data_2W54 # _model_server_result.job_id buNVAWNP9R3bYh6eXtU51A _model_server_result.datetime_utc '2024-11-23 03:09:27' _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 2w54 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":1778}' # _entry.id 2W54 # _exptl.entry_id 2W54 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 554.348 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '{[(5aR,8R,9aR)-2-amino-4-oxo-6,7-di(sulfanyl-kappaS)-3,5,5a,8,9a,10-hexahydro-4H-pyrano[3,2-g]pteridin-8-yl]methyl dihydrogenato(2-) phosphate}(hydroxy)oxo(thioxo)molybdenum' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 109.63 _cell.angle_beta 105.83 _cell.angle_gamma 101.23 _cell.entry_id 2W54 _cell.length_a 92.571 _cell.length_b 140.695 _cell.length_c 157.859 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2W54 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS dimeric 2 author_and_software_defined_assembly 1 PQS dimeric 2 author_and_software_defined_assembly 2 PQS dimeric 2 author_and_software_defined_assembly 3 PQS dimeric 2 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,K,L,M,N 1 1 C,D,O,P,Q,R,S,T 2 1 E,F,U,V,W,X,Y,Z 3 1 G,H,AA,BA,CA,DA,EA,FA 4 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 x,y,z _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 L N N ? 5 R N N ? 5 X N N ? 5 DA 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 39 A CYS 39 1_555 J FE1 FES . A FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc2 A SG CYS 44 A CYS 44 1_555 J FE1 FES . A FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc3 A SG CYS 47 A CYS 47 1_555 J FE2 FES . A FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc4 A SG CYS 63 A CYS 63 1_555 J FE2 FES . A FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? metalc ? metalc5 A SG CYS 103 A CYS 103 1_555 I FE2 FES . A FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? metalc ? metalc6 A SG CYS 106 A CYS 106 1_555 I FE1 FES . A FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc7 A SG CYS 134 A CYS 134 1_555 I FE1 FES . A FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc8 A SG CYS 136 A CYS 136 1_555 I FE2 FES . A FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc9 B OE2 GLU 172 B GLU 172 1_555 M BA BA . B BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.441 ? metalc ? metalc10 B OE1 GLU 172 B GLU 172 1_555 M BA BA . B BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.54 ? metalc ? metalc11 B ND1 HIS 173 B HIS 173 1_555 M BA BA . B BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.181 ? metalc ? metalc12 B OH TYR 175 B TYR 175 1_555 M BA BA . B BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.535 ? metalc ? metalc13 B OG1 THR 266 B THR 266 1_555 M BA BA . B BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.112 ? metalc ? metalc14 B O GLY 267 B GLY 267 1_555 M BA BA . B BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.992 ? metalc ? metalc15 C SG CYS 39 C CYS 39 1_555 P FE1 FES . C FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.492 ? metalc ? metalc16 C SG CYS 44 C CYS 44 1_555 P FE1 FES . C FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc17 C SG CYS 47 C CYS 47 1_555 P FE2 FES . C FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc18 C SG CYS 63 C CYS 63 1_555 P FE2 FES . C FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc19 C SG CYS 103 C CYS 103 1_555 O FE2 FES . C FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc20 C SG CYS 106 C CYS 106 1_555 O FE1 FES . C FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc21 C SG CYS 134 C CYS 134 1_555 O FE1 FES . C FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc22 C SG CYS 136 C CYS 136 1_555 O FE2 FES . C FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc23 D OE2 GLU 172 D GLU 172 1_555 S BA BA . D BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.42 ? metalc ? metalc24 D OG1 THR 266 D THR 266 1_555 S BA BA . D BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.961 ? metalc ? metalc25 D O GLY 267 D GLY 267 1_555 S BA BA . D BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? metalc ? metalc26 E SG CYS 44 E CYS 44 1_555 V FE1 FES . E FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc27 E SG CYS 47 E CYS 47 1_555 V FE2 FES . E FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc28 E SG CYS 63 E CYS 63 1_555 V FE2 FES . E FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc29 E SG CYS 103 E CYS 103 1_555 U FE2 FES . E FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc30 E SG CYS 106 E CYS 106 1_555 U FE1 FES . E FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc31 E SG CYS 134 E CYS 134 1_555 U FE1 FES . E FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc32 E SG CYS 136 E CYS 136 1_555 U FE2 FES . E FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc33 F OE2 GLU 172 F GLU 172 1_555 Y BA BA . F BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.329 ? metalc ? metalc34 F ND1 HIS 173 F HIS 173 1_555 Y BA BA . F BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? metalc ? metalc35 F OG1 THR 266 F THR 266 1_555 Y BA BA . F BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.23 ? metalc ? metalc36 F O GLY 267 F GLY 267 1_555 Y BA BA . F BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.996 ? metalc ? metalc37 G SG CYS 44 G CYS 44 1_555 BA FE1 FES . G FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc38 G SG CYS 47 G CYS 47 1_555 BA FE2 FES . G FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? metalc ? metalc39 G SG CYS 63 G CYS 63 1_555 BA FE2 FES . G FES 1464 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc40 G SG CYS 103 G CYS 103 1_555 AA FE2 FES . G FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc41 G SG CYS 106 G CYS 106 1_555 AA FE1 FES . G FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc42 G SG CYS 134 G CYS 134 1_555 AA FE1 FES . G FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? metalc ? metalc43 G SG CYS 136 G CYS 136 1_555 AA FE2 FES . G FES 1463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc44 H OE2 GLU 172 H GLU 172 1_555 EA BA BA . H BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.579 ? metalc ? metalc45 H OE1 GLU 172 H GLU 172 1_555 EA BA BA . H BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.478 ? metalc ? metalc46 H OG1 THR 266 H THR 266 1_555 EA BA BA . H BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.216 ? metalc ? metalc47 H O GLY 267 H GLY 267 1_555 EA BA BA . H BA 1779 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? # _chem_comp.formula 'C10 H13 Mo N5 O8 P S3' _chem_comp.formula_weight 554.348 _chem_comp.id XAX _chem_comp.mon_nstd_flag . _chem_comp.name '{[(5aR,8R,9aR)-2-amino-4-oxo-6,7-di(sulfanyl-kappaS)-3,5,5a,8,9a,10-hexahydro-4H-pyrano[3,2-g]pteridin-8-yl]methyl dihydrogenato(2-) phosphate}(hydroxy)oxo(thioxo)molybdenum' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O2P P XAX doub 491 n n O3P P XAX sing 492 n n P O1P XAX sing 493 n n P O4' XAX sing 494 n n S2' MO XAX sing 495 n n O1 MO XAX doub 496 n n S1' MO XAX sing 497 n n MO S3 XAX doub 498 n n MO O2 XAX sing 499 n n N1 C10 XAX sing 500 n n N1 C2 XAX doub 501 n n N2 C2 XAX sing 502 n n C2 N3 XAX sing 503 n n N3 C4 XAX sing 504 n n C9 C4 XAX sing 505 n n C4 O4 XAX doub 506 n n C6 N5 XAX sing 507 n n C9 N5 XAX sing 508 n n C7 C6 XAX sing 509 n n C6 C1' XAX sing 510 n n N8 C7 XAX sing 511 n n O3' C7 XAX sing 512 n n N8 C10 XAX sing 513 n n C10 C9 XAX doub 514 n n C2' C1' XAX doub 515 n n C1' S1' XAX sing 516 n n C3' C2' XAX sing 517 n n C2' S2' XAX sing 518 n n O3' C3' XAX sing 519 n n C3' C4' XAX sing 520 n n O4' C4' XAX sing 521 n n N2 HN2 XAX sing 522 n n N2 HN2A XAX sing 523 n n O2 HO2 XAX sing 524 n n N3 HN3 XAX sing 525 n n N5 HN5 XAX sing 526 n n C6 H6 XAX sing 527 n n C7 H7 XAX sing 528 n n N8 HN8 XAX sing 529 n n O1P HO1P XAX sing 530 n n C3' H3' XAX sing 531 n n O3P HO3P XAX sing 532 n n C4' H4' XAX sing 533 n n C4' "H4'A" XAX sing 534 n n # _atom_sites.entry_id 2W54 _atom_sites.fract_transf_matrix[1][1] 0.010803 _atom_sites.fract_transf_matrix[1][2] 0.002145 _atom_sites.fract_transf_matrix[1][3] 0.004333 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007246 _atom_sites.fract_transf_matrix[2][3] 0.003279 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.007227 _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 I 3 FES A 1 1463 1463 FES FES . J 3 FES A 1 1464 1464 FES FES . K 4 FAD A 1 1465 1465 FAD FAD . L 5 XAX B 1 1778 1778 XAX XAX . M 6 BA B 1 1779 1779 BA BA . N 7 HHR B 1 1780 1780 HHR HHR . O 3 FES C 1 1463 1463 FES FES . P 3 FES C 1 1464 1464 FES FES . Q 4 FAD C 1 1465 1465 FAD FAD . R 5 XAX D 1 1778 1778 XAX XAX . S 6 BA D 1 1779 1779 BA BA . T 7 HHR D 1 1780 1780 HHR HHR . U 3 FES E 1 1463 1463 FES FES . V 3 FES E 1 1464 1464 FES FES . W 4 FAD E 1 1465 1465 FAD FAD . X 5 XAX F 1 1778 1778 XAX XAX . Y 6 BA F 1 1779 1779 BA BA . Z 7 HHR F 1 1780 1780 HHR HHR . AA 3 FES G 1 1463 1463 FES FES . BA 3 FES G 1 1464 1464 FES FES . CA 4 FAD G 1 1465 1465 FAD FAD . DA 5 XAX H 1 1778 1778 XAX XAX . EA 6 BA H 1 1779 1779 BA BA . FA 7 HHR H 1 1780 1780 HHR HHR . # 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 P XAX . . . X 5 5.753 44.954 60.725 0.7 30.1 ? P XAX 1778 F 1 HETATM 2 MO MO XAX . . . X 5 6.201 44.437 67.823 0.7 33 ? MO XAX 1778 F 1 HETATM 3 N N1 XAX . . . X 5 11.975 48.53 62.603 0.7 27.92 ? N1 XAX 1778 F 1 HETATM 4 O O1 XAX . . . X 5 4.733 43.019 68.099 0.7 32.12 ? O1 XAX 1778 F 1 HETATM 5 C C2 XAX . . . X 5 12.189 49.841 62.89 0.7 27.48 ? C2 XAX 1778 F 1 HETATM 6 N N2 XAX . . . X 5 13.01 50.549 62.082 0.7 27.22 ? N2 XAX 1778 F 1 HETATM 7 O O2 XAX . . . X 5 5.141 45.615 68.445 0.7 32.18 ? O2 XAX 1778 F 1 HETATM 8 N N3 XAX . . . X 5 11.61 50.458 63.957 0.7 27.25 ? N3 XAX 1778 F 1 HETATM 9 S S3 XAX . . . X 5 6.74 43.927 69.727 0.7 33.13 ? S3 XAX 1778 F 1 HETATM 10 C C4 XAX . . . X 5 10.784 49.796 64.801 0.7 27.59 ? C4 XAX 1778 F 1 HETATM 11 O O4 XAX . . . X 5 10.265 50.384 65.774 0.7 26.87 ? O4 XAX 1778 F 1 HETATM 12 N N5 XAX . . . X 5 9.654 47.536 65.35 0.7 29.09 ? N5 XAX 1778 F 1 HETATM 13 C C6 XAX . . . X 5 9.431 46.245 65.086 0.7 29.78 ? C6 XAX 1778 F 1 HETATM 14 C C7 XAX . . . X 5 9.974 45.64 63.797 0.7 29.46 ? C7 XAX 1778 F 1 HETATM 15 N N8 XAX . . . X 5 10.952 46.455 63.084 0.7 28.82 ? N8 XAX 1778 F 1 HETATM 16 C C9 XAX . . . X 5 10.512 48.366 64.534 0.7 28.25 ? C9 XAX 1778 F 1 HETATM 17 C C1' XAX . . . X 5 8.373 45.671 65.664 0.7 30.82 ? C1' XAX 1778 F 1 HETATM 18 S S1' XAX . . . X 5 8.238 45.456 67.32 0.7 31.51 ? S1' XAX 1778 F 1 HETATM 19 C C10 XAX . . . X 5 11.167 47.762 63.368 0.7 28.34 ? C10 XAX 1778 F 1 HETATM 20 O O1P XAX . . . X 5 5.301 45.543 59.409 0.7 29.74 ? O1P XAX 1778 F 1 HETATM 21 C C2' XAX . . . X 5 7.402 45.268 64.855 0.7 31.1 ? C2' XAX 1778 F 1 HETATM 22 S S2' XAX . . . X 5 6.055 44.543 65.502 0.7 32.12 ? S2' XAX 1778 F 1 HETATM 23 O O2P XAX . . . X 5 6.827 43.889 60.645 0.7 29.54 ? O2P XAX 1778 F 1 HETATM 24 C C3' XAX . . . X 5 7.61 45.524 63.44 0.7 30.66 ? C3' XAX 1778 F 1 HETATM 25 O O3' XAX . . . X 5 8.926 45.293 62.874 0.7 29.87 ? O3' XAX 1778 F 1 HETATM 26 O O3P XAX . . . X 5 4.616 44.627 61.665 0.7 29.43 ? O3P XAX 1778 F 1 HETATM 27 C C4' XAX . . . X 5 6.741 46.325 62.804 0.7 30.69 ? C4' XAX 1778 F 1 HETATM 28 O O4' XAX . . . X 5 6.537 46.2 61.372 0.7 30.41 ? O4' XAX 1778 F 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 42 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 28 #