data_1KKJ # _model_server_result.job_id YVBe8sfxLvmRYJI1zmGhSg _model_server_result.datetime_utc '2024-10-10 19:24:47' _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 1kkj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 1KKJ # _exptl.entry_id 1KKJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _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 1KKJ _cell.length_a 61.154 _cell.length_b 106.637 _cell.length_c 56.856 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KKJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 226 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 226 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C4A _struct_conn.ptnr2_label_comp_id PLP _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PLP _struct_conn.ptnr2_auth_seq_id 501 _struct_conn.ptnr2_symmetry 1_555 _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 1.52 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # 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 N1 C2 PLP doub 260 n y N1 C6 PLP sing 261 n y C2 C2A PLP sing 262 n n C2 C3 PLP sing 263 n y C2A H2A1 PLP sing 264 n n C2A H2A2 PLP sing 265 n n C2A H2A3 PLP sing 266 n n C3 O3 PLP sing 267 n n C3 C4 PLP doub 268 n y O3 HO3 PLP sing 269 n n C4 C4A PLP sing 270 n n C4 C5 PLP sing 271 n y C4A O4A PLP doub 272 n n C4A H4A PLP sing 273 n n C5 C6 PLP doub 274 n y C5 C5A PLP sing 275 n n C6 H6 PLP sing 276 n n C5A O4P PLP sing 277 n n C5A H5A1 PLP sing 278 n n C5A H5A2 PLP sing 279 n n O4P P PLP sing 280 n n P O1P PLP doub 281 n n P O2P PLP sing 282 n n P O3P PLP sing 283 n n O2P HOP2 PLP sing 284 n n O3P HOP3 PLP sing 285 n n # _atom_sites.entry_id 1KKJ _atom_sites.fract_transf_matrix[1][1] 0.01635 _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] 0.00938 _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] 0.01759 _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 PLP A 1 501 501 PLP PLP . C 3 HOH A 1 502 1 HOH HOH . C 3 HOH A 2 503 2 HOH HOH . C 3 HOH A 3 504 3 HOH HOH . C 3 HOH A 4 505 4 HOH HOH . C 3 HOH A 5 506 5 HOH HOH . C 3 HOH A 6 507 6 HOH HOH . C 3 HOH A 7 508 7 HOH HOH . C 3 HOH A 8 509 8 HOH HOH . C 3 HOH A 9 510 9 HOH HOH . C 3 HOH A 10 511 10 HOH HOH . C 3 HOH A 11 512 11 HOH HOH . C 3 HOH A 12 513 12 HOH HOH . C 3 HOH A 13 514 13 HOH HOH . C 3 HOH A 14 515 14 HOH HOH . C 3 HOH A 15 516 15 HOH HOH . C 3 HOH A 16 517 16 HOH HOH . C 3 HOH A 17 518 17 HOH HOH . C 3 HOH A 18 519 18 HOH HOH . C 3 HOH A 19 520 19 HOH HOH . C 3 HOH A 20 521 20 HOH HOH . C 3 HOH A 21 522 21 HOH HOH . C 3 HOH A 22 523 22 HOH HOH . C 3 HOH A 23 524 23 HOH HOH . C 3 HOH A 24 525 24 HOH HOH . C 3 HOH A 25 526 25 HOH HOH . C 3 HOH A 26 527 26 HOH HOH . C 3 HOH A 27 528 27 HOH HOH . C 3 HOH A 28 529 28 HOH HOH . C 3 HOH A 29 530 29 HOH HOH . C 3 HOH A 30 531 30 HOH HOH . C 3 HOH A 31 532 31 HOH HOH . C 3 HOH A 32 533 32 HOH HOH . C 3 HOH A 33 534 33 HOH HOH . C 3 HOH A 34 535 34 HOH HOH . C 3 HOH A 35 536 35 HOH HOH . C 3 HOH A 36 537 36 HOH HOH . C 3 HOH A 37 538 37 HOH HOH . C 3 HOH A 38 539 38 HOH HOH . C 3 HOH A 39 540 39 HOH HOH . C 3 HOH A 40 541 40 HOH HOH . C 3 HOH A 41 542 41 HOH HOH . C 3 HOH A 42 543 42 HOH HOH . C 3 HOH A 43 544 43 HOH HOH . C 3 HOH A 44 545 44 HOH HOH . C 3 HOH A 45 546 45 HOH HOH . C 3 HOH A 46 547 46 HOH HOH . C 3 HOH A 47 548 47 HOH HOH . C 3 HOH A 48 549 48 HOH HOH . C 3 HOH A 49 550 49 HOH HOH . C 3 HOH A 50 551 50 HOH HOH . C 3 HOH A 51 552 51 HOH HOH . C 3 HOH A 52 553 52 HOH HOH . C 3 HOH A 53 554 53 HOH HOH . C 3 HOH A 54 555 54 HOH HOH . C 3 HOH A 55 556 55 HOH HOH . C 3 HOH A 56 557 56 HOH HOH . C 3 HOH A 57 558 57 HOH HOH . C 3 HOH A 58 559 58 HOH HOH . C 3 HOH A 59 560 59 HOH HOH . C 3 HOH A 60 561 60 HOH HOH . C 3 HOH A 61 562 61 HOH HOH . C 3 HOH A 62 563 62 HOH HOH . C 3 HOH A 63 564 63 HOH HOH . C 3 HOH A 64 565 64 HOH HOH . C 3 HOH A 65 566 65 HOH HOH . C 3 HOH A 66 567 66 HOH HOH . C 3 HOH A 67 568 67 HOH HOH . C 3 HOH A 68 569 68 HOH HOH . C 3 HOH A 69 570 69 HOH HOH . C 3 HOH A 70 571 70 HOH HOH . C 3 HOH A 71 572 71 HOH HOH . C 3 HOH A 72 573 72 HOH HOH . C 3 HOH A 73 574 73 HOH HOH . C 3 HOH A 74 575 74 HOH HOH . C 3 HOH A 75 576 75 HOH HOH . C 3 HOH A 76 577 76 HOH HOH . C 3 HOH A 77 578 77 HOH HOH . C 3 HOH A 78 579 78 HOH HOH . C 3 HOH A 79 580 79 HOH HOH . C 3 HOH A 80 581 80 HOH HOH . C 3 HOH A 81 582 81 HOH HOH . C 3 HOH A 82 583 82 HOH HOH . C 3 HOH A 83 584 83 HOH HOH . C 3 HOH A 84 585 84 HOH HOH . C 3 HOH A 85 586 85 HOH HOH . C 3 HOH A 86 587 86 HOH HOH . C 3 HOH A 87 588 87 HOH HOH . C 3 HOH A 88 589 88 HOH HOH . C 3 HOH A 89 590 89 HOH HOH . C 3 HOH A 90 591 90 HOH HOH . C 3 HOH A 91 592 91 HOH HOH . C 3 HOH A 92 593 92 HOH HOH . C 3 HOH A 93 594 93 HOH HOH . C 3 HOH A 94 595 94 HOH HOH . C 3 HOH A 95 596 95 HOH HOH . C 3 HOH A 96 597 96 HOH HOH . C 3 HOH A 97 598 97 HOH HOH . C 3 HOH A 98 599 98 HOH HOH . C 3 HOH A 99 600 99 HOH HOH . C 3 HOH A 100 601 100 HOH HOH . C 3 HOH A 101 602 101 HOH HOH . C 3 HOH A 102 603 102 HOH HOH . C 3 HOH A 103 604 103 HOH HOH . C 3 HOH A 104 605 104 HOH HOH . C 3 HOH A 105 606 105 HOH HOH . C 3 HOH A 106 607 106 HOH HOH . C 3 HOH A 107 608 107 HOH HOH . C 3 HOH A 108 609 108 HOH HOH . C 3 HOH A 109 610 109 HOH HOH . C 3 HOH A 110 611 110 HOH HOH . C 3 HOH A 111 612 111 HOH HOH . C 3 HOH A 112 613 112 HOH HOH . C 3 HOH A 113 614 113 HOH HOH . C 3 HOH A 114 615 114 HOH HOH . C 3 HOH A 115 616 115 HOH HOH . C 3 HOH A 116 617 116 HOH HOH . C 3 HOH A 117 618 117 HOH HOH . C 3 HOH A 118 619 118 HOH HOH . C 3 HOH A 119 620 119 HOH HOH . C 3 HOH A 120 621 120 HOH HOH . C 3 HOH A 121 622 121 HOH HOH . C 3 HOH A 122 623 122 HOH HOH . C 3 HOH A 123 624 123 HOH HOH . C 3 HOH A 124 625 124 HOH HOH . C 3 HOH A 125 626 125 HOH HOH . C 3 HOH A 126 627 126 HOH HOH . C 3 HOH A 127 628 127 HOH HOH . C 3 HOH A 128 629 128 HOH HOH . C 3 HOH A 129 630 129 HOH HOH . C 3 HOH A 130 631 130 HOH HOH . C 3 HOH A 131 632 131 HOH HOH . C 3 HOH A 132 633 132 HOH HOH . C 3 HOH A 133 634 133 HOH HOH . C 3 HOH A 134 635 134 HOH HOH . C 3 HOH A 135 636 135 HOH HOH . C 3 HOH A 136 637 136 HOH HOH . C 3 HOH A 137 638 137 HOH HOH . C 3 HOH A 138 639 138 HOH HOH . C 3 HOH A 139 640 139 HOH HOH . C 3 HOH A 140 641 140 HOH HOH . C 3 HOH A 141 642 141 HOH HOH . C 3 HOH A 142 643 142 HOH HOH . C 3 HOH A 143 644 143 HOH HOH . C 3 HOH A 144 645 144 HOH HOH . C 3 HOH A 145 646 145 HOH HOH . C 3 HOH A 146 647 146 HOH HOH . C 3 HOH A 147 648 147 HOH HOH . C 3 HOH A 148 649 148 HOH HOH . C 3 HOH A 149 650 149 HOH HOH . C 3 HOH A 150 651 150 HOH HOH . C 3 HOH A 151 652 151 HOH HOH . C 3 HOH A 152 653 152 HOH HOH . C 3 HOH A 153 654 153 HOH HOH . C 3 HOH A 154 655 154 HOH HOH . C 3 HOH A 155 656 155 HOH HOH . C 3 HOH A 156 657 156 HOH HOH . C 3 HOH A 157 658 157 HOH HOH . C 3 HOH A 158 659 158 HOH HOH . C 3 HOH A 159 660 159 HOH HOH . C 3 HOH A 160 661 160 HOH HOH . C 3 HOH A 161 662 161 HOH HOH . C 3 HOH A 162 663 162 HOH HOH . C 3 HOH A 163 664 163 HOH HOH . C 3 HOH A 164 665 164 HOH HOH . C 3 HOH A 165 666 165 HOH HOH . C 3 HOH A 166 667 166 HOH HOH . C 3 HOH A 167 668 167 HOH HOH . C 3 HOH A 168 669 168 HOH HOH . C 3 HOH A 169 670 169 HOH HOH . C 3 HOH A 170 671 170 HOH HOH . C 3 HOH A 171 672 171 HOH HOH . C 3 HOH A 172 673 172 HOH HOH . C 3 HOH A 173 674 173 HOH HOH . C 3 HOH A 174 675 174 HOH HOH . C 3 HOH A 175 676 175 HOH HOH . C 3 HOH A 176 677 176 HOH HOH . C 3 HOH A 177 678 177 HOH HOH . C 3 HOH A 178 679 178 HOH HOH . C 3 HOH A 179 680 179 HOH HOH . C 3 HOH A 180 681 180 HOH HOH . C 3 HOH A 181 682 181 HOH HOH . C 3 HOH A 182 683 182 HOH HOH . C 3 HOH A 183 684 183 HOH HOH . C 3 HOH A 184 685 184 HOH HOH . C 3 HOH A 185 686 185 HOH HOH . C 3 HOH A 186 687 186 HOH HOH . C 3 HOH A 187 688 187 HOH HOH . C 3 HOH A 188 689 188 HOH HOH . C 3 HOH A 189 690 189 HOH HOH . C 3 HOH A 190 691 190 HOH HOH . C 3 HOH A 191 692 191 HOH HOH . C 3 HOH A 192 693 192 HOH HOH . C 3 HOH A 193 694 193 HOH HOH . C 3 HOH A 194 695 194 HOH HOH . C 3 HOH A 195 696 195 HOH HOH . C 3 HOH A 196 697 196 HOH HOH . C 3 HOH A 197 698 197 HOH HOH . C 3 HOH A 198 699 198 HOH HOH . C 3 HOH A 199 700 199 HOH HOH . C 3 HOH A 200 701 200 HOH HOH . C 3 HOH A 201 702 201 HOH HOH . C 3 HOH A 202 703 202 HOH HOH . C 3 HOH A 203 704 203 HOH HOH . C 3 HOH A 204 705 204 HOH HOH . C 3 HOH A 205 706 205 HOH HOH . C 3 HOH A 206 707 206 HOH HOH . C 3 HOH A 207 708 207 HOH HOH . C 3 HOH A 208 709 208 HOH HOH . C 3 HOH A 209 710 209 HOH HOH . C 3 HOH A 210 711 210 HOH HOH . C 3 HOH A 211 712 211 HOH HOH . C 3 HOH A 212 713 212 HOH HOH . C 3 HOH A 213 714 213 HOH HOH . C 3 HOH A 214 715 214 HOH HOH . C 3 HOH A 215 716 215 HOH HOH . C 3 HOH A 216 717 216 HOH HOH . C 3 HOH A 217 718 217 HOH HOH . C 3 HOH A 218 719 218 HOH HOH . C 3 HOH A 219 720 219 HOH HOH . C 3 HOH A 220 721 220 HOH HOH . C 3 HOH A 221 722 221 HOH HOH . C 3 HOH A 222 723 222 HOH HOH . C 3 HOH A 223 724 223 HOH HOH . C 3 HOH A 224 725 224 HOH HOH . C 3 HOH A 225 726 225 HOH HOH . C 3 HOH A 226 727 226 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 N1 PLP . . . B 2 9.549 9.454 22.852 1 13.89 ? N1 PLP 501 A 1 HETATM 2 C C2 PLP . . . B 2 10.187 10.44 22.19 1 13.25 ? C2 PLP 501 A 1 HETATM 3 C C2A PLP . . . B 2 11.444 10.995 22.75 1 11.83 ? C2A PLP 501 A 1 HETATM 4 C C3 PLP . . . B 2 9.536 10.853 20.988 1 13.85 ? C3 PLP 501 A 1 HETATM 5 O O3 PLP . . . B 2 10.01 11.802 20.2 1 15.52 ? O3 PLP 501 A 1 HETATM 6 C C4 PLP . . . B 2 8.311 10.171 20.624 1 13.53 ? C4 PLP 501 A 1 HETATM 7 C C4A PLP . . . B 2 7.787 10.661 19.358 1 14.51 ? C4A PLP 501 A 1 HETATM 8 C C5 PLP . . . B 2 7.694 9.161 21.353 1 12.77 ? C5 PLP 501 A 1 HETATM 9 C C6 PLP . . . B 2 8.372 8.796 22.536 1 12.42 ? C6 PLP 501 A 1 HETATM 10 C C5A PLP . . . B 2 6.424 8.45 21.075 1 12.09 ? C5A PLP 501 A 1 HETATM 11 O O4P PLP . . . B 2 6.15 7.957 19.791 1 10.59 ? O4P PLP 501 A 1 HETATM 12 P P PLP . . . B 2 4.743 7.582 19.214 1 10.38 ? P PLP 501 A 1 HETATM 13 O O1P PLP . . . B 2 4.017 6.914 20.319 1 8.74 ? O1P PLP 501 A 1 HETATM 14 O O2P PLP . . . B 2 4.116 9.004 18.89 1 9.97 ? O2P PLP 501 A 1 HETATM 15 O O3P PLP . . . B 2 4.983 6.844 17.958 1 10.43 ? O3P PLP 501 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 15 #