data_7VW6 # _model_server_result.job_id f6WSgJadU_4EmRXyNkycCA _model_server_result.datetime_utc '2025-02-05 18:08:28' _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 7vw6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1006}' # _entry.id 7VW6 # _exptl.entry_id 7VW6 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 740.557 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE' _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 7VW6 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7VW6 _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 ? 5 G N N ? 5 H N N # 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 metalc ? metalc1 A SG CYS 102 A CYS 102 1_555 E FE2 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc2 A SG CYS 115 A CYS 115 1_555 E FE2 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc3 A SG CYS 118 A CYS 118 1_555 E FE1 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc4 A SG CYS 132 A CYS 132 1_555 E FE1 FES . A FES 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc5 A SG CYS 213 A CYS 213 1_555 C FE4 SF4 . A SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc6 A SG CYS 216 A CYS 216 1_555 C FE2 SF4 . A SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc7 A SG CYS 219 A CYS 219 1_555 C FE1 SF4 . A SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc8 A SG CYS 223 A CYS 223 1_555 D FE4 SF4 . A SF4 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc9 A SG CYS 256 A CYS 256 1_555 D FE1 SF4 . A SF4 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc10 A SG CYS 259 A CYS 259 1_555 D FE2 SF4 . A SF4 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc11 A SG CYS 262 A CYS 262 1_555 D FE3 SF4 . A SF4 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc12 A SG CYS 266 A CYS 266 1_555 C FE3 SF4 . A SF4 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc13 A SG CYS 295 A CYS 295 1_555 F FE3 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc14 A SG CYS 298 A CYS 298 1_555 F FE2 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc15 A SG CYS 302 A CYS 302 1_555 F FE4 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc16 A SG CYS 329 A CYS 329 1_555 F FE1 SF4 . A SF4 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc17 A SG CYS 436 A CYS 436 1_555 I W W . A W 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.78 ? metalc ? metalc18 G S12 MGD . A MGD 1005 1_555 I W W . A W 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.551 ? metalc ? metalc19 G S13 MGD . A MGD 1005 1_555 I W W . A W 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc20 H S12 MGD . A MGD 1006 1_555 I W W . A W 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc21 H S13 MGD . A MGD 1006 1_555 I W W . A W 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc22 B SG CYS 113 B CYS 1134 1_555 K FE2 FES . B FES 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc23 B SG CYS 118 B CYS 1139 1_555 K FE2 FES . B FES 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc24 B SG CYS 146 B CYS 1167 1_555 K FE1 FES . B FES 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc25 B SG CYS 150 B CYS 1171 1_555 K FE1 FES . B FES 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc26 B SG CYS 502 B CYS 1523 1_555 L FE1 SF4 . B SF4 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc27 B SG CYS 505 B CYS 1526 1_555 L FE2 SF4 . B SF4 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc28 B SG CYS 508 B CYS 1529 1_555 L FE3 SF4 . B SF4 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc29 B SG CYS 542 B CYS 1563 1_555 L FE4 SF4 . B SF4 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? # _chem_comp.formula 'C20 H26 N10 O13 P2 S2' _chem_comp.formula_weight 740.557 _chem_comp.id MGD _chem_comp.mon_nstd_flag . _chem_comp.name '2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'MOLYBDOPTERIN GUANOSINE DINUCLEOTIDE' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag PB O1B MGD doub 293 n n PB O2B MGD sing 294 n n PB O3B MGD sing 295 n n PB O5' MGD sing 296 n n O2B HOB2 MGD sing 297 n n O3B PA MGD sing 298 n n O3A PA MGD sing 299 n n O3A C10 MGD sing 300 n n PA O1A MGD doub 301 n n PA O2A MGD sing 302 n n O2A HOA2 MGD sing 303 n n O5' C5' MGD sing 304 n n C5' C4' MGD sing 305 n n C5' "H5'1" MGD sing 306 n n C5' "H5'2" MGD sing 307 n n C4' O4' MGD sing 308 n n C4' C3' MGD sing 309 n n C4' H4' MGD sing 310 n n O4' C1' MGD sing 311 n n C3' O3' MGD sing 312 n n C3' C2' MGD sing 313 n n C3' H3' MGD sing 314 n n O3' HO3' MGD sing 315 n n C2' O2' MGD sing 316 n n C2' C1' MGD sing 317 n n C2' H2' MGD sing 318 n n O2' HO2' MGD sing 319 n n C1' N9 MGD sing 320 n n C1' H1' MGD sing 321 n n N9 C8 MGD sing 322 n y N9 C4 MGD sing 323 n y C8 N7 MGD doub 324 n y C8 H8 MGD sing 325 n n N7 C5 MGD sing 326 n y C5 C6 MGD sing 327 n n C5 C4 MGD doub 328 n y C6 O6 MGD doub 329 n n C6 N1 MGD sing 330 n n N1 C2 MGD sing 331 n n N1 HN1 MGD sing 332 n n C2 N2 MGD sing 333 n n C2 N3 MGD doub 334 n n N2 HN21 MGD sing 335 n n N2 HN22 MGD sing 336 n n N3 C4 MGD sing 337 n n C10 C11 MGD sing 338 n n C10 H101 MGD sing 339 n n C10 H102 MGD sing 340 n n C11 O11 MGD sing 341 n n C11 C12 MGD sing 342 n n C11 H11 MGD sing 343 n n O11 C23 MGD sing 344 n n C12 S12 MGD sing 345 n n C12 C13 MGD doub 346 n n S12 H12 MGD sing 347 n n C13 S13 MGD sing 348 n n C13 C14 MGD sing 349 n n S13 H13 MGD sing 350 n n C14 N15 MGD sing 351 n n C14 C23 MGD sing 352 n n C14 H14 MGD sing 353 n n N15 C16 MGD sing 354 n n N15 H15 MGD sing 355 n n C16 C17 MGD sing 356 n n C16 C21 MGD doub 357 n n C17 O17 MGD doub 358 n n C17 N18 MGD sing 359 n n N18 C19 MGD sing 360 n n N18 H18 MGD sing 361 n n C19 N19 MGD sing 362 n n C19 N20 MGD doub 363 n n N19 H191 MGD sing 364 n n N19 H192 MGD sing 365 n n N20 C21 MGD sing 366 n n C21 N22 MGD sing 367 n n N22 C23 MGD sing 368 n n N22 H22 MGD sing 369 n n C23 H23 MGD sing 370 n n # _atom_sites.entry_id 7VW6 _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 C 3 SF4 A 1 1001 1002 SF4 SF4 . D 3 SF4 A 1 1002 1011 SF4 SF4 . E 4 FES A 1 1003 1012 FES FES . F 3 SF4 A 1 1004 1013 SF4 SF4 . G 5 MGD A 1 1005 1014 MGD MGD . H 5 MGD A 1 1006 1015 MGD MGD . I 6 W A 1 1007 1016 W W . J 7 UNX A 1 1008 1017 UNX UNX . K 4 FES B 1 1601 1601 FES FES . L 3 SF4 B 1 1602 1602 SF4 SF4 . M 8 FMN B 1 1603 1603 FMN FMN . # 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 P PB MGD . . . H 5 123.881 118.493 125.144 1 15.42 ? PB MGD 1006 A 1 HETATM 2 O O1B MGD . . . H 5 124.957 119.291 125.794 1 15.42 ? O1B MGD 1006 A 1 HETATM 3 O O2B MGD . . . H 5 122.948 119.19 124.216 1 15.42 ? O2B MGD 1006 A 1 HETATM 4 O O3B MGD . . . H 5 124.566 117.264 124.385 1 15.42 ? O3B MGD 1006 A 1 HETATM 5 O O3A MGD . . . H 5 125.184 115.291 123.065 1 15.42 ? O3A MGD 1006 A 1 HETATM 6 P PA MGD . . . H 5 124.126 115.741 124.178 1 15.42 ? PA MGD 1006 A 1 HETATM 7 O O1A MGD . . . H 5 122.756 115.705 123.589 1 15.42 ? O1A MGD 1006 A 1 HETATM 8 O O2A MGD . . . H 5 124.41 114.976 125.425 1 15.42 ? O2A MGD 1006 A 1 HETATM 9 O O5' MGD . . . H 5 123.036 117.697 126.244 1 15.42 ? O5' MGD 1006 A 1 HETATM 10 C C5' MGD . . . H 5 122.568 118.43 127.389 1 15.42 ? C5' MGD 1006 A 1 HETATM 11 C C4' MGD . . . H 5 121.111 118.129 127.619 1 15.42 ? C4' MGD 1006 A 1 HETATM 12 O O4' MGD . . . H 5 120.93 117.933 129.045 1 15.42 ? O4' MGD 1006 A 1 HETATM 13 C C3' MGD . . . H 5 120.145 119.262 127.245 1 15.42 ? C3' MGD 1006 A 1 HETATM 14 O O3' MGD . . . H 5 118.879 118.724 126.889 1 15.42 ? O3' MGD 1006 A 1 HETATM 15 C C2' MGD . . . H 5 120.06 120.028 128.566 1 15.42 ? C2' MGD 1006 A 1 HETATM 16 O O2' MGD . . . H 5 118.957 120.901 128.671 1 15.42 ? O2' MGD 1006 A 1 HETATM 17 C C1' MGD . . . H 5 119.991 118.858 129.538 1 15.42 ? C1' MGD 1006 A 1 HETATM 18 N N9 MGD . . . H 5 120.365 119.191 130.906 1 15.42 ? N9 MGD 1006 A 1 HETATM 19 C C8 MGD . . . H 5 120.817 120.399 131.37 1 15.42 ? C8 MGD 1006 A 1 HETATM 20 N N7 MGD . . . H 5 121.074 120.396 132.655 1 15.42 ? N7 MGD 1006 A 1 HETATM 21 C C5 MGD . . . H 5 120.786 119.099 133.059 1 15.42 ? C5 MGD 1006 A 1 HETATM 22 C C6 MGD . . . H 5 120.877 118.502 134.34 1 15.42 ? C6 MGD 1006 A 1 HETATM 23 O O6 MGD . . . H 5 121.241 119.021 135.403 1 15.42 ? O6 MGD 1006 A 1 HETATM 24 N N1 MGD . . . H 5 120.487 117.163 134.305 1 15.42 ? N1 MGD 1006 A 1 HETATM 25 C C2 MGD . . . H 5 120.06 116.488 133.188 1 15.42 ? C2 MGD 1006 A 1 HETATM 26 N N2 MGD . . . H 5 119.728 115.201 133.349 1 15.42 ? N2 MGD 1006 A 1 HETATM 27 N N3 MGD . . . H 5 119.972 117.046 131.983 1 15.42 ? N3 MGD 1006 A 1 HETATM 28 C C4 MGD . . . H 5 120.349 118.347 131.992 1 15.42 ? C4 MGD 1006 A 1 HETATM 29 C C10 MGD . . . H 5 126.595 115.541 123.286 1 15.42 ? C10 MGD 1006 A 1 HETATM 30 C C11 MGD . . . H 5 127.361 114.946 122.124 1 15.42 ? C11 MGD 1006 A 1 HETATM 31 O O11 MGD . . . H 5 126.808 115.542 120.946 1 15.42 ? O11 MGD 1006 A 1 HETATM 32 C C12 MGD . . . H 5 128.839 115.183 122.245 1 15.42 ? C12 MGD 1006 A 1 HETATM 33 S S12 MGD . . . H 5 129.601 114.84 123.795 1 15.42 ? S12 MGD 1006 A 1 HETATM 34 C C13 MGD . . . H 5 129.582 115.593 121.165 1 15.42 ? C13 MGD 1006 A 1 HETATM 35 S S13 MGD . . . H 5 131.326 115.711 121.285 1 15.42 ? S13 MGD 1006 A 1 HETATM 36 C C14 MGD . . . H 5 128.929 115.902 119.838 1 15.42 ? C14 MGD 1006 A 1 HETATM 37 N N15 MGD . . . H 5 128.795 117.338 119.619 1 15.42 ? N15 MGD 1006 A 1 HETATM 38 C C16 MGD . . . H 5 127.822 117.843 118.777 1 15.42 ? C16 MGD 1006 A 1 HETATM 39 C C17 MGD . . . H 5 127.804 119.191 118.403 1 15.42 ? C17 MGD 1006 A 1 HETATM 40 O O17 MGD . . . H 5 128.623 120.03 118.775 1 15.42 ? O17 MGD 1006 A 1 HETATM 41 N N18 MGD . . . H 5 126.783 119.588 117.558 1 15.42 ? N18 MGD 1006 A 1 HETATM 42 C C19 MGD . . . H 5 125.833 118.712 117.103 1 15.42 ? C19 MGD 1006 A 1 HETATM 43 N N19 MGD . . . H 5 124.884 119.187 116.292 1 15.42 ? N19 MGD 1006 A 1 HETATM 44 N N20 MGD . . . H 5 125.846 117.436 117.45 1 15.42 ? N20 MGD 1006 A 1 HETATM 45 C C21 MGD . . . H 5 126.831 116.989 118.28 1 15.42 ? C21 MGD 1006 A 1 HETATM 46 N N22 MGD . . . H 5 126.82 115.681 118.625 1 15.42 ? N22 MGD 1006 A 1 HETATM 47 C C23 MGD . . . H 5 127.553 115.216 119.774 1 15.42 ? C23 MGD 1006 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 47 #