data_6G6Z # _model_server_result.job_id it8-cGRb9og3lDYwik_XPg _model_server_result.datetime_utc '2024-10-22 03:25:21' _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 6g6z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 6G6Z # _exptl.entry_id 6G6Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 6G6Z _cell.length_a 100.295 _cell.length_b 100.295 _cell.length_c 185.372 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G6Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OG1 THR 114 A THR 112 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc2 B O3B ADP . A ADP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc3 C MG MG . A MG 402 1_555 E O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? metalc ? metalc4 C MG MG . A MG 402 1_555 E O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.858 ? metalc ? metalc5 C MG MG . A MG 402 1_555 E O HOH . A HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.891 ? metalc ? metalc6 C MG MG . A MG 402 1_555 E O HOH . A HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.954 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 6G6Z _atom_sites.fract_transf_matrix[1][1] 0.009971 _atom_sites.fract_transf_matrix[1][2] 0.005757 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011513 _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] 0.005395 _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 B 2 ADP A 1 401 402 ADP ADP . C 3 MG A 1 402 403 MG MG . D 4 EOK A 1 403 404 EOK EOK . E 5 HOH A 1 501 502 HOH HOH . E 5 HOH A 2 502 503 HOH HOH . E 5 HOH A 3 503 504 HOH HOH . E 5 HOH A 4 504 505 HOH HOH . E 5 HOH A 5 505 509 HOH HOH . E 5 HOH A 6 506 510 HOH HOH . E 5 HOH A 7 507 512 HOH HOH . E 5 HOH A 8 508 513 HOH HOH . E 5 HOH A 9 509 514 HOH HOH . E 5 HOH A 10 510 515 HOH HOH . E 5 HOH A 11 511 517 HOH HOH . E 5 HOH A 12 512 520 HOH HOH . E 5 HOH A 13 513 523 HOH HOH . E 5 HOH A 14 514 524 HOH HOH . E 5 HOH A 15 515 526 HOH HOH . E 5 HOH A 16 516 527 HOH HOH . E 5 HOH A 17 517 528 HOH HOH . E 5 HOH A 18 518 529 HOH HOH . E 5 HOH A 19 519 530 HOH HOH . E 5 HOH A 20 520 531 HOH HOH . E 5 HOH A 21 521 533 HOH HOH . E 5 HOH A 22 522 534 HOH HOH . E 5 HOH A 23 523 535 HOH HOH . E 5 HOH A 24 524 536 HOH HOH . E 5 HOH A 25 525 537 HOH HOH . E 5 HOH A 26 526 538 HOH HOH . E 5 HOH A 27 527 539 HOH HOH . E 5 HOH A 28 528 541 HOH HOH . E 5 HOH A 29 529 542 HOH HOH . E 5 HOH A 30 530 543 HOH HOH . E 5 HOH A 31 531 532 HOH HOH . E 5 HOH A 32 532 545 HOH HOH . E 5 HOH A 33 533 546 HOH HOH . E 5 HOH A 34 534 547 HOH HOH . E 5 HOH A 35 535 548 HOH HOH . E 5 HOH A 36 536 549 HOH HOH . E 5 HOH A 37 537 544 HOH HOH . E 5 HOH A 38 538 551 HOH HOH . E 5 HOH A 39 539 552 HOH HOH . E 5 HOH A 40 540 553 HOH HOH . E 5 HOH A 41 541 554 HOH HOH . # 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 ADP . . . B 2 -23.452 -26.991 -6.036 1 61.97 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . B 2 -23.456 -25.739 -6.891 1 65.07 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . B 2 -23.826 -28.324 -6.685 1 55.53 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . B 2 -22.183 -27.034 -5.23 1 56.54 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . B 2 -24.813 -25.636 -3.845 1 61.92 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . B 2 -24.039 -24.432 -4.319 1 61.96 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . B 2 -24.459 -26.12 -2.496 1 61.25 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . B 2 -24.692 -26.773 -4.999 1 60.32 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . B 2 -26.429 -25.485 -3.82 1 63.35 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . B 2 -27.147 -24.502 -4.554 1 61.66 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . B 2 -28.234 -23.845 -3.711 1 65.8 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . B 2 -29.297 -24.763 -3.484 1 69.39 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . B 2 -27.757 -23.375 -2.349 1 68.83 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . B 2 -28.365 -22.102 -2.11 1 74.05 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . B 2 -28.298 -24.392 -1.352 1 66.52 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . B 2 -28.78 -23.815 -0.135 1 68.75 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . B 2 -29.484 -24.962 -2.07 1 67.68 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . B 2 -29.625 -26.397 -1.771 1 67.44 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . B 2 -28.995 -27.39 -2.424 1 69.19 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . B 2 -29.376 -28.607 -1.945 1 70.12 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . B 2 -30.285 -28.397 -0.969 1 68.9 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . B 2 -31.057 -29.259 -0.036 1 68.27 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . B 2 -30.957 -30.61 -0.061 1 68.37 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . B 2 -31.872 -28.646 0.844 1 69.71 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . B 2 -31.965 -27.293 0.867 1 71.3 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . B 2 -31.295 -26.429 0.075 1 66.61 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . B 2 -30.447 -26.928 -0.86 1 68.76 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #