data_5GRI # _model_server_result.job_id Dle-EUtl1DBRGrbSkKL1GQ _model_server_result.datetime_utc '2024-11-22 18:50:32' _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 5gri # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 5GRI # _exptl.entry_id 5GRI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 192.124 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CITRIC ACID' _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 5GRI _cell.length_a 112.04 _cell.length_b 112.04 _cell.length_c 144.95 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GRI _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,F,G _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 4 _struct_asym.id D _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 O ASP 230 A ASP 230 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc2 A OD1 ASP 230 A ASP 230 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc3 A OD2 ASP 234 A ASP 234 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc4 C MG MG . A MG 401 1_555 B OD2 ASP 215 B ASP 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc5 F O HOH . A HOH 516 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? metalc ? metalc6 B OD1 ASN 78 B ASN 78 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.557 ? metalc ? metalc7 B O ARG 272 B ARG 272 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc8 D O5 CIT . B CIT 401 1_555 E MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc9 E MG MG . B MG 402 1_555 G O HOH . B HOH 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.75 ? metalc ? metalc10 E MG MG . B MG 402 1_555 G O HOH . B HOH 584 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? # _chem_comp.formula 'C6 H8 O7' _chem_comp.formula_weight 192.124 _chem_comp.id CIT _chem_comp.mon_nstd_flag . _chem_comp.name 'CITRIC ACID' _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 C1 O1 CIT doub 70 n n C1 O2 CIT sing 71 n n C1 C2 CIT sing 72 n n O2 HO2 CIT sing 73 n n C2 C3 CIT sing 74 n n C2 H21 CIT sing 75 n n C2 H22 CIT sing 76 n n C3 O7 CIT sing 77 n n C3 C4 CIT sing 78 n n C3 C6 CIT sing 79 n n O7 HO7 CIT sing 80 n n C4 C5 CIT sing 81 n n C4 H41 CIT sing 82 n n C4 H42 CIT sing 83 n n C5 O3 CIT doub 84 n n C5 O4 CIT sing 85 n n O4 HO4 CIT sing 86 n n C6 O5 CIT doub 87 n n C6 O6 CIT sing 88 n n O6 HO6 CIT sing 89 n n # _atom_sites.entry_id 5GRI _atom_sites.fract_transf_matrix[1][1] 0.008925 _atom_sites.fract_transf_matrix[1][2] 0.005153 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010306 _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] 0.006899 _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 MG A 1 401 1 MG MG . D 4 CIT B 1 401 1 CIT CIT . E 3 MG B 1 402 1 MG MG . F 5 HOH A 1 501 102 HOH HOH . F 5 HOH A 2 502 97 HOH HOH . F 5 HOH A 3 503 25 HOH HOH . F 5 HOH A 4 504 107 HOH HOH . F 5 HOH A 5 505 87 HOH HOH . F 5 HOH A 6 506 98 HOH HOH . F 5 HOH A 7 507 38 HOH HOH . F 5 HOH A 8 508 101 HOH HOH . F 5 HOH A 9 509 61 HOH HOH . F 5 HOH A 10 510 10 HOH HOH . F 5 HOH A 11 511 70 HOH HOH . F 5 HOH A 12 512 94 HOH HOH . F 5 HOH A 13 513 48 HOH HOH . F 5 HOH A 14 514 90 HOH HOH . F 5 HOH A 15 515 110 HOH HOH . F 5 HOH A 16 516 112 HOH HOH . F 5 HOH A 17 517 19 HOH HOH . F 5 HOH A 18 518 45 HOH HOH . F 5 HOH A 19 519 55 HOH HOH . G 5 HOH B 1 501 93 HOH HOH . G 5 HOH B 2 502 106 HOH HOH . G 5 HOH B 3 503 8 HOH HOH . G 5 HOH B 4 504 11 HOH HOH . G 5 HOH B 5 505 89 HOH HOH . G 5 HOH B 6 506 15 HOH HOH . G 5 HOH B 7 507 16 HOH HOH . G 5 HOH B 8 508 7 HOH HOH . G 5 HOH B 9 509 1 HOH HOH . G 5 HOH B 10 510 60 HOH HOH . G 5 HOH B 11 511 21 HOH HOH . G 5 HOH B 12 512 2 HOH HOH . G 5 HOH B 13 513 40 HOH HOH . G 5 HOH B 14 514 26 HOH HOH . G 5 HOH B 15 515 3 HOH HOH . G 5 HOH B 16 516 43 HOH HOH . G 5 HOH B 17 517 14 HOH HOH . G 5 HOH B 18 518 104 HOH HOH . G 5 HOH B 19 519 9 HOH HOH . G 5 HOH B 20 520 31 HOH HOH . G 5 HOH B 21 521 71 HOH HOH . G 5 HOH B 22 522 64 HOH HOH . G 5 HOH B 23 523 69 HOH HOH . G 5 HOH B 24 524 92 HOH HOH . G 5 HOH B 25 525 95 HOH HOH . G 5 HOH B 26 526 78 HOH HOH . G 5 HOH B 27 527 53 HOH HOH . G 5 HOH B 28 528 76 HOH HOH . G 5 HOH B 29 529 20 HOH HOH . G 5 HOH B 30 530 17 HOH HOH . G 5 HOH B 31 531 23 HOH HOH . G 5 HOH B 32 532 47 HOH HOH . G 5 HOH B 33 533 82 HOH HOH . G 5 HOH B 34 534 33 HOH HOH . G 5 HOH B 35 535 86 HOH HOH . G 5 HOH B 36 536 44 HOH HOH . G 5 HOH B 37 537 85 HOH HOH . G 5 HOH B 38 538 49 HOH HOH . G 5 HOH B 39 539 83 HOH HOH . G 5 HOH B 40 540 46 HOH HOH . G 5 HOH B 41 541 109 HOH HOH . G 5 HOH B 42 542 32 HOH HOH . G 5 HOH B 43 543 41 HOH HOH . G 5 HOH B 44 544 18 HOH HOH . G 5 HOH B 45 545 5 HOH HOH . G 5 HOH B 46 546 80 HOH HOH . G 5 HOH B 47 547 29 HOH HOH . G 5 HOH B 48 548 22 HOH HOH . G 5 HOH B 49 549 63 HOH HOH . G 5 HOH B 50 550 99 HOH HOH . G 5 HOH B 51 551 13 HOH HOH . G 5 HOH B 52 552 50 HOH HOH . G 5 HOH B 53 553 39 HOH HOH . G 5 HOH B 54 554 54 HOH HOH . G 5 HOH B 55 555 62 HOH HOH . G 5 HOH B 56 556 30 HOH HOH . G 5 HOH B 57 557 28 HOH HOH . G 5 HOH B 58 558 12 HOH HOH . G 5 HOH B 59 559 72 HOH HOH . G 5 HOH B 60 560 4 HOH HOH . G 5 HOH B 61 561 81 HOH HOH . G 5 HOH B 62 562 75 HOH HOH . G 5 HOH B 63 563 66 HOH HOH . G 5 HOH B 64 564 24 HOH HOH . G 5 HOH B 65 565 6 HOH HOH . G 5 HOH B 66 566 105 HOH HOH . G 5 HOH B 67 567 36 HOH HOH . G 5 HOH B 68 568 96 HOH HOH . G 5 HOH B 69 569 52 HOH HOH . G 5 HOH B 70 570 37 HOH HOH . G 5 HOH B 71 571 77 HOH HOH . G 5 HOH B 72 572 91 HOH HOH . G 5 HOH B 73 573 56 HOH HOH . G 5 HOH B 74 574 108 HOH HOH . G 5 HOH B 75 575 103 HOH HOH . G 5 HOH B 76 576 51 HOH HOH . G 5 HOH B 77 577 84 HOH HOH . G 5 HOH B 78 578 79 HOH HOH . G 5 HOH B 79 579 88 HOH HOH . G 5 HOH B 80 580 59 HOH HOH . G 5 HOH B 81 581 65 HOH HOH . G 5 HOH B 82 582 111 HOH HOH . G 5 HOH B 83 583 34 HOH HOH . G 5 HOH B 84 584 73 HOH HOH . G 5 HOH B 85 585 35 HOH HOH . G 5 HOH B 86 586 100 HOH HOH . G 5 HOH B 87 587 58 HOH HOH . G 5 HOH B 88 588 27 HOH HOH . G 5 HOH B 89 589 42 HOH HOH . G 5 HOH B 90 590 67 HOH HOH . G 5 HOH B 91 591 68 HOH HOH . G 5 HOH B 92 592 57 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 C C1 CIT . . . D 4 33.565 -31.829 5.078 1 22.5 ? C1 CIT 401 B 1 HETATM 2 O O1 CIT . . . D 4 32.81 -30.983 4.536 1 23.58 ? O1 CIT 401 B 1 HETATM 3 O O2 CIT . . . D 4 33.304 -33.057 4.953 1 23.28 ? O2 CIT 401 B 1 HETATM 4 C C2 CIT . . . D 4 34.767 -31.354 5.874 1 21.3 ? C2 CIT 401 B 1 HETATM 5 C C3 CIT . . . D 4 35.836 -32.427 5.927 1 20.24 ? C3 CIT 401 B 1 HETATM 6 O O7 CIT . . . D 4 35.309 -33.541 6.609 1 19.99 ? O7 CIT 401 B 1 HETATM 7 C C4 CIT . . . D 4 37.065 -31.903 6.643 1 18.9 ? C4 CIT 401 B 1 HETATM 8 C C5 CIT . . . D 4 36.836 -31.878 8.137 1 17.89 ? C5 CIT 401 B 1 HETATM 9 O O3 CIT . . . D 4 35.983 -31.103 8.644 1 17.14 ? O3 CIT 401 B 1 HETATM 10 O O4 CIT . . . D 4 37.508 -32.641 8.874 1 17.1 ? O4 CIT 401 B 1 HETATM 11 C C6 CIT . . . D 4 36.23 -32.847 4.526 1 21 ? C6 CIT 401 B 1 HETATM 12 O O5 CIT . . . D 4 36.339 -31.987 3.607 1 21.33 ? O5 CIT 401 B 1 HETATM 13 O O6 CIT . . . D 4 36.445 -34.063 4.276 1 21.95 ? O6 CIT 401 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 13 #