data_6JD0 # _model_server_result.job_id dqZ0uBli--Jk_OajRIIDaw _model_server_result.datetime_utc '2024-11-05 04:54:38' _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 6jd0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":405}' # _entry.id 6JD0 # _exptl.entry_id 6JD0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 14 _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 6JD0 _cell.length_a 63.835 _cell.length_b 64.172 _cell.length_c 92.857 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JD0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB _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 ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O 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 disulf ? disulf1 A SG CYS 162 A CYS 118 1_555 A SG CYS 205 A CYS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf2 A SG CYS 196 A CYS 152 1_555 A SG CYS 238 A CYS 194 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 296 A CYS 252 1_555 A SG CYS 349 A CYS 305 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.047 ? metalc ? metalc1 A O GLU 87 A GLU 43 1_555 V NA NA . A NA 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.928 ? metalc ? metalc2 A OG1 THR 101 A THR 57 1_555 W NA NA . A NA 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.896 ? metalc ? metalc3 A OG1 THR 111 A THR 67 1_555 S NA NA . A NA 418 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.866 ? metalc ? metalc4 A O GLY 151 A GLY 107 1_555 S NA NA . A NA 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc5 A O VAL 156 A VAL 112 1_555 T NA NA . A NA 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.881 ? metalc ? metalc6 A OE2 GLU 288 A GLU 244 1_555 U NA NA . A NA 420 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.102 ? metalc ? metalc7 A OE2 GLU 288 A GLU 244 1_555 W NA NA . A NA 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc8 T NA NA . A NA 419 1_555 CA O1 PO4 . A PO4 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.618 ? metalc ? metalc9 T NA NA . A NA 419 1_555 JA O POL . A POL 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? metalc ? metalc10 U NA NA . A NA 420 1_555 Y O2 PO4 . A PO4 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.008 ? metalc ? metalc11 V NA NA . A NA 421 1_555 X O3 PO4 . A PO4 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? # _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 146 n n C1 C2 GOL sing 147 n n C1 H11 GOL sing 148 n n C1 H12 GOL sing 149 n n O1 HO1 GOL sing 150 n n C2 O2 GOL sing 151 n n C2 C3 GOL sing 152 n n C2 H2 GOL sing 153 n n O2 HO2 GOL sing 154 n n C3 O3 GOL sing 155 n n C3 H31 GOL sing 156 n n C3 H32 GOL sing 157 n n O3 HO3 GOL sing 158 n n # _atom_sites.entry_id 6JD0 _atom_sites.fract_transf_matrix[1][1] 0.015665 _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] 0.015583 _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] 0.010769 _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 GOL A 1 401 1 GOL GOL . C 2 GOL A 1 402 2 GOL GOL . D 2 GOL A 1 403 3 GOL GOL . E 2 GOL A 1 404 4 GOL GOL . F 2 GOL A 1 405 6 GOL GOL . G 2 GOL A 1 406 7 GOL GOL . H 2 GOL A 1 407 8 GOL GOL . I 2 GOL A 1 408 9 GOL GOL . J 2 GOL A 1 409 10 GOL GOL . K 2 GOL A 1 410 11 GOL GOL . L 2 GOL A 1 411 12 GOL GOL . M 2 GOL A 1 412 13 GOL GOL . N 2 GOL A 1 413 14 GOL GOL . O 2 GOL A 1 414 15 GOL GOL . P 3 CL A 1 415 1 CL CL . Q 3 CL A 1 416 2 CL CL . R 3 CL A 1 417 4 CL CL . S 4 NA A 1 418 1 NA NA . T 4 NA A 1 419 2 NA NA . U 4 NA A 1 420 3 NA NA . V 4 NA A 1 421 4 NA NA . W 4 NA A 1 422 7 NA NA . X 5 PO4 A 1 423 1 PO4 PO4 . Y 5 PO4 A 1 424 2 PO4 PO4 . Z 5 PO4 A 1 425 3 PO4 PO4 . AA 5 PO4 A 1 426 4 PO4 PO4 . BA 5 PO4 A 1 427 6 PO4 PO4 . CA 5 PO4 A 1 428 11 PO4 PO4 . DA 5 PO4 A 1 429 12 PO4 PO4 . EA 5 PO4 A 1 430 13 PO4 PO4 . FA 6 POL A 1 431 1 POL POL . GA 6 POL A 1 432 2 POL POL . HA 6 POL A 1 433 4 POL POL . IA 6 POL A 1 434 5 POL POL . JA 6 POL A 1 435 6 POL POL . KA 6 POL A 1 436 7 POL POL . LA 6 POL A 1 437 8 POL POL . MA 6 POL A 1 438 9 POL POL . NA 6 POL A 1 439 10 POL POL . OA 6 POL A 1 440 11 POL POL . PA 7 PGE A 1 441 1 PGE PGE . QA 7 PGE A 1 442 2 PGE PGE . RA 7 PGE A 1 443 3 PGE PGE . SA 7 PGE A 1 444 4 PGE PGE . TA 7 PGE A 1 445 5 PGE PGE . UA 7 PGE A 1 446 6 PGE PGE . VA 8 EOH A 1 447 4 EOH EOH . WA 8 EOH A 1 448 5 EOH EOH . XA 8 EOH A 1 449 6 EOH EOH . YA 9 EDO A 1 450 1 EDO EDO . ZA 9 EDO A 1 451 4 EDO EDO . AB 10 HOH A 1 501 102 HOH HOH . AB 10 HOH A 2 502 99 HOH HOH . AB 10 HOH A 3 503 146 HOH HOH . AB 10 HOH A 4 504 117 HOH HOH . AB 10 HOH A 5 505 153 HOH HOH . AB 10 HOH A 6 506 148 HOH HOH . AB 10 HOH A 7 507 129 HOH HOH . AB 10 HOH A 8 508 127 HOH HOH . AB 10 HOH A 9 509 138 HOH HOH . AB 10 HOH A 10 510 45 HOH HOH . AB 10 HOH A 11 511 56 HOH HOH . AB 10 HOH A 12 512 116 HOH HOH . AB 10 HOH A 13 513 90 HOH HOH . AB 10 HOH A 14 514 61 HOH HOH . AB 10 HOH A 15 515 58 HOH HOH . AB 10 HOH A 16 516 75 HOH HOH . AB 10 HOH A 17 517 130 HOH HOH . AB 10 HOH A 18 518 16 HOH HOH . AB 10 HOH A 19 519 106 HOH HOH . AB 10 HOH A 20 520 64 HOH HOH . AB 10 HOH A 21 521 47 HOH HOH . AB 10 HOH A 22 522 26 HOH HOH . AB 10 HOH A 23 523 113 HOH HOH . AB 10 HOH A 24 524 133 HOH HOH . AB 10 HOH A 25 525 136 HOH HOH . AB 10 HOH A 26 526 82 HOH HOH . AB 10 HOH A 27 527 86 HOH HOH . AB 10 HOH A 28 528 137 HOH HOH . AB 10 HOH A 29 529 48 HOH HOH . AB 10 HOH A 30 530 119 HOH HOH . AB 10 HOH A 31 531 149 HOH HOH . AB 10 HOH A 32 532 120 HOH HOH . AB 10 HOH A 33 533 39 HOH HOH . AB 10 HOH A 34 534 60 HOH HOH . AB 10 HOH A 35 535 72 HOH HOH . AB 10 HOH A 36 536 36 HOH HOH . AB 10 HOH A 37 537 95 HOH HOH . AB 10 HOH A 38 538 109 HOH HOH . AB 10 HOH A 39 539 32 HOH HOH . AB 10 HOH A 40 540 42 HOH HOH . AB 10 HOH A 41 541 118 HOH HOH . AB 10 HOH A 42 542 103 HOH HOH . AB 10 HOH A 43 543 5 HOH HOH . AB 10 HOH A 44 544 93 HOH HOH . AB 10 HOH A 45 545 78 HOH HOH . AB 10 HOH A 46 546 44 HOH HOH . AB 10 HOH A 47 547 124 HOH HOH . AB 10 HOH A 48 548 41 HOH HOH . AB 10 HOH A 49 549 18 HOH HOH . AB 10 HOH A 50 550 37 HOH HOH . AB 10 HOH A 51 551 135 HOH HOH . AB 10 HOH A 52 552 73 HOH HOH . AB 10 HOH A 53 553 25 HOH HOH . AB 10 HOH A 54 554 131 HOH HOH . AB 10 HOH A 55 555 91 HOH HOH . AB 10 HOH A 56 556 34 HOH HOH . AB 10 HOH A 57 557 4 HOH HOH . AB 10 HOH A 58 558 66 HOH HOH . AB 10 HOH A 59 559 83 HOH HOH . AB 10 HOH A 60 560 52 HOH HOH . AB 10 HOH A 61 561 12 HOH HOH . AB 10 HOH A 62 562 20 HOH HOH . AB 10 HOH A 63 563 21 HOH HOH . AB 10 HOH A 64 564 76 HOH HOH . AB 10 HOH A 65 565 51 HOH HOH . AB 10 HOH A 66 566 6 HOH HOH . AB 10 HOH A 67 567 43 HOH HOH . AB 10 HOH A 68 568 62 HOH HOH . AB 10 HOH A 69 569 145 HOH HOH . AB 10 HOH A 70 570 35 HOH HOH . AB 10 HOH A 71 571 29 HOH HOH . AB 10 HOH A 72 572 156 HOH HOH . AB 10 HOH A 73 573 23 HOH HOH . AB 10 HOH A 74 574 46 HOH HOH . AB 10 HOH A 75 575 3 HOH HOH . AB 10 HOH A 76 576 28 HOH HOH . AB 10 HOH A 77 577 143 HOH HOH . AB 10 HOH A 78 578 134 HOH HOH . AB 10 HOH A 79 579 114 HOH HOH . AB 10 HOH A 80 580 100 HOH HOH . AB 10 HOH A 81 581 128 HOH HOH . AB 10 HOH A 82 582 33 HOH HOH . AB 10 HOH A 83 583 2 HOH HOH . AB 10 HOH A 84 584 10 HOH HOH . AB 10 HOH A 85 585 53 HOH HOH . AB 10 HOH A 86 586 24 HOH HOH . AB 10 HOH A 87 587 108 HOH HOH . AB 10 HOH A 88 588 74 HOH HOH . AB 10 HOH A 89 589 1 HOH HOH . AB 10 HOH A 90 590 65 HOH HOH . AB 10 HOH A 91 591 49 HOH HOH . AB 10 HOH A 92 592 40 HOH HOH . AB 10 HOH A 93 593 9 HOH HOH . AB 10 HOH A 94 594 15 HOH HOH . AB 10 HOH A 95 595 84 HOH HOH . AB 10 HOH A 96 596 70 HOH HOH . AB 10 HOH A 97 597 19 HOH HOH . AB 10 HOH A 98 598 71 HOH HOH . AB 10 HOH A 99 599 13 HOH HOH . AB 10 HOH A 100 600 140 HOH HOH . AB 10 HOH A 101 601 17 HOH HOH . AB 10 HOH A 102 602 31 HOH HOH . AB 10 HOH A 103 603 104 HOH HOH . AB 10 HOH A 104 604 57 HOH HOH . AB 10 HOH A 105 605 30 HOH HOH . AB 10 HOH A 106 606 68 HOH HOH . AB 10 HOH A 107 607 22 HOH HOH . AB 10 HOH A 108 608 7 HOH HOH . AB 10 HOH A 109 609 112 HOH HOH . AB 10 HOH A 110 610 38 HOH HOH . AB 10 HOH A 111 611 54 HOH HOH . AB 10 HOH A 112 612 55 HOH HOH . AB 10 HOH A 113 613 88 HOH HOH . AB 10 HOH A 114 614 11 HOH HOH . AB 10 HOH A 115 615 77 HOH HOH . AB 10 HOH A 116 616 27 HOH HOH . AB 10 HOH A 117 617 126 HOH HOH . AB 10 HOH A 118 618 97 HOH HOH . AB 10 HOH A 119 619 141 HOH HOH . AB 10 HOH A 120 620 111 HOH HOH . AB 10 HOH A 121 621 80 HOH HOH . AB 10 HOH A 122 622 125 HOH HOH . AB 10 HOH A 123 623 139 HOH HOH . AB 10 HOH A 124 624 157 HOH HOH . AB 10 HOH A 125 625 69 HOH HOH . AB 10 HOH A 126 626 142 HOH HOH . AB 10 HOH A 127 627 14 HOH HOH . AB 10 HOH A 128 628 81 HOH HOH . AB 10 HOH A 129 629 8 HOH HOH . AB 10 HOH A 130 630 144 HOH HOH . AB 10 HOH A 131 631 89 HOH HOH . AB 10 HOH A 132 632 92 HOH HOH . AB 10 HOH A 133 633 50 HOH HOH . AB 10 HOH A 134 634 98 HOH HOH . AB 10 HOH A 135 635 151 HOH HOH . AB 10 HOH A 136 636 67 HOH HOH . AB 10 HOH A 137 637 115 HOH HOH . AB 10 HOH A 138 638 96 HOH HOH . AB 10 HOH A 139 639 63 HOH HOH . AB 10 HOH A 140 640 110 HOH HOH . AB 10 HOH A 141 641 123 HOH HOH . AB 10 HOH A 142 642 121 HOH HOH . AB 10 HOH A 143 643 94 HOH HOH . AB 10 HOH A 144 644 132 HOH HOH . AB 10 HOH A 145 645 85 HOH HOH . AB 10 HOH A 146 646 150 HOH HOH . AB 10 HOH A 147 647 59 HOH HOH . AB 10 HOH A 148 648 147 HOH HOH . AB 10 HOH A 149 649 155 HOH HOH . AB 10 HOH A 150 650 79 HOH HOH . AB 10 HOH A 151 651 87 HOH HOH . AB 10 HOH A 152 652 107 HOH HOH . AB 10 HOH A 153 653 105 HOH HOH . AB 10 HOH A 154 654 152 HOH HOH . AB 10 HOH A 155 655 154 HOH HOH . AB 10 HOH A 156 656 122 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 . . . F 2 19.421 1.599 -36.149 1 57.87 ? C1 GOL 405 A 1 HETATM 2 O O1 GOL . . . F 2 19.531 2.987 -36.405 1 64.97 ? O1 GOL 405 A 1 HETATM 3 C C2 GOL . . . F 2 18.996 1.425 -34.663 1 54.51 ? C2 GOL 405 A 1 HETATM 4 O O2 GOL . . . F 2 18.621 0.078 -34.38 1 48.8 ? O2 GOL 405 A 1 HETATM 5 C C3 GOL . . . F 2 20.253 1.922 -33.87 1 57.25 ? C3 GOL 405 A 1 HETATM 6 O O3 GOL . . . F 2 20.005 1.774 -32.504 1 58.74 ? O3 GOL 405 A 1 HETATM 7 H H11 GOL . . . F 2 18.774 1.162 -36.724 1 69.44 ? H11 GOL 405 A 1 HETATM 8 H H12 GOL . . . F 2 20.262 1.142 -36.306 1 69.44 ? H12 GOL 405 A 1 HETATM 9 H HO1 GOL . . . F 2 19.245 3.384 -35.71 1 77.97 ? HO1 GOL 405 A 1 HETATM 10 H H2 GOL . . . F 2 18.218 1.968 -34.463 1 65.42 ? H2 GOL 405 A 1 HETATM 11 H HO2 GOL . . . F 2 17.784 0.007 -34.508 1 58.56 ? HO2 GOL 405 A 1 HETATM 12 H H31 GOL . . . F 2 21.033 1.434 -34.177 1 68.7 ? H31 GOL 405 A 1 HETATM 13 H H32 GOL . . . F 2 20.43 2.847 -34.102 1 68.7 ? H32 GOL 405 A 1 HETATM 14 H HO3 GOL . . . F 2 20.746 1.899 -32.107 1 70.49 ? HO3 GOL 405 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #