_555 B DT 8 N3 ? ? B DT 6 C DT 8 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog11 hydrog ? ? A DA 8 N1 ? ? ? 1_555 B DT 7 N3 ? ? B DA 8 C DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DT 7 O4 ? ? B DA 8 C DT 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 6 N1 ? ? B DC 9 C DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 6 O6 ? ? B DC 9 C DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 6 N2 ? ? B DC 9 C DG 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DT 10 N3 ? ? ? 1_555 B DA 5 N1 ? ? B DT 10 C DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 10 O4 ? ? ? 1_555 B DA 5 N6 ? ? B DT 10 C DA 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 11 N1 ? ? ? 1_555 B DC 4 N3 ? ? B DG 11 C DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 11 N2 ? ? ? 1_555 B DC 4 O2 ? ? B DG 11 C DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 11 O6 ? ? ? 1_555 B DC 4 N4 ? ? B DG 11 C DC 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 12 N3 ? ? ? 1_555 B DG 3 N1 ? ? B DC 12 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 12 N4 ? ? ? 1_555 B DG 3 O6 ? ? B DC 12 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 12 O2 ? ? ? 1_555 B DG 3 N2 ? ? B DC 12 C DG 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 13 N1 ? ? ? 1_555 B DC 2 N3 ? ? B DG 13 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 13 N2 ? ? ? 1_555 B DC 2 O2 ? ? B DG 13 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 13 O6 ? ? ? 1_555 B DC 2 N4 ? ? B DG 13 C DC 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id HIS _struct_mon_prot_cis.label_seq_id 173 _struct_mon_prot_cis.label_asym_id C _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id HIS _struct_mon_prot_cis.auth_seq_id 228 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 174 _struct_mon_prot_cis.pdbx_label_asym_id_2 C _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 229 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 1.04 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 7 ? B ? 2 ? C ? 2 ? D ? 4 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel A 6 7 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? anti-parallel D 1 2 ? anti-parallel D 2 3 ? anti-parallel D 3 4 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 ARG C 3 ? ALA C 7 ? ARG A 58 ALA A 62 A 2 LEU C 10 ? VAL C 16 ? LEU A 65 VAL A 71 A 3 SER C 167 ? MET C 171 ? SER A 222 MET A 226 A 4 ILE C 129 ? GLY C 135 ? ILE A 184 GLY A 190 A 5 ARG C 193 ? ARG C 199 ? ARG A 248 ARG A 254 A 6 PHE C 100 ? TYR C 106 ? PHE A 155 TYR A 161 A 7 LYS C 56 ? GLY C 61 ? LYS A 111 GLY A 116 B 1 ARG C 43 ? VAL C 46 ? ARG A 98 VAL A 101 B 2 LYS C 49 ? SER C 52 ? LYS A 104 SER A 107 C 1 TYR C 67 ? PHE C 69 ? TYR A 122 PHE A 124 C 2 LEU C 72 ? LEU C 74 ? LEU A 127 LEU A 129 D 1 ILE C 113 ? HIS C 116 ? ILE A 168 HIS A 171 D 2 TRP C 179 ? LEU C 183 ? TRP A 234 LEU A 238 D 3 ARG C 138 ? HIS C 144 ? ARG A 193 HIS A 199 D 4 VAL C 159 ? LEU C 163 ? VAL A 214 LEU A 218 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N ARG C 3 ? N ARG A 58 O TYR C 14 ? O TYR A 69 A 2 3 N THR C 15 ? N THR A 70 O LEU C 168 ? O LEU A 223 A 3 4 O LEU C 169 ? O LEU A 224 N SER C 131 ? N SER A 186 A 4 5 N VAL C 132 ? N VAL A 187 O LEU C 196 ? O LEU A 251 A 5 6 O ASN C 195 ? O ASN A 250 N ASN C 104 ? N ASN A 159 A 6 7 O ILE C 103 ? O ILE A 158 N ALA C 58 ? N ALA A 113 B 1 2 N VAL C 46 ? N VAL A 101 O LYS C 49 ? O LYS A 104 C 1 2 N TYR C 67 ? N TYR A 122 O LEU C 74 ? O LEU A 129 D 1 2 N HIS C 116 ? N HIS A 171 O HIS C 181 ? O HIS A 236 D 2 3 O TYR C 180 ? O TYR A 235 N ARG C 143 ? N ARG A 198 D 3 4 N PHE C 142 ? N PHE A 197 O VAL C 159 ? O VAL A 214 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id B _struct_site.pdbx_auth_comp_id XL3 _struct_site.pdbx_auth_seq_id 14 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 4 _struct_site.details 'BINDING SITE FOR RESIDUE XL3 B 14' # 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 CYS C 114 ? CYS A 169 . ? 1_555 ? 2 AC1 4 DA A 8 ? DA B 8 . ? 1_555 ? 3 AC1 4 DC A 9 ? DC B 9 . ? 1_555 ? 4 AC1 4 DG B 6 ? DG C 6 . ? 1_555 ? # _database_PDB_matrix.entry_id 3BTY _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 3BTY _atom_sites.fract_transf_matrix[1][1] 0.012834 _atom_sites.fract_transf_matrix[1][2] 0.007410 _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] 0.014820 _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] 0.004424 _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 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 DC 1 1 1 DC C B . n A 1 2 DT 2 2 2 DT T B . n A 1 3 DG 3 3 3 DG G B . n A 1 4 DT 4 4 4 DT T B . n A 1 5 DA 5 5 5 DA A B . n A 1 6 DT 6 6 6 DT T B . n A 1 7 MA7 7 7 7 MA7 MA7 B . n A 1 8 DA 8 8 8 DA A B . n A 1 9 DC 9 9 9 DC C B . n A 1 10 DT 10 10 10 DT T B . n A 1 11 DG 11 11 11 DG G B . n A 1 12 DC 12 12 12 DC C B . n A 1 13 DG 13 13 13 DG G B . n B 2 1 DT 1 1 1 DT T C . n B 2 2 DC 2 2 2 DC C C . n B 2 3 DG 3 3 3 DG G C . n B 2 4 DC 4 4 4 DC C C . n B 2 5 DA 5 5 5 DA A C . n B 2 6 DG 6 6 6 DG G C . n B 2 7 DT 7 7 7 DT T C . n B 2 8 DT 8 8 8 DT T C . n B 2 9 DA 9 9 9 DA A C . n B 2 10 DT 10 10 10 DT T C . n B 2 11 DA 11 11 11 DA A C . n B 2 12 DC 12 12 12 DC C C . n B 2 13 DA 13 13 13 DA A C . n C 3 1 SER 1 56 56 SER SER A . n C 3 2 TRP 2 57 57 TRP TRP A . n C 3 3 ARG 3 58 58 ARG ARG A . n C 3 4 HIS 4 59 59 HIS HIS A . n C 3 5 ILE 5 60 60 ILE ILE A . n C 3 6 ARG 6 61 61 ARG ARG A . n C 3 7 ALA 7 62 62 ALA ALA A . n C 3 8 GLU 8 63 63 GLU GLU A . n C 3 9 GLY 9 64 64 GLY GLY A . n C 3 10 LEU 10 65 65 LEU LEU A . n C 3 11 ASP 11 66 66 ASP ASP A . n C 3 12 SER 12 67 67 SER SER A . n C 3 13 SER 13 68 68 SER SER A . n C 3 14 TYR 14 69 69 TYR TYR A . n C 3 15 THR 15 70 70 THR THR A . n C 3 16 VAL 16 71 71 VAL VAL A . n C 3 17 LEU 17 72 72 LEU LEU A . n C 3 18 PHE 18 73 73 PHE PHE A . n C 3 19 GLY 19 74 74 GLY GLY A . n C 3 20 LYS 20 75 75 LYS LYS A . n C 3 21 ALA 21 76 76 ALA ALA A . n C 3 22 GLU 22 77 77 GLU GLU A . n C 3 23 ALA 23 78 78 ALA ALA A . n C 3 24 ASP 24 79 79 ASP ASP A . n C 3 25 GLU 25 80 80 GLU GLU A . n C 3 26 ILE 26 81 81 ILE ILE A . n C 3 27 PHE 27 82 82 PHE PHE A . n C 3 28 GLN 28 83 83 GLN GLN A . n C 3 29 GLU 29 84 84 GLU GLU A . n C 3 30 LEU 30 85 85 LEU LEU A . n C 3 31 GLU 31 86 86 GLU GLU A . n C 3 32 LYS 32 87 87 LYS LYS A . n C 3 33 GLU 33 88 88 GLU GLU A . n C 3 34 VAL 34 89 89 VAL VAL A . n C 3 35 GLU 35 90 90 GLU GLU A . n C 3 36 TYR 36 91 91 TYR TYR A . n C 3 37 PHE 37 92 92 PHE PHE A . n C 3 38 THR 38 93 93 THR THR A . n C 3 39 GLY 39 94 94 GLY GLY A . n C 3 40 ALA 40 95 95 ALA ALA A . n C 3 41 LEU 41 96 96 LEU LEU A . n C 3 42 ALA 42 97 97 ALA ALA A . n C 3 43 ARG 43 98 98 ARG ARG A . n C 3 44 VAL 44 99 99 VAL VAL A . n C 3 45 GLN 45 100 100 GLN GLN A . n C 3 46 VAL 46 101 101 VAL VAL A . n C 3 47 PHE 47 102 102 PHE PHE A . n C 3 48 GLY 48 103 103 GLY GLY A . n C 3 49 LYS 49 104 104 LYS LYS A . n C 3 50 TRP 50 105 105 TRP TRP A . n C 3 51 HIS 51 106 106 HIS HIS A . n C 3 52 SER 52 107 107 SER SER A . n C 3 53 VAL 53 108 108 VAL VAL A . n C 3 54 PRO 54 109 109 PRO PRO A . n C 3 55 ARG 55 110 110 ARG ARG A . n C 3 56 LYS 56 111 111 LYS LYS A . n C 3 57 GLN 57 112 112 GLN GLN A . n C 3 58 ALA 58 113 113 ALA ALA A . n C 3 59 THR 59 114 114 THR THR A . n C 3 60 TYR 60 115 115 TYR TYR A . n C 3 61 GLY 61 116 116 GLY GLY A . n C 3 62 ASP 62 117 117 ASP ASP A . n C 3 63 ALA 63 118 118 ALA ALA A . n C 3 64 GLY 64 119 119 GLY GLY A . n C 3 65 LEU 65 120 120 LEU LEU A . n C 3 66 THR 66 121 121 THR THR A . n C 3 67 TYR 67 122 122 TYR TYR A . n C 3 68 THR 68 123 123 THR THR A . n C 3 69 PHE 69 124 124 PHE PHE A . n C 3 70 SER 70 125 125 SER SER A . n C 3 71 GLY 71 126 126 GLY GLY A . n C 3 72 LEU 72 127 127 LEU LEU A . n C 3 73 THR 73 128 128 THR THR A . n C 3 74 LEU 74 129 129 LEU LEU A . n C 3 75 SER 75 130 130 SER SER A . n C 3 76 PRO 76 131 131 PRO PRO A . n C 3 77 LYS 77 132 132 LYS LYS A . n C 3 78 PRO 78 133 133 PRO PRO A . n C 3 79 TRP 79 134 134 TRP TRP A . n C 3 80 ILE 80 135 135 ILE ILE A . n C 3 81 PRO 81 136 136 PRO PRO A . n C 3 82 VAL 82 137 137 VAL VAL A . n C 3 83 LEU 83 138 138 LEU LEU A . n C 3 84 GLU 84 139 139 GLU GLU A . n C 3 85 ARG 85 140 140 ARG ARG A . n C 3 86 ILE 86 141 141 ILE ILE A . n C 3 87 ARG 87 142 142 ARG ARG A . n C 3 88 ASP 88 143 143 ASP ASP A . n C 3 89 HIS 89 144 144 HIS HIS A . n C 3 90 VAL 90 145 145 VAL VAL A . n C 3 91 SER 91 146 146 SER SER A . n C 3 92 GLY 92 147 147 GLY GLY A . n C 3 93 VAL 93 148 148 VAL VAL A . n C 3 94 THR 94 149 149 THR THR A . n C 3 95 GLY 95 150 150 GLY GLY A . n C 3 96 GLN 96 151 151 GLN GLN A . n C 3 97 THR 97 152 152 THR THR A . n C 3 98 PHE 98 153 153 PHE PHE A . n C 3 99 ASN 99 154 154 ASN ASN A . n C 3 100 PHE 100 155 155 PHE PHE A . n C 3 101 VAL 101 156 156 VAL VAL A . n C 3 102 LEU 102 157 157 LEU LEU A . n C 3 103 ILE 103 158 158 ILE ILE A . n C 3 104 ASN 104 159 159 ASN ASN A . n C 3 105 ARG 105 160 160 ARG ARG A . n C 3 106 TYR 106 161 161 TYR TYR A . n C 3 107 LYS 107 162 162 LYS LYS A . n C 3 108 ASP 108 163 163 ASP ASP A . n C 3 109 GLY 109 164 164 GLY GLY A . n C 3 110 SER 110 165 165 SER SER A . n C 3 111 ASP 111 166 166 ASP ASP A . n C 3 112 HIS 112 167 167 HIS HIS A . n C 3 113 ILE 113 168 168 ILE ILE A . n C 3 114 CYS 114 169 169 CYS CYS A . n C 3 115 GLU 115 170 170 GLU GLU A . n C 3 116 HIS 116 171 171 HIS HIS A . n C 3 117 ARG 117 172 172 ARG ARG A . n C 3 118 ASP 118 173 173 ASP ASP A . n C 3 119 ASP 119 174 174 ASP ASP A . n C 3 120 GLU 120 175 175 GLU GLU A . n C 3 121 ARG 121 176 176 ARG ARG A . n C 3 122 GLU 122 177 177 GLU GLU A . n C 3 123 LEU 123 178 178 LEU LEU A . n C 3 124 ALA 124 179 179 ALA ALA A . n C 3 125 PRO 125 180 180 PRO PRO A . n C 3 126 GLY 126 181 181 GLY GLY A . n C 3 127 SER 127 182 182 SER SER A . n C 3 128 PRO 128 183 183 PRO PRO A . n C 3 129 ILE 129 184 184 ILE ILE A . n C 3 130 ALA 130 185 185 ALA ALA A . n C 3 131 SER 131 186 186 SER SER A . n C 3 132 VAL 132 187 187 VAL VAL A . n C 3 133 SER 133 188 188 SER SER A . n C 3 134 PHE 134 189 189 PHE PHE A . n C 3 135 GLY 135 190 190 GLY GLY A . n C 3 136 ALA 136 191 191 ALA ALA A . n C 3 137 SER 137 192 192 SER SER A . n C 3 138 ARG 138 193 193 ARG ARG A . n C 3 139 ASP 139 194 194 ASP ASP A . n C 3 140 PHE 140 195 195 PHE PHE A . n C 3 141 VAL 141 196 196 VAL VAL A . n C 3 142 PHE 142 197 197 PHE PHE A . n C 3 143 ARG 143 198 198 ARG ARG A . n C 3 144 HIS 144 199 199 HIS HIS A . n C 3 145 LYS 145 200 200 LYS LYS A . n C 3 146 ASP 146 201 201 ASP ASP A . n C 3 147 SER 147 202 202 SER SER A . n C 3 148 ARG 148 203 203 ARG ARG A . n C 3 149 GLY 149 204 ? ? ? A . n C 3 150 LYS 150 205 ? ? ? A . n C 3 151 SER 151 206 ? ? ? A . n C 3 152 PRO 152 207 207 PRO PRO A . n C 3 153 SER 153 208 208 SER SER A . n C 3 154 ARG 154 209 209 ARG ARG A . n C 3 155 ARG 155 210 210 ARG ARG A . n C 3 156 VAL 156 211 211 VAL VAL A . n C 3 157 ALA 157 212 212 ALA ALA A . n C 3 158 VAL 158 213 213 VAL VAL A . n C 3 159 VAL 159 214 214 VAL VAL A . n C 3 160 ARG 160 215 215 ARG ARG A . n C 3 161 LEU 161 216 216 LEU LEU A . n C 3 162 PRO 162 217 217 PRO PRO A . n C 3 163 LEU 163 218 218 LEU LEU A . n C 3 164 ALA 164 219 219 ALA ALA A . n C 3 165 HIS 165 220 220 HIS HIS A . n C 3 166 GLY 166 221 221 GLY GLY A . n C 3 167 SER 167 222 222 SER SER A . n C 3 168 LEU 168 223 223 LEU LEU A . n C 3 169 LEU 169 224 224 LEU LEU A . n C 3 170 MET 170 225 225 MET MET A . n C 3 171 MET 171 226 226 MET MET A . n C 3 172 ASN 172 227 227 ASN ASN A . n C 3 173 HIS 173 228 228 HIS HIS A . n C 3 174 PRO 174 229 229 PRO PRO A . n C 3 175 THR 175 230 230 THR THR A . n C 3 176 ASN 176 231 231 ASN ASN A . n C 3 177 THR 177 232 232 THR THR A . n C 3 178 HIS 178 233 233 HIS HIS A . n C 3 179 TRP 179 234 234 TRP TRP A . n C 3 180 TYR 180 235 235 TYR TYR A . n C 3 181 HIS 181 236 236 HIS HIS A . n C 3 182 SER 182 237 237 SER SER A . n C 3 183 LEU 183 238 238 LEU LEU A . n C 3 184 PRO 184 239 239 PRO PRO A . n C 3 185 VAL 185 240 240 VAL VAL A . n C 3 186 ARG 186 241 241 ARG ARG A . n C 3 187 LYS 187 242 242 LYS LYS A . n C 3 188 LYS 188 243 243 LYS LYS A . n C 3 189 VAL 189 244 244 VAL VAL A . n C 3 190 LEU 190 245 245 LEU LEU A . n C 3 191 ALA 191 246 246 ALA ALA A . n C 3 192 PRO 192 247 247 PRO PRO A . n C 3 193 ARG 193 248 248 ARG ARG A . n C 3 194 VAL 194 249 249 VAL VAL A . n C 3 195 ASN 195 250 250 ASN ASN A . n C 3 196 LEU 196 251 251 LEU LEU A . n C 3 197 THR 197 252 252 THR THR A . n C 3 198 PHE 198 253 253 PHE PHE A . n C 3 199 ARG 199 254 254 ARG ARG A . n C 3 200 LYS 200 255 255 LYS LYS A . n C 3 201 ILE 201 256 256 ILE ILE A . n C 3 202 LEU 202 257 257 LEU LEU A . n C 3 203 LEU 203 258 258 LEU LEU A . 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 XL3 1 14 1 XL3 XL3 B . E 5 HOH 1 46 46 HOH HOH B . E 5 HOH 2 47 47 HOH HOH B . E 5 HOH 3 66 66 HOH HOH B . E 5 HOH 4 69 69 HOH HOH B . E 5 HOH 5 74 74 HOH HOH B . E 5 HOH 6 102 102 HOH HOH B . E 5 HOH 7 103 103 HOH HOH B . E 5 HOH 8 108 108 HOH HOH B . E 5 HOH 9 109 109 HOH HOH B . E 5 HOH 10 119 119 HOH HOH B . E 5 HOH 11 122 122 HOH HOH B . F 5 HOH 1 18 18 HOH HOH C . F 5 HOH 2 48 48 HOH HOH C . F 5 HOH 3 49 49 HOH HOH C . F 5 HOH 4 50 50 HOH HOH C . F 5 HOH 5 53 53 HOH HOH C . F 5 HOH 6 71 71 HOH HOH C . F 5 HOH 7 72 72 HOH HOH C . F 5 HOH 8 80 80 HOH HOH C . F 5 HOH 9 83 83 HOH HOH C . F 5 HOH 10 105 105 HOH HOH C . F 5 HOH 11 118 118 HOH HOH C . F 5 HOH 12 121 121 HOH HOH C . G 5 HOH 1 259 1 HOH HOH A . G 5 HOH 2 260 2 HOH HOH A . G 5 HOH 3 261 3 HOH HOH A . G 5 HOH 4 262 4 HOH HOH A . G 5 HOH 5 263 5 HOH HOH A . G 5 HOH 6 264 6 HOH HOH A . G 5 HOH 7 265 7 HOH HOH A . G 5 HOH 8 266 8 HOH HOH A . G 5 HOH 9 267 9 HOH HOH A . G 5 HOH 10 268 10 HOH HOH A . G 5 HOH 11 269 11 HOH HOH A . G 5 HOH 12 270 12 HOH HOH A . G 5 HOH 13 271 13 HOH HOH A . G 5 HOH 14 272 14 HOH HOH A . G 5 HOH 15 273 15 HOH HOH A . G 5 HOH 16 274 16 HOH HOH A . G 5 HOH 17 275 17 HOH HOH A . G 5 HOH 18 276 19 HOH HOH A . G 5 HOH 19 277 20 HOH HOH A . G 5 HOH 20 278 21 HOH HOH A . G 5 HOH 21 279 22 HOH HOH A . G 5 HOH 22 280 23 HOH HOH A . G 5 HOH 23 281 24 HOH HOH A . G 5 HOH 24 282 25 HOH HOH A . G 5 HOH 25 283 26 HOH HOH A . G 5 HOH 26 284 27 HOH HOH A . G 5 HOH 27 285 28 HOH HOH A . G 5 HOH 28 286 29 HOH HOH A . G 5 HOH 29 287 30 HOH HOH A . G 5 HOH 30 288 31 HOH HOH A . G 5 HOH 31 289 32 HOH HOH A . G 5 HOH 32 290 33 HOH HOH A . G 5 HOH 33 291 34 HOH HOH A . G 5 HOH 34 292 35 HOH HOH A . G 5 HOH 35 293 36 HOH HOH A . G 5 HOH 36 294 37 HOH HOH A . G 5 HOH 37 295 38 HOH HOH A . G 5 HOH 38 296 39 HOH HOH A . G 5 HOH 39 297 40 HOH HOH A . G 5 HOH 40 298 41 HOH HOH A . G 5 HOH 41 299 42 HOH HOH A . G 5 HOH 42 300 43 HOH HOH A . G 5 HOH 43 301 44 HOH HOH A . G 5 HOH 44 302 45 HOH HOH A . G 5 HOH 45 303 51 HOH HOH A . G 5 HOH 46 304 52 HOH HOH A . G 5 HOH 47 305 54 HOH HOH A . G 5 HOH 48 306 55 HOH HOH A . G 5 HOH 49 307 56 HOH HOH A . G 5 HOH 50 308 57 HOH HOH A . G 5 HOH 51 309 58 HOH HOH A . G 5 HOH 52 310 59 HOH HOH A . G 5 HOH 53 311 60 HOH HOH A . G 5 HOH 54 312 61 HOH HOH A . G 5 HOH 55 313 62 HOH HOH A . G 5 HOH 56 314 63 HOH HOH A . G 5 HOH 57 315 64 HOH HOH A . G 5 HOH 58 316 65 HOH HOH A . G 5 HOH 59 317 67 HOH HOH A . G 5 HOH 60 318 68 HOH HOH A . G 5 HOH 61 319 70 HOH HOH A . G 5 HOH 62 320 73 HOH HOH A . G 5 HOH 63 321 75 HOH HOH A . G 5 HOH 64 322 76 HOH HOH A . G 5 HOH 65 323 77 HOH HOH A . G 5 HOH 66 324 78 HOH HOH A . G 5 HOH 67 325 79 HOH HOH A . G 5 HOH 68 326 81 HOH HOH A . G 5 HOH 69 327 82 HOH HOH A . G 5 HOH 70 328 84 HOH HOH A . G 5 HOH 71 329 85 HOH HOH A . G 5 HOH 72 330 86 HOH HOH A . G 5 HOH 73 331 87 HOH HOH A . G 5 HOH 74 332 88 HOH HOH A . G 5 HOH 75 333 89 HOH HOH A . G 5 HOH 76 334 90 HOH HOH A . G 5 HOH 77 335 91 HOH HOH A . G 5 HOH 78 336 92 HOH HOH A . G 5 HOH 79 337 93 HOH HOH A . G 5 HOH 80 338 94 HOH HOH A . G 5 HOH 81 339 95 HOH HOH A . G 5 HOH 82 340 96 HOH HOH A . G 5 HOH 83 341 97 HOH HOH A . G 5 HOH 84 342 98 HOH HOH A . G 5 HOH 85 343 99 HOH HOH A . G 5 HOH 86 344 100 HOH HOH A . G 5 HOH 87 345 101 HOH HOH A . G 5 HOH 88 346 104 HOH HOH A . G 5 HOH 89 347 106 HOH HOH A . G 5 HOH 90 348 107 HOH HOH A . G 5 HOH 91 349 110 HOH HOH A . G 5 HOH 92 350 111 HOH HOH A . G 5 HOH 93 351 112 HOH HOH A . G 5 HOH 94 352 113 HOH HOH A . G 5 HOH 95 353 114 HOH HOH A . G 5 HOH 96 354 115 HOH HOH A . G 5 HOH 97 355 116 HOH HOH A . G 5 HOH 98 356 117 HOH HOH A . G 5 HOH 99 357 120 HOH HOH A . G 5 HOH 100 358 123 HOH HOH A . G 5 HOH 101 359 124 HOH HOH A . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id MA7 _pdbx_struct_mod_residue.label_seq_id 7 _pdbx_struct_mod_residue.auth_asym_id B _pdbx_struct_mod_residue.auth_comp_id MA7 _pdbx_struct_mod_residue.auth_seq_id 7 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DA _pdbx_struct_mod_residue.details "1N-METHYLADENOSINE-5'-MONOPHOSPHATE" # _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 # _pdbx_struct_assembly_prop.biol_id 1 _pdbx_struct_assembly_prop.type 'ABSA (A^2)' _pdbx_struct_assembly_prop.value 3970 _pdbx_struct_assembly_prop.details ? # _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 # 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 2008-04-22 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2021-10-20 # _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' Advisory 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' # 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' database_2 2 3 'Structure model' struct_conn 3 3 'Structure model' struct_ref_seq_dif 4 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' '_struct_conn.pdbx_dist_value' 4 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 3 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 6 3 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 7 3 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 8 3 'Structure model' '_struct_conn.ptnr1_label_asym_id' 9 3 'Structure model' '_struct_conn.ptnr1_label_atom_id' 10 3 'Structure model' '_struct_conn.ptnr1_label_comp_id' 11 3 'Structure model' '_struct_conn.ptnr1_label_seq_id' 12 3 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 13 3 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 14 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 15 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 16 3 'Structure model' '_struct_conn.ptnr2_label_atom_id' 17 3 'Structure model' '_struct_conn.ptnr2_label_comp_id' 18 3 'Structure model' '_struct_conn.ptnr2_label_seq_id' 19 3 'Structure model' '_struct_ref_seq_dif.details' 20 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 21 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 22 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] _pdbx_refine_tls.pdbx_refine_id 1 ? refined 18.8194 -27.1512 3.4035 -0.2302 -0.1858 -0.1124 -0.0441 -0.0395 0.0621 6.1267 3.6568 3.0101 -1.5523 -0.6625 -0.7179 0.2065 -0.5434 0.1081 0.4773 -0.0606 -0.1879 -0.1366 0.2734 -0.1459 'X-RAY DIFFRACTION' 2 ? refined 3.6317 -9.9331 3.8194 0.0038 0.1504 -0.2117 -0.0241 0.2119 0.1710 0.9374 10.8618 0.4742 -0.2110 0.4264 1.6448 0.2562 0.3814 0.3062 -0.3311 -0.2370 -0.1490 -0.4587 -0.1478 -0.0191 'X-RAY DIFFRACTION' 3 ? refined 2.9536 -12.5163 2.8262 0.1441 -0.1173 -0.1143 0.0849 0.1721 0.1373 6.0624 2.8530 25.3182 -0.8191 -10.9351 0.5674 1.1682 0.5734 0.6666 -0.0546 -0.1558 0.4516 -1.0495 -1.1207 -1.0124 'X-RAY DIFFRACTION' # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.selection_details 1 1 A 56 C 1 A 258 C 203 ? 'X-RAY DIFFRACTION' ? 2 2 B 1 A 1 B 13 A 13 ? 'X-RAY DIFFRACTION' ? 3 3 C 1 B 1 C 13 B 13 ? 'X-RAY DIFFRACTION' ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0019 ? 1 HKL-2000 'data reduction' . ? 2 HKL-2000 'data scaling' . ? 3 PHASES phasing . ? 4 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" B DT 4 ? ? "C1'" B DT 4 ? ? N1 B DT 4 ? ? 111.61 108.30 3.31 0.30 N 2 1 "O4'" B DC 9 ? ? "C1'" B DC 9 ? ? N1 B DC 9 ? ? 110.81 108.30 2.51 0.30 N 3 1 "O4'" B DC 12 ? ? "C1'" B DC 12 ? ? N1 B DC 12 ? ? 110.46 108.30 2.16 0.30 N 4 1 "O4'" C DG 3 ? ? "C1'" C DG 3 ? ? N9 C DG 3 ? ? 110.51 108.30 2.21 0.30 N 5 1 "O4'" C DC 4 ? ? "C1'" C DC 4 ? ? N1 C DC 4 ? ? 110.61 108.30 2.31 0.30 N 6 1 "O4'" C DT 7 ? ? "C1'" C DT 7 ? ? N1 C DT 7 ? ? 111.10 108.30 2.80 0.30 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 ARG A 110 ? ? 175.04 -176.69 2 1 ASP A 163 ? ? -161.41 -168.17 3 1 ARG A 210 ? ? -103.46 41.98 4 1 PRO A 229 ? ? -101.96 42.43 # 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 GLY 204 ? C GLY 149 2 1 Y 1 A LYS 205 ? C LYS 150 3 1 Y 1 A SER 206 ? C SER 151 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3BTY 'double helix' 3BTY 'b-form double helix' 3BTY 'bulge loop' # 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 A DG 3 1_555 B DC 12 1_555 -0.265 -0.206 0.454 -2.922 -12.532 0.506 1 B_DG3:DC12_C B 3 ? C 12 ? 19 1 1 A DT 4 1_555 B DA 11 1_555 -0.100 -0.128 -0.041 -0.631 -8.999 2.954 2 B_DT4:DA11_C B 4 ? C 11 ? 20 1 1 A DA 5 1_555 B DT 10 1_555 -0.186 -0.407 -0.635 2.033 -7.828 1.702 3 B_DA5:DT10_C B 5 ? C 10 ? 20 1 1 A DT 6 1_555 B DT 8 1_555 2.565 -1.586 0.507 44.765 -14.124 11.970 4 B_DT6:DT8_C B 6 ? C 8 ? 16 1 1 A DA 8 1_555 B DT 7 1_555 -0.156 -0.157 -0.036 -15.839 6.390 5.619 5 B_DA8:DT7_C B 8 ? C 7 ? 20 1 1 A DC 9 1_555 B DG 6 1_555 0.936 -0.233 0.348 -5.184 -17.446 5.711 6 B_DC9:DG6_C B 9 ? C 6 ? 19 1 1 A DT 10 1_555 B DA 5 1_555 -0.157 -0.465 -0.242 9.152 -10.049 -1.186 7 B_DT10:DA5_C B 10 ? C 5 ? 20 1 1 A DG 11 1_555 B DC 4 1_555 -0.067 -0.168 0.119 -2.567 -13.904 3.587 8 B_DG11:DC4_C B 11 ? C 4 ? 19 1 1 A DC 12 1_555 B DG 3 1_555 0.752 -0.328 0.480 -14.072 -10.015 -0.493 9 B_DC12:DG3_C B 12 ? C 3 ? 19 1 1 A DG 13 1_555 B DC 2 1_555 -0.256 -0.156 0.111 -3.673 -5.592 0.871 10 B_DG13:DC2_C B 13 ? C 2 ? 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 A DG 3 1_555 B DC 12 1_555 A DT 4 1_555 B DA 11 1_555 -0.777 -1.132 3.251 5.754 1.544 30.203 -2.425 2.549 2.995 2.928 -10.908 30.772 1 BB_DG3DT4:DA11DC12_CC B 3 ? C 12 ? B 4 ? C 11 ? 1 A DT 4 1_555 B DA 11 1_555 A DA 5 1_555 B DT 10 1_555 -0.123 -0.443 3.475 1.271 9.507 31.896 -2.430 0.436 3.207 16.830 -2.251 33.271 2 BB_DT4DA5:DT10DA11_CC B 4 ? C 11 ? B 5 ? C 10 ? 1 A DA 5 1_555 B DT 10 1_555 A DT 6 1_555 B DT 8 1_555 1.284 0.805 2.197 -5.912 0.307 46.724 0.992 -1.923 2.034 0.385 7.420 47.076 3 BB_DA5DT6:DT8DT10_CC B 5 ? C 10 ? B 6 ? C 8 ? 1 A DA 8 1_555 B DT 7 1_555 A DC 9 1_555 B DG 6 1_555 -0.899 -0.170 3.415 2.394 -7.300 33.209 0.919 1.932 3.306 -12.564 -4.121 34.062 4 BB_DA8DC9:DG6DT7_CC B 8 ? C 7 ? B 9 ? C 6 ? 1 A DC 9 1_555 B DG 6 1_555 A DT 10 1_555 B DA 5 1_555 -0.504 -0.197 2.832 5.480 3.979 25.492 -1.332 2.344 2.608 8.820 -12.147 26.362 5 BB_DC9DT10:DA5DG6_CC B 9 ? C 6 ? B 10 ? C 5 ? 1 A DT 10 1_555 B DA 5 1_555 A DG 11 1_555 B DC 4 1_555 0.627 0.133 3.599 -0.390 8.280 37.567 -0.936 -1.006 3.541 12.669 0.597 38.438 6 BB_DT10DG11:DC4DA5_CC B 10 ? C 5 ? B 11 ? C 4 ? 1 A DG 11 1_555 B DC 4 1_555 A DC 12 1_555 B DG 3 1_555 0.569 -0.467 3.566 -1.069 -0.227 34.963 -0.739 -1.122 3.550 -0.377 1.779 34.979 7 BB_DG11DC12:DG3DC4_CC B 11 ? C 4 ? B 12 ? C 3 ? 1 A DC 12 1_555 B DG 3 1_555 A DG 13 1_555 B DC 2 1_555 -0.462 -0.350 2.982 3.387 9.112 30.243 -2.131 1.399 2.699 16.924 -6.290 31.732 8 BB_DC12DG13:DC2DG3_CC B 12 ? C 3 ? B 13 ? C 2 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 4 propane-1-thiol XL3 5 water HOH #