data_7JDW # _model_server_result.job_id GANd9yxzpgAY610bZu5X4A _model_server_result.datetime_utc '2024-11-15 16:38:31' _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 7jdw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 7JDW # _exptl.entry_id 7JDW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.154 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DELTA-AMINO VALERIC 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 90 _cell.entry_id 7JDW _cell.length_a 83.73 _cell.length_b 83.73 _cell.length_c 200.16 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JDW _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_465 x-1/2,-y+3/2,-z+1/4 1 0 0 0 -1 0 0 0 -1 -41.865 125.595 50.04 # _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 # _chem_comp.formula 'C5 H12 N O2 1' _chem_comp.formula_weight 118.154 _chem_comp.id DAV _chem_comp.mon_nstd_flag . _chem_comp.name 'DELTA-AMINO VALERIC 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 OXT C DAV sing 83 n n OXT HXT DAV sing 84 n n O C DAV doub 85 n n CB CG DAV sing 86 n n CB C1 DAV sing 87 n n CB HCB1 DAV sing 88 n n CB HCB2 DAV sing 89 n n CG CD DAV sing 90 n n CG HCG1 DAV sing 91 n n CG HCG2 DAV sing 92 n n CD N DAV sing 93 n n CD HCD1 DAV sing 94 n n CD HCD2 DAV sing 95 n n N H DAV sing 96 n n N H2 DAV sing 97 n n N H3 DAV sing 98 n n C C1 DAV sing 99 n n C1 HCA1 DAV sing 100 n n C1 HCA2 DAV sing 101 n n # _atom_sites.entry_id 7JDW _atom_sites.fract_transf_matrix[1][1] 0.011943 _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] 0.011943 _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] 0.004996 _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 DAV A 1 500 500 DAV DAV . C 3 HOH A 1 501 1 HOH HOH . C 3 HOH A 2 502 2 HOH HOH . C 3 HOH A 3 503 3 HOH HOH . C 3 HOH A 4 504 4 HOH HOH . C 3 HOH A 5 505 5 HOH HOH . C 3 HOH A 6 506 6 HOH HOH . C 3 HOH A 7 507 7 HOH HOH . C 3 HOH A 8 508 8 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 10 HOH HOH . C 3 HOH A 11 511 11 HOH HOH . C 3 HOH A 12 512 12 HOH HOH . C 3 HOH A 13 513 13 HOH HOH . C 3 HOH A 14 514 14 HOH HOH . C 3 HOH A 15 515 15 HOH HOH . C 3 HOH A 16 516 16 HOH HOH . C 3 HOH A 17 517 17 HOH HOH . C 3 HOH A 18 518 18 HOH HOH . C 3 HOH A 19 519 19 HOH HOH . C 3 HOH A 20 520 20 HOH HOH . C 3 HOH A 21 521 21 HOH HOH . C 3 HOH A 22 522 22 HOH HOH . C 3 HOH A 23 523 23 HOH HOH . C 3 HOH A 24 524 24 HOH HOH . C 3 HOH A 25 525 25 HOH HOH . C 3 HOH A 26 526 27 HOH HOH . C 3 HOH A 27 527 28 HOH HOH . C 3 HOH A 28 528 29 HOH HOH . C 3 HOH A 29 529 31 HOH HOH . C 3 HOH A 30 530 32 HOH HOH . C 3 HOH A 31 531 33 HOH HOH . C 3 HOH A 32 532 34 HOH HOH . C 3 HOH A 33 533 35 HOH HOH . C 3 HOH A 34 534 36 HOH HOH . C 3 HOH A 35 535 37 HOH HOH . C 3 HOH A 36 536 38 HOH HOH . C 3 HOH A 37 537 39 HOH HOH . C 3 HOH A 38 538 40 HOH HOH . C 3 HOH A 39 539 41 HOH HOH . C 3 HOH A 40 540 42 HOH HOH . C 3 HOH A 41 541 43 HOH HOH . C 3 HOH A 42 542 44 HOH HOH . C 3 HOH A 43 543 45 HOH HOH . C 3 HOH A 44 544 46 HOH HOH . C 3 HOH A 45 545 47 HOH HOH . C 3 HOH A 46 546 48 HOH HOH . C 3 HOH A 47 547 49 HOH HOH . C 3 HOH A 48 548 51 HOH HOH . C 3 HOH A 49 549 52 HOH HOH . C 3 HOH A 50 550 53 HOH HOH . C 3 HOH A 51 551 54 HOH HOH . C 3 HOH A 52 552 55 HOH HOH . C 3 HOH A 53 553 56 HOH HOH . C 3 HOH A 54 554 57 HOH HOH . C 3 HOH A 55 555 58 HOH HOH . C 3 HOH A 56 556 61 HOH HOH . C 3 HOH A 57 557 62 HOH HOH . C 3 HOH A 58 558 63 HOH HOH . C 3 HOH A 59 559 64 HOH HOH . C 3 HOH A 60 560 66 HOH HOH . C 3 HOH A 61 561 67 HOH HOH . C 3 HOH A 62 562 68 HOH HOH . C 3 HOH A 63 563 69 HOH HOH . C 3 HOH A 64 564 70 HOH HOH . C 3 HOH A 65 565 73 HOH HOH . C 3 HOH A 66 566 75 HOH HOH . C 3 HOH A 67 567 76 HOH HOH . C 3 HOH A 68 568 77 HOH HOH . C 3 HOH A 69 569 79 HOH HOH . C 3 HOH A 70 570 81 HOH HOH . C 3 HOH A 71 571 82 HOH HOH . C 3 HOH A 72 572 83 HOH HOH . C 3 HOH A 73 573 84 HOH HOH . C 3 HOH A 74 574 89 HOH HOH . C 3 HOH A 75 575 91 HOH HOH . C 3 HOH A 76 576 93 HOH HOH . C 3 HOH A 77 577 95 HOH HOH . C 3 HOH A 78 578 97 HOH HOH . C 3 HOH A 79 579 99 HOH HOH . C 3 HOH A 80 580 100 HOH HOH . C 3 HOH A 81 581 102 HOH HOH . C 3 HOH A 82 582 103 HOH HOH . C 3 HOH A 83 583 108 HOH HOH . C 3 HOH A 84 584 109 HOH HOH . C 3 HOH A 85 585 111 HOH HOH . C 3 HOH A 86 586 114 HOH HOH . C 3 HOH A 87 587 115 HOH HOH . C 3 HOH A 88 588 116 HOH HOH . C 3 HOH A 89 589 118 HOH HOH . C 3 HOH A 90 590 119 HOH HOH . C 3 HOH A 91 591 122 HOH HOH . C 3 HOH A 92 592 123 HOH HOH . C 3 HOH A 93 593 124 HOH HOH . C 3 HOH A 94 594 125 HOH HOH . C 3 HOH A 95 595 127 HOH HOH . C 3 HOH A 96 596 130 HOH HOH . C 3 HOH A 97 597 134 HOH HOH . C 3 HOH A 98 598 135 HOH HOH . C 3 HOH A 99 599 137 HOH HOH . C 3 HOH A 100 600 139 HOH HOH . C 3 HOH A 101 601 140 HOH HOH . C 3 HOH A 102 602 142 HOH HOH . C 3 HOH A 103 603 146 HOH HOH . C 3 HOH A 104 604 148 HOH HOH . C 3 HOH A 105 605 151 HOH HOH . C 3 HOH A 106 606 152 HOH HOH . C 3 HOH A 107 607 153 HOH HOH . C 3 HOH A 108 608 154 HOH HOH . C 3 HOH A 109 609 159 HOH HOH . C 3 HOH A 110 610 161 HOH HOH . C 3 HOH A 111 611 165 HOH HOH . C 3 HOH A 112 612 168 HOH HOH . C 3 HOH A 113 613 170 HOH HOH . C 3 HOH A 114 614 174 HOH HOH . C 3 HOH A 115 615 177 HOH HOH . C 3 HOH A 116 616 182 HOH HOH . C 3 HOH A 117 617 191 HOH HOH . C 3 HOH A 118 618 192 HOH HOH . C 3 HOH A 119 619 193 HOH HOH . C 3 HOH A 120 620 198 HOH HOH . C 3 HOH A 121 621 202 HOH HOH . C 3 HOH A 122 622 211 HOH HOH . C 3 HOH A 123 623 213 HOH HOH . C 3 HOH A 124 624 216 HOH HOH . C 3 HOH A 125 625 224 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 O OXT DAV . . . B 2 43.954 73.98 18.367 1 42.05 ? OXT DAV 500 A 1 HETATM 2 O O DAV . . . B 2 43.162 72.212 17.337 1 42.24 ? O DAV 500 A 1 HETATM 3 C CB DAV . . . B 2 45.784 71.103 17.478 1 44.81 ? CB DAV 500 A 1 HETATM 4 C CG DAV . . . B 2 47.158 70.836 16.917 1 46.38 ? CG DAV 500 A 1 HETATM 5 C CD DAV . . . B 2 47.738 69.604 17.54 1 49.6 ? CD DAV 500 A 1 HETATM 6 N N DAV . . . B 2 48.075 68.542 16.573 1 47.08 ? N DAV 500 A 1 HETATM 7 C C DAV . . . B 2 44.106 72.939 17.717 1 41.62 ? C DAV 500 A 1 HETATM 8 C C1 DAV . . . B 2 45.512 72.55 17.359 1 42.91 ? C1 DAV 500 A 1 HETATM 9 H H DAV . . . B 2 48.776 68.901 15.894 1 20 ? H DAV 500 A 1 HETATM 10 H H2 DAV . . . B 2 47.216 68.252 16.063 1 20 ? H2 DAV 500 A 1 HETATM 11 H H3 DAV . . . B 2 48.47 67.724 17.08 1 20 ? H3 DAV 500 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 11 #