data_6VND # _model_server_result.job_id HMIc-PFml57ehlZJO_VbgA _model_server_result.datetime_utc '2024-11-26 03:48:57' _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 6vnd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":419}' # _entry.id 6VND # _exptl.entry_id 6VND _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 10 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 6 _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 6VND _cell.length_a 90.526 _cell.length_b 90.526 _cell.length_c 123.761 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VND _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 1' # _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,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 10 P N N ? 10 Q N N ? 10 R N N ? 10 S N N ? 10 T N N ? 10 U N 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 OE2 GLU 25 A GLU 52 1_555 H NA NA . A NA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc2 A OE1 GLU 238 A GLU 265 1_555 I NA NA . A NA 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc3 A OG SER 242 A SER 269 1_555 J NA NA . A NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc4 A OE1 GLU 246 A GLU 273 1_555 J NA NA . A NA 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc5 C O DET . A DET 402 1_555 H NA NA . A NA 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 259 n n C1 C2 GOL sing 260 n n C1 H11 GOL sing 261 n n C1 H12 GOL sing 262 n n O1 HO1 GOL sing 263 n n C2 O2 GOL sing 264 n n C2 C3 GOL sing 265 n n C2 H2 GOL sing 266 n n O2 HO2 GOL sing 267 n n C3 O3 GOL sing 268 n n C3 H31 GOL sing 269 n n C3 H32 GOL sing 270 n n O3 HO3 GOL sing 271 n n # _atom_sites.entry_id 6VND _atom_sites.fract_transf_matrix[1][1] 0.011047 _atom_sites.fract_transf_matrix[1][2] 0.006378 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012755 _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] 0.00808 _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 R4P A 1 401 1 R4P L1R . C 3 DET A 1 402 1 DET DET . D 3 DET A 1 403 2 DET DET . E 4 DDQ A 1 404 3 DDQ DDQ . F 4 DDQ A 1 405 4 DDQ DDQ . G 5 CL A 1 406 1 CL CL . H 6 NA A 1 407 3 NA NA . I 6 NA A 1 408 4 NA NA . J 6 NA A 1 409 5 NA NA . K 7 FMN A 1 410 1 FMN FMN . L 8 ORO A 1 411 1 ORO ORO . M 9 ACT A 1 412 1 ACT ACT . N 9 ACT A 1 413 2 ACT ACT . O 9 ACT A 1 414 3 ACT ACT . P 10 GOL A 1 415 1 GOL GOL . Q 10 GOL A 1 416 2 GOL GOL . R 10 GOL A 1 417 3 GOL GOL . S 10 GOL A 1 418 4 GOL GOL . T 10 GOL A 1 419 5 GOL GOL . U 10 GOL A 1 420 6 GOL GOL . V 11 HOH A 1 501 174 HOH HOH . V 11 HOH A 2 502 151 HOH HOH . V 11 HOH A 3 503 185 HOH HOH . V 11 HOH A 4 504 143 HOH HOH . V 11 HOH A 5 505 128 HOH HOH . V 11 HOH A 6 506 47 HOH HOH . V 11 HOH A 7 507 69 HOH HOH . V 11 HOH A 8 508 105 HOH HOH . V 11 HOH A 9 509 51 HOH HOH . V 11 HOH A 10 510 111 HOH HOH . V 11 HOH A 11 511 132 HOH HOH . V 11 HOH A 12 512 14 HOH HOH . V 11 HOH A 13 513 179 HOH HOH . V 11 HOH A 14 514 3 HOH HOH . V 11 HOH A 15 515 117 HOH HOH . V 11 HOH A 16 516 87 HOH HOH . V 11 HOH A 17 517 11 HOH HOH . V 11 HOH A 18 518 45 HOH HOH . V 11 HOH A 19 519 165 HOH HOH . V 11 HOH A 20 520 224 HOH HOH . V 11 HOH A 21 521 67 HOH HOH . V 11 HOH A 22 522 50 HOH HOH . V 11 HOH A 23 523 8 HOH HOH . V 11 HOH A 24 524 30 HOH HOH . V 11 HOH A 25 525 26 HOH HOH . V 11 HOH A 26 526 28 HOH HOH . V 11 HOH A 27 527 124 HOH HOH . V 11 HOH A 28 528 172 HOH HOH . V 11 HOH A 29 529 220 HOH HOH . V 11 HOH A 30 530 49 HOH HOH . V 11 HOH A 31 531 84 HOH HOH . V 11 HOH A 32 532 106 HOH HOH . V 11 HOH A 33 533 78 HOH HOH . V 11 HOH A 34 534 182 HOH HOH . V 11 HOH A 35 535 21 HOH HOH . V 11 HOH A 36 536 210 HOH HOH . V 11 HOH A 37 537 187 HOH HOH . V 11 HOH A 38 538 44 HOH HOH . V 11 HOH A 39 539 13 HOH HOH . V 11 HOH A 40 540 53 HOH HOH . V 11 HOH A 41 541 22 HOH HOH . V 11 HOH A 42 542 24 HOH HOH . V 11 HOH A 43 543 79 HOH HOH . V 11 HOH A 44 544 17 HOH HOH . V 11 HOH A 45 545 171 HOH HOH . V 11 HOH A 46 546 62 HOH HOH . V 11 HOH A 47 547 55 HOH HOH . V 11 HOH A 48 548 207 HOH HOH . V 11 HOH A 49 549 76 HOH HOH . V 11 HOH A 50 550 149 HOH HOH . V 11 HOH A 51 551 221 HOH HOH . V 11 HOH A 52 552 35 HOH HOH . V 11 HOH A 53 553 16 HOH HOH . V 11 HOH A 54 554 33 HOH HOH . V 11 HOH A 55 555 23 HOH HOH . V 11 HOH A 56 556 10 HOH HOH . V 11 HOH A 57 557 1 HOH HOH . V 11 HOH A 58 558 222 HOH HOH . V 11 HOH A 59 559 57 HOH HOH . V 11 HOH A 60 560 82 HOH HOH . V 11 HOH A 61 561 120 HOH HOH . V 11 HOH A 62 562 113 HOH HOH . V 11 HOH A 63 563 103 HOH HOH . V 11 HOH A 64 564 66 HOH HOH . V 11 HOH A 65 565 94 HOH HOH . V 11 HOH A 66 566 147 HOH HOH . V 11 HOH A 67 567 74 HOH HOH . V 11 HOH A 68 568 133 HOH HOH . V 11 HOH A 69 569 34 HOH HOH . V 11 HOH A 70 570 38 HOH HOH . V 11 HOH A 71 571 7 HOH HOH . V 11 HOH A 72 572 6 HOH HOH . V 11 HOH A 73 573 101 HOH HOH . V 11 HOH A 74 574 46 HOH HOH . V 11 HOH A 75 575 192 HOH HOH . V 11 HOH A 76 576 90 HOH HOH . V 11 HOH A 77 577 25 HOH HOH . V 11 HOH A 78 578 85 HOH HOH . V 11 HOH A 79 579 203 HOH HOH . V 11 HOH A 80 580 70 HOH HOH . V 11 HOH A 81 581 110 HOH HOH . V 11 HOH A 82 582 31 HOH HOH . V 11 HOH A 83 583 116 HOH HOH . V 11 HOH A 84 584 9 HOH HOH . V 11 HOH A 85 585 98 HOH HOH . V 11 HOH A 86 586 27 HOH HOH . V 11 HOH A 87 587 177 HOH HOH . V 11 HOH A 88 588 58 HOH HOH . V 11 HOH A 89 589 108 HOH HOH . V 11 HOH A 90 590 2 HOH HOH . V 11 HOH A 91 591 29 HOH HOH . V 11 HOH A 92 592 72 HOH HOH . V 11 HOH A 93 593 71 HOH HOH . V 11 HOH A 94 594 190 HOH HOH . V 11 HOH A 95 595 5 HOH HOH . V 11 HOH A 96 596 209 HOH HOH . V 11 HOH A 97 597 115 HOH HOH . V 11 HOH A 98 598 195 HOH HOH . V 11 HOH A 99 599 77 HOH HOH . V 11 HOH A 100 600 225 HOH HOH . V 11 HOH A 101 601 205 HOH HOH . V 11 HOH A 102 602 12 HOH HOH . V 11 HOH A 103 603 144 HOH HOH . V 11 HOH A 104 604 146 HOH HOH . V 11 HOH A 105 605 228 HOH HOH . V 11 HOH A 106 606 150 HOH HOH . V 11 HOH A 107 607 32 HOH HOH . V 11 HOH A 108 608 191 HOH HOH . V 11 HOH A 109 609 186 HOH HOH . V 11 HOH A 110 610 170 HOH HOH . V 11 HOH A 111 611 36 HOH HOH . V 11 HOH A 112 612 83 HOH HOH . V 11 HOH A 113 613 43 HOH HOH . V 11 HOH A 114 614 48 HOH HOH . V 11 HOH A 115 615 118 HOH HOH . V 11 HOH A 116 616 102 HOH HOH . V 11 HOH A 117 617 193 HOH HOH . V 11 HOH A 118 618 4 HOH HOH . V 11 HOH A 119 619 56 HOH HOH . V 11 HOH A 120 620 15 HOH HOH . V 11 HOH A 121 621 141 HOH HOH . V 11 HOH A 122 622 42 HOH HOH . V 11 HOH A 123 623 65 HOH HOH . V 11 HOH A 124 624 68 HOH HOH . V 11 HOH A 125 625 73 HOH HOH . V 11 HOH A 126 626 184 HOH HOH . V 11 HOH A 127 627 180 HOH HOH . V 11 HOH A 128 628 217 HOH HOH . V 11 HOH A 129 629 37 HOH HOH . V 11 HOH A 130 630 20 HOH HOH . V 11 HOH A 131 631 215 HOH HOH . V 11 HOH A 132 632 162 HOH HOH . V 11 HOH A 133 633 199 HOH HOH . V 11 HOH A 134 634 158 HOH HOH . V 11 HOH A 135 635 91 HOH HOH . V 11 HOH A 136 636 204 HOH HOH . V 11 HOH A 137 637 114 HOH HOH . V 11 HOH A 138 638 93 HOH HOH . V 11 HOH A 139 639 97 HOH HOH . V 11 HOH A 140 640 134 HOH HOH . V 11 HOH A 141 641 107 HOH HOH . V 11 HOH A 142 642 19 HOH HOH . V 11 HOH A 143 643 226 HOH HOH . V 11 HOH A 144 644 18 HOH HOH . V 11 HOH A 145 645 109 HOH HOH . V 11 HOH A 146 646 200 HOH HOH . V 11 HOH A 147 647 188 HOH HOH . V 11 HOH A 148 648 75 HOH HOH . V 11 HOH A 149 649 104 HOH HOH . V 11 HOH A 150 650 41 HOH HOH . V 11 HOH A 151 651 129 HOH HOH . V 11 HOH A 152 652 39 HOH HOH . V 11 HOH A 153 653 88 HOH HOH . V 11 HOH A 154 654 80 HOH HOH . V 11 HOH A 155 655 160 HOH HOH . V 11 HOH A 156 656 54 HOH HOH . V 11 HOH A 157 657 175 HOH HOH . V 11 HOH A 158 658 92 HOH HOH . V 11 HOH A 159 659 176 HOH HOH . V 11 HOH A 160 660 164 HOH HOH . V 11 HOH A 161 661 152 HOH HOH . V 11 HOH A 162 662 189 HOH HOH . V 11 HOH A 163 663 40 HOH HOH . V 11 HOH A 164 664 163 HOH HOH . V 11 HOH A 165 665 178 HOH HOH . V 11 HOH A 166 666 156 HOH HOH . V 11 HOH A 167 667 219 HOH HOH . V 11 HOH A 168 668 81 HOH HOH . V 11 HOH A 169 669 227 HOH HOH . V 11 HOH A 170 670 139 HOH HOH . V 11 HOH A 171 671 211 HOH HOH . V 11 HOH A 172 672 60 HOH HOH . V 11 HOH A 173 673 96 HOH HOH . V 11 HOH A 174 674 123 HOH HOH . V 11 HOH A 175 675 52 HOH HOH . V 11 HOH A 176 676 137 HOH HOH . V 11 HOH A 177 677 168 HOH HOH . V 11 HOH A 178 678 95 HOH HOH . V 11 HOH A 179 679 61 HOH HOH . V 11 HOH A 180 680 126 HOH HOH . V 11 HOH A 181 681 130 HOH HOH . V 11 HOH A 182 682 125 HOH HOH . V 11 HOH A 183 683 198 HOH HOH . V 11 HOH A 184 684 216 HOH HOH . V 11 HOH A 185 685 197 HOH HOH . V 11 HOH A 186 686 142 HOH HOH . V 11 HOH A 187 687 86 HOH HOH . V 11 HOH A 188 688 131 HOH HOH . V 11 HOH A 189 689 213 HOH HOH . V 11 HOH A 190 690 153 HOH HOH . V 11 HOH A 191 691 212 HOH HOH . V 11 HOH A 192 692 194 HOH HOH . V 11 HOH A 193 693 145 HOH HOH . V 11 HOH A 194 694 121 HOH HOH . V 11 HOH A 195 695 223 HOH HOH . V 11 HOH A 196 696 196 HOH HOH . V 11 HOH A 197 697 138 HOH HOH . V 11 HOH A 198 698 167 HOH HOH . V 11 HOH A 199 699 173 HOH HOH . V 11 HOH A 200 700 64 HOH HOH . V 11 HOH A 201 701 100 HOH HOH . V 11 HOH A 202 702 148 HOH HOH . V 11 HOH A 203 703 166 HOH HOH . V 11 HOH A 204 704 59 HOH HOH . V 11 HOH A 205 705 206 HOH HOH . V 11 HOH A 206 706 183 HOH HOH . V 11 HOH A 207 707 214 HOH HOH . V 11 HOH A 208 708 181 HOH HOH . V 11 HOH A 209 709 122 HOH HOH . V 11 HOH A 210 710 89 HOH HOH . V 11 HOH A 211 711 140 HOH HOH . V 11 HOH A 212 712 155 HOH HOH . V 11 HOH A 213 713 119 HOH HOH . V 11 HOH A 214 714 135 HOH HOH . V 11 HOH A 215 715 218 HOH HOH . V 11 HOH A 216 716 63 HOH HOH . V 11 HOH A 217 717 208 HOH HOH . V 11 HOH A 218 718 99 HOH HOH . V 11 HOH A 219 719 169 HOH HOH . V 11 HOH A 220 720 201 HOH HOH . V 11 HOH A 221 721 112 HOH HOH . V 11 HOH A 222 722 127 HOH HOH . V 11 HOH A 223 723 157 HOH HOH . V 11 HOH A 224 724 154 HOH HOH . V 11 HOH A 225 725 136 HOH HOH . V 11 HOH A 226 726 202 HOH HOH . V 11 HOH A 227 727 161 HOH HOH . V 11 HOH A 228 728 159 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 GOL . . . T 10 12.241 33.476 -20.658 1 67.56 ? C1 GOL 419 A 1 HETATM 2 O O1 GOL . . . T 10 12.082 32.187 -21.245 1 73.75 ? O1 GOL 419 A 1 HETATM 3 C C2 GOL . . . T 10 13.355 34.242 -21.33 1 67.87 ? C2 GOL 419 A 1 HETATM 4 O O2 GOL . . . T 10 12.861 34.84 -22.534 1 78.87 ? O2 GOL 419 A 1 HETATM 5 C C3 GOL . . . T 10 13.951 35.296 -20.423 1 69.29 ? C3 GOL 419 A 1 HETATM 6 O O3 GOL . . . T 10 12.954 35.937 -19.638 1 72.33 ? O3 GOL 419 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 6 #