data_6WXV # _model_server_result.job_id XJai4P1WJJ-qF6xhzlcAfw _model_server_result.datetime_utc '2024-11-04 22:43:21' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6wxv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1606}' # _entry.id 6WXV # _exptl.entry_id 6WXV _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 618.503 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME B/C' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6WXV _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WXV _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 ? _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 H N N ? 6 I N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing 4 ? 3 5 4 MAN MAN C1 O1 . O3 HO3 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG B 500 NAG 3 n C NAG 2 C 2 NAG B 501 NAG 3 n C BMA 3 C 3 BMA B 502 BMA 3 n C MAN 4 C 4 MAN B 503 MAN 3 n C MAN 5 C 5 MAN B 505 MAN # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 103 A CYS 118 1_555 A SG CYS 1150 A CYS 1165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 330 A CYS 345 1_555 A SG CYS 550 A CYS 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 349 A CYS 364 1_555 A SG CYS 564 A CYS 579 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 167 B CYS 167 1_555 B SG CYS 234 B CYS 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A ND2 ASN 79 A ASN 94 1_555 E C1 NAG . A NAG 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A ND2 ASN 327 A ASN 342 1_555 F C1 NAG . A NAG 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 A ND2 ASN 519 A ASN 534 1_555 G C1 NAG . A NAG 1604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale4 B ND2 ASN 84 B ASN 84 1_555 M C1 NAG . B NAG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 B ND2 ASN 109 B ASN 109 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale8 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale9 C O3 MAN . C MAN 4 1_555 C C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? metalc ? metalc1 A O ASP 94 A ASP 109 1_555 L CA CA . A CA 1609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc2 A OD1 ASP 94 A ASP 109 1_555 L CA CA . A CA 1609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc3 A O THR 155 A THR 170 1_555 L CA CA . A CA 1609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc4 A OG1 THR 155 A THR 170 1_555 L CA CA . A CA 1609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.622 ? metalc ? metalc5 A O TRP 157 A TRP 172 1_555 L CA CA . A CA 1609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? metalc ? metalc6 A OD1 ASP 159 A ASP 174 1_555 L CA CA . A CA 1609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.113 ? metalc ? metalc7 A NE2 HIS 1129 A HIS 1144 1_555 I FE HEB . A HEB 1606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? metalc ? metalc8 A NE2 HIS 1210 A HIS 1225 1_555 H FE HEB . A HEB 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? # _chem_comp.formula 'C34 H34 Fe N4 O4' _chem_comp.formula_weight 618.503 _chem_comp.id HEB _chem_comp.mon_nstd_flag . _chem_comp.name 'HEME B/C' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'HYBRID BETWEEN B AND C TYPE HEMES (PROTOPORPHYRIN IX CONTAINING FE)' # _atom_sites.entry_id 6WXV _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code D 4 FAD A 1 1601 1601 FAD FAD . E 5 NAG A 1 1602 1610 NAG NAG . F 5 NAG A 1 1603 1611 NAG NAG . G 5 NAG A 1 1604 1612 NAG NAG . H 6 HEB A 1 1605 1701 HEB LIG . I 6 HEB A 1 1606 1801 HEB LIG . J 7 NDP A 1 1607 2201 NDP NDP . K 8 PLC A 1 1608 2301 PLC PLC . L 9 CA A 1 1609 2401 CA CA . M 5 NAG B 1 406 506 NAG NAG . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 FE FE HEB . . . I 6 129.991 134.209 127.339 1 0 ? FE HEB 1606 A 1 HETATM 2 C CHA HEB . . . I 6 132.85 132.949 125.93 1 0 ? CHA HEB 1606 A 1 HETATM 3 C CHB HEB . . . I 6 128.818 135.047 124.2 1 0 ? CHB HEB 1606 A 1 HETATM 4 C CHC HEB . . . I 6 127.124 135.475 128.746 1 0 ? CHC HEB 1606 A 1 HETATM 5 C CHD HEB . . . I 6 131.152 133.338 130.481 1 0 ? CHD HEB 1606 A 1 HETATM 6 N NA HEB . . . I 6 130.683 134.052 125.47 1 0 ? NA HEB 1606 A 1 HETATM 7 C C1A HEB . . . I 6 131.85 133.478 125.118 1 0 ? C1A HEB 1606 A 1 HETATM 8 C C2A HEB . . . I 6 131.981 133.506 123.736 1 0 ? C2A HEB 1606 A 1 HETATM 9 C C3A HEB . . . I 6 130.826 134.097 123.241 1 0 ? C3A HEB 1606 A 1 HETATM 10 C C4A HEB . . . I 6 130.046 134.417 124.343 1 0 ? C4A HEB 1606 A 1 HETATM 11 C CMA HEB . . . I 6 130.477 134.347 121.799 1 0 ? CMA HEB 1606 A 1 HETATM 12 C CAA HEB . . . I 6 133.142 132.961 122.943 1 0 ? CAA HEB 1606 A 1 HETATM 13 C CBA HEB . . . I 6 132.81 131.549 122.477 1 0 ? CBA HEB 1606 A 1 HETATM 14 C CGA HEB . . . I 6 134.083 130.762 122.288 1 0 ? CGA HEB 1606 A 1 HETATM 15 O O1A HEB . . . I 6 135.176 131.365 122.33 1 0 ? O1A HEB 1606 A 1 HETATM 16 O O2A HEB . . . I 6 133.994 129.531 122.098 1 0 ? O2A HEB 1606 A 1 HETATM 17 N NB HEB . . . I 6 128.34 135.066 126.629 1 0 ? NB HEB 1606 A 1 HETATM 18 C C1B HEB . . . I 6 128.068 135.338 125.331 1 0 ? C1B HEB 1606 A 1 HETATM 19 C C2B HEB . . . I 6 126.838 135.973 125.216 1 0 ? C2B HEB 1606 A 1 HETATM 20 C C3B HEB . . . I 6 126.381 136.087 126.519 1 0 ? C3B HEB 1606 A 1 HETATM 21 C C4B HEB . . . I 6 127.314 135.526 127.372 1 0 ? C4B HEB 1606 A 1 HETATM 22 C CMB HEB . . . I 6 126.181 136.432 123.941 1 0 ? CMB HEB 1606 A 1 HETATM 23 C CAB HEB . . . I 6 125.1 136.692 126.959 1 0 ? CAB HEB 1606 A 1 HETATM 24 C CBB HEB . . . I 6 124.717 137.89 126.554 1 0 ? CBB HEB 1606 A 1 HETATM 25 N NC HEB . . . I 6 129.304 134.379 129.204 1 0 ? NC HEB 1606 A 1 HETATM 26 C C1C HEB . . . I 6 128.101 134.898 129.547 1 0 ? C1C HEB 1606 A 1 HETATM 27 C C2C HEB . . . I 6 127.923 134.821 130.918 1 0 ? C2C HEB 1606 A 1 HETATM 28 C C3C HEB . . . I 6 129.067 134.216 131.396 1 0 ? C3C HEB 1606 A 1 HETATM 29 C C4C HEB . . . I 6 129.907 133.937 130.33 1 0 ? C4C HEB 1606 A 1 HETATM 30 C CMC HEB . . . I 6 126.725 135.278 131.697 1 0 ? CMC HEB 1606 A 1 HETATM 31 C CAC HEB . . . I 6 129.317 133.902 132.824 1 0 ? CAC HEB 1606 A 1 HETATM 32 C CBC HEB . . . I 6 129.592 132.671 133.209 1 0 ? CBC HEB 1606 A 1 HETATM 33 N ND HEB . . . I 6 131.635 133.339 128.051 1 0 ? ND HEB 1606 A 1 HETATM 34 C C1D HEB . . . I 6 131.916 133.088 129.346 1 0 ? C1D HEB 1606 A 1 HETATM 35 C C2D HEB . . . I 6 133.163 132.492 129.446 1 0 ? C2D HEB 1606 A 1 HETATM 36 C C3D HEB . . . I 6 133.649 132.381 128.151 1 0 ? C3D HEB 1606 A 1 HETATM 37 C C4D HEB . . . I 6 132.68 132.917 127.312 1 0 ? C4D HEB 1606 A 1 HETATM 38 C CMD HEB . . . I 6 133.847 132.056 130.713 1 0 ? CMD HEB 1606 A 1 HETATM 39 C CAD HEB . . . I 6 134.976 131.8 127.747 1 0 ? CAD HEB 1606 A 1 HETATM 40 C CBD HEB . . . I 6 134.819 130.324 127.417 1 0 ? CBD HEB 1606 A 1 HETATM 41 C CGD HEB . . . I 6 136.197 129.77 127.166 1 0 ? CGD HEB 1606 A 1 HETATM 42 O O1D HEB . . . I 6 137.171 130.522 127.383 1 0 ? O1D HEB 1606 A 1 HETATM 43 O O2D HEB . . . I 6 136.313 128.596 126.759 1 0 ? O2D HEB 1606 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #