data_5JDW # _model_server_result.job_id pUsjON2FPwVRf_yV2VVqbg _model_server_result.datetime_utc '2025-03-09 03:52:55' _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 5jdw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 5JDW # _exptl.entry_id 5JDW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 75.067 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCINE _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 5JDW _cell.length_a 83.69 _cell.length_b 83.69 _cell.length_c 200.53 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JDW _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 -41.845 125.535 50.1325 # _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 'C2 H5 N O2' _chem_comp.formula_weight 75.067 _chem_comp.id GLY _chem_comp.mon_nstd_flag y _chem_comp.name GLYCINE _chem_comp.type 'peptide linking' _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 N CA GLY sing 120 n n N H GLY sing 121 n n N H2 GLY sing 122 n n CA C GLY sing 123 n n CA HA2 GLY sing 124 n n CA HA3 GLY sing 125 n n C O GLY doub 126 n n C OXT GLY sing 127 n n OXT HXT GLY sing 128 n n # _atom_sites.entry_id 5JDW _atom_sites.fract_transf_matrix[1][1] 0.011949 _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] 0.011949 _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] 0.004987 _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 GLY A 1 500 500 GLY GLC . 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 26 HOH HOH . C 3 HOH A 27 527 27 HOH HOH . C 3 HOH A 28 528 28 HOH HOH . C 3 HOH A 29 529 29 HOH HOH . C 3 HOH A 30 530 30 HOH HOH . C 3 HOH A 31 531 31 HOH HOH . C 3 HOH A 32 532 32 HOH HOH . C 3 HOH A 33 533 33 HOH HOH . C 3 HOH A 34 534 34 HOH HOH . C 3 HOH A 35 535 35 HOH HOH . C 3 HOH A 36 536 36 HOH HOH . C 3 HOH A 37 537 37 HOH HOH . C 3 HOH A 38 538 38 HOH HOH . C 3 HOH A 39 539 39 HOH HOH . C 3 HOH A 40 540 40 HOH HOH . C 3 HOH A 41 541 41 HOH HOH . C 3 HOH A 42 542 42 HOH HOH . C 3 HOH A 43 543 43 HOH HOH . C 3 HOH A 44 544 44 HOH HOH . C 3 HOH A 45 545 45 HOH HOH . C 3 HOH A 46 546 46 HOH HOH . C 3 HOH A 47 547 47 HOH HOH . C 3 HOH A 48 548 48 HOH HOH . C 3 HOH A 49 549 49 HOH HOH . C 3 HOH A 50 550 51 HOH HOH . C 3 HOH A 51 551 52 HOH HOH . C 3 HOH A 52 552 54 HOH HOH . C 3 HOH A 53 553 55 HOH HOH . C 3 HOH A 54 554 56 HOH HOH . C 3 HOH A 55 555 57 HOH HOH . C 3 HOH A 56 556 58 HOH HOH . C 3 HOH A 57 557 59 HOH HOH . C 3 HOH A 58 558 60 HOH HOH . C 3 HOH A 59 559 61 HOH HOH . C 3 HOH A 60 560 63 HOH HOH . C 3 HOH A 61 561 64 HOH HOH . C 3 HOH A 62 562 65 HOH HOH . C 3 HOH A 63 563 66 HOH HOH . C 3 HOH A 64 564 67 HOH HOH . C 3 HOH A 65 565 68 HOH HOH . C 3 HOH A 66 566 69 HOH HOH . C 3 HOH A 67 567 70 HOH HOH . C 3 HOH A 68 568 72 HOH HOH . C 3 HOH A 69 569 74 HOH HOH . C 3 HOH A 70 570 75 HOH HOH . C 3 HOH A 71 571 76 HOH HOH . C 3 HOH A 72 572 77 HOH HOH . C 3 HOH A 73 573 78 HOH HOH . C 3 HOH A 74 574 81 HOH HOH . C 3 HOH A 75 575 82 HOH HOH . C 3 HOH A 76 576 83 HOH HOH . C 3 HOH A 77 577 84 HOH HOH . C 3 HOH A 78 578 85 HOH HOH . C 3 HOH A 79 579 87 HOH HOH . C 3 HOH A 80 580 88 HOH HOH . C 3 HOH A 81 581 89 HOH HOH . C 3 HOH A 82 582 91 HOH HOH . C 3 HOH A 83 583 95 HOH HOH . C 3 HOH A 84 584 98 HOH HOH . C 3 HOH A 85 585 99 HOH HOH . C 3 HOH A 86 586 100 HOH HOH . C 3 HOH A 87 587 103 HOH HOH . C 3 HOH A 88 588 104 HOH HOH . C 3 HOH A 89 589 107 HOH HOH . C 3 HOH A 90 590 108 HOH HOH . C 3 HOH A 91 591 109 HOH HOH . C 3 HOH A 92 592 110 HOH HOH . C 3 HOH A 93 593 111 HOH HOH . C 3 HOH A 94 594 112 HOH HOH . C 3 HOH A 95 595 113 HOH HOH . C 3 HOH A 96 596 114 HOH HOH . C 3 HOH A 97 597 115 HOH HOH . C 3 HOH A 98 598 116 HOH HOH . C 3 HOH A 99 599 117 HOH HOH . C 3 HOH A 100 600 118 HOH HOH . C 3 HOH A 101 601 119 HOH HOH . C 3 HOH A 102 602 120 HOH HOH . C 3 HOH A 103 603 122 HOH HOH . C 3 HOH A 104 604 123 HOH HOH . C 3 HOH A 105 605 124 HOH HOH . C 3 HOH A 106 606 125 HOH HOH . C 3 HOH A 107 607 131 HOH HOH . C 3 HOH A 108 608 134 HOH HOH . C 3 HOH A 109 609 135 HOH HOH . C 3 HOH A 110 610 137 HOH HOH . C 3 HOH A 111 611 138 HOH HOH . C 3 HOH A 112 612 140 HOH HOH . C 3 HOH A 113 613 142 HOH HOH . C 3 HOH A 114 614 144 HOH HOH . C 3 HOH A 115 615 148 HOH HOH . C 3 HOH A 116 616 151 HOH HOH . C 3 HOH A 117 617 153 HOH HOH . C 3 HOH A 118 618 159 HOH HOH . C 3 HOH A 119 619 160 HOH HOH . C 3 HOH A 120 620 161 HOH HOH . C 3 HOH A 121 621 164 HOH HOH . C 3 HOH A 122 622 167 HOH HOH . C 3 HOH A 123 623 168 HOH HOH . C 3 HOH A 124 624 169 HOH HOH . C 3 HOH A 125 625 174 HOH HOH . C 3 HOH A 126 626 177 HOH HOH . C 3 HOH A 127 627 182 HOH HOH . C 3 HOH A 128 628 184 HOH HOH . C 3 HOH A 129 629 187 HOH HOH . C 3 HOH A 130 630 191 HOH HOH . C 3 HOH A 131 631 192 HOH HOH . C 3 HOH A 132 632 193 HOH HOH . C 3 HOH A 133 633 198 HOH HOH . C 3 HOH A 134 634 202 HOH HOH . C 3 HOH A 135 635 211 HOH HOH . C 3 HOH A 136 636 215 HOH HOH . C 3 HOH A 137 637 216 HOH HOH . C 3 HOH A 138 638 220 HOH HOH . C 3 HOH A 139 639 221 HOH HOH . C 3 HOH A 140 640 224 HOH HOH . C 3 HOH A 141 641 225 HOH HOH . C 3 HOH A 142 642 226 HOH HOH . C 3 HOH A 143 643 227 HOH HOH . C 3 HOH A 144 644 228 HOH HOH . C 3 HOH A 145 645 231 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 N N GLY . . . B 2 45.663 70.685 17.088 1 38.65 ? N GLY 500 A 1 HETATM 2 C CA GLY . . . B 2 47.151 70.448 17.074 1 47.55 ? CA GLY 500 A 1 HETATM 3 C C GLY . . . B 2 47.972 71.498 16.235 1 49.41 ? C GLY 500 A 1 HETATM 4 O O GLY . . . B 2 47.364 72.442 15.667 1 47.02 ? O GLY 500 A 1 HETATM 5 O OXT GLY . . . B 2 49.222 71.367 16.162 1 45.77 ? OXT GLY 500 A 1 HETATM 6 H H1 GLY . . . B 2 45.399 70.818 16.087 1 0 ? H1 GLY 500 A 1 HETATM 7 H H2 GLY . . . B 2 45.595 71.646 17.492 1 0 ? H2 GLY 500 A 1 HETATM 8 H H3 GLY . . . B 2 45.041 70.016 17.583 1 0 ? H3 GLY 500 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 255 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 8 #