data_6Y9R
#
_model_server_result.job_id            9YNPMrcF4UkkC8Z-zVSiyA 
_model_server_result.datetime_utc      '2024-12-26 14:40:28' 
_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          6y9r 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":403}' 
#
_entry.id    6Y9R 
#
_exptl.entry_id    6Y9R 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    2 
_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            6Y9R 
_cell.length_a            84.581 
_cell.length_b            108.291 
_cell.length_c            103.474 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6Y9R 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 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 
_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
? 4 D N N 
? 4 E 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
covale ? covale1 A C SER 181 A SER 215 1_555 A N PTR 182 A PTR 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale2 A C PTR 182 A PTR 216 1_555 A N ILE 183 A ILE 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
#
_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 135 n n 
C1 C2 GOL sing 136 n n 
C1 H11 GOL sing 137 n n 
C1 H12 GOL sing 138 n n 
O1 HO1 GOL sing 139 n n 
C2 O2 GOL sing 140 n n 
C2 C3 GOL sing 141 n n 
C2 H2 GOL sing 142 n n 
O2 HO2 GOL sing 143 n n 
C3 O3 GOL sing 144 n n 
C3 H31 GOL sing 145 n n 
C3 H32 GOL sing 146 n n 
O3 HO3 GOL sing 147 n n 
#
_atom_sites.entry_id                     6Y9R 
_atom_sites.fract_transf_matrix[1][1]    0.011823 
_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]    0.009234 
_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]    0.009664 
_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 OH8 A 1 401 1 OH8 INX . 
C 3 ACT A 1 402 1 ACT ACT . 
D 4 GOL A 1 403 2 GOL GOL . 
E 4 GOL A 1 404 3 GOL GOL . 
F 5 HOH A 1 501 117 HOH HOH . 
F 5 HOH A 2 502 126 HOH HOH . 
F 5 HOH A 3 503 51 HOH HOH . 
F 5 HOH A 4 504 127 HOH HOH . 
F 5 HOH A 5 505 18 HOH HOH . 
F 5 HOH A 6 506 65 HOH HOH . 
F 5 HOH A 7 507 23 HOH HOH . 
F 5 HOH A 8 508 128 HOH HOH . 
F 5 HOH A 9 509 38 HOH HOH . 
F 5 HOH A 10 510 13 HOH HOH . 
F 5 HOH A 11 511 17 HOH HOH . 
F 5 HOH A 12 512 71 HOH HOH . 
F 5 HOH A 13 513 97 HOH HOH . 
F 5 HOH A 14 514 60 HOH HOH . 
F 5 HOH A 15 515 2 HOH HOH . 
F 5 HOH A 16 516 16 HOH HOH . 
F 5 HOH A 17 517 59 HOH HOH . 
F 5 HOH A 18 518 32 HOH HOH . 
F 5 HOH A 19 519 133 HOH HOH . 
F 5 HOH A 20 520 19 HOH HOH . 
F 5 HOH A 21 521 14 HOH HOH . 
F 5 HOH A 22 522 11 HOH HOH . 
F 5 HOH A 23 523 112 HOH HOH . 
F 5 HOH A 24 524 95 HOH HOH . 
F 5 HOH A 25 525 102 HOH HOH . 
F 5 HOH A 26 526 75 HOH HOH . 
F 5 HOH A 27 527 7 HOH HOH . 
F 5 HOH A 28 528 5 HOH HOH . 
F 5 HOH A 29 529 87 HOH HOH . 
F 5 HOH A 30 530 54 HOH HOH . 
F 5 HOH A 31 531 56 HOH HOH . 
F 5 HOH A 32 532 37 HOH HOH . 
F 5 HOH A 33 533 9 HOH HOH . 
F 5 HOH A 34 534 92 HOH HOH . 
F 5 HOH A 35 535 3 HOH HOH . 
F 5 HOH A 36 536 61 HOH HOH . 
F 5 HOH A 37 537 70 HOH HOH . 
F 5 HOH A 38 538 84 HOH HOH . 
F 5 HOH A 39 539 28 HOH HOH . 
F 5 HOH A 40 540 85 HOH HOH . 
F 5 HOH A 41 541 72 HOH HOH . 
F 5 HOH A 42 542 88 HOH HOH . 
F 5 HOH A 43 543 31 HOH HOH . 
F 5 HOH A 44 544 86 HOH HOH . 
F 5 HOH A 45 545 93 HOH HOH . 
F 5 HOH A 46 546 89 HOH HOH . 
F 5 HOH A 47 547 83 HOH HOH . 
F 5 HOH A 48 548 50 HOH HOH . 
F 5 HOH A 49 549 39 HOH HOH . 
F 5 HOH A 50 550 119 HOH HOH . 
F 5 HOH A 51 551 91 HOH HOH . 
F 5 HOH A 52 552 21 HOH HOH . 
F 5 HOH A 53 553 74 HOH HOH . 
F 5 HOH A 54 554 29 HOH HOH . 
F 5 HOH A 55 555 8 HOH HOH . 
F 5 HOH A 56 556 121 HOH HOH . 
F 5 HOH A 57 557 15 HOH HOH . 
F 5 HOH A 58 558 58 HOH HOH . 
F 5 HOH A 59 559 120 HOH HOH . 
F 5 HOH A 60 560 24 HOH HOH . 
F 5 HOH A 61 561 57 HOH HOH . 
F 5 HOH A 62 562 1 HOH HOH . 
F 5 HOH A 63 563 45 HOH HOH . 
F 5 HOH A 64 564 30 HOH HOH . 
F 5 HOH A 65 565 46 HOH HOH . 
F 5 HOH A 66 566 34 HOH HOH . 
F 5 HOH A 67 567 67 HOH HOH . 
F 5 HOH A 68 568 99 HOH HOH . 
F 5 HOH A 69 569 25 HOH HOH . 
F 5 HOH A 70 570 82 HOH HOH . 
F 5 HOH A 71 571 10 HOH HOH . 
F 5 HOH A 72 572 106 HOH HOH . 
F 5 HOH A 73 573 107 HOH HOH . 
F 5 HOH A 74 574 63 HOH HOH . 
F 5 HOH A 75 575 22 HOH HOH . 
F 5 HOH A 76 576 79 HOH HOH . 
F 5 HOH A 77 577 110 HOH HOH . 
F 5 HOH A 78 578 66 HOH HOH . 
F 5 HOH A 79 579 6 HOH HOH . 
F 5 HOH A 80 580 105 HOH HOH . 
F 5 HOH A 81 581 42 HOH HOH . 
F 5 HOH A 82 582 129 HOH HOH . 
F 5 HOH A 83 583 49 HOH HOH . 
F 5 HOH A 84 584 43 HOH HOH . 
F 5 HOH A 85 585 68 HOH HOH . 
F 5 HOH A 86 586 20 HOH HOH . 
F 5 HOH A 87 587 36 HOH HOH . 
F 5 HOH A 88 588 80 HOH HOH . 
F 5 HOH A 89 589 130 HOH HOH . 
F 5 HOH A 90 590 4 HOH HOH . 
F 5 HOH A 91 591 12 HOH HOH . 
F 5 HOH A 92 592 41 HOH HOH . 
F 5 HOH A 93 593 35 HOH HOH . 
F 5 HOH A 94 594 40 HOH HOH . 
F 5 HOH A 95 595 64 HOH HOH . 
F 5 HOH A 96 596 100 HOH HOH . 
F 5 HOH A 97 597 55 HOH HOH . 
F 5 HOH A 98 598 111 HOH HOH . 
F 5 HOH A 99 599 53 HOH HOH . 
F 5 HOH A 100 600 81 HOH HOH . 
F 5 HOH A 101 601 98 HOH HOH . 
F 5 HOH A 102 602 47 HOH HOH . 
F 5 HOH A 103 603 33 HOH HOH . 
F 5 HOH A 104 604 52 HOH HOH . 
F 5 HOH A 105 605 113 HOH HOH . 
F 5 HOH A 106 606 118 HOH HOH . 
F 5 HOH A 107 607 131 HOH HOH . 
F 5 HOH A 108 608 123 HOH HOH . 
F 5 HOH A 109 609 122 HOH HOH . 
F 5 HOH A 110 610 124 HOH HOH . 
F 5 HOH A 111 611 114 HOH HOH . 
F 5 HOH A 112 612 73 HOH HOH . 
F 5 HOH A 113 613 77 HOH HOH . 
F 5 HOH A 114 614 108 HOH HOH . 
F 5 HOH A 115 615 94 HOH HOH . 
F 5 HOH A 116 616 48 HOH HOH . 
F 5 HOH A 117 617 62 HOH HOH . 
F 5 HOH A 118 618 76 HOH HOH . 
F 5 HOH A 119 619 90 HOH HOH . 
F 5 HOH A 120 620 103 HOH HOH . 
F 5 HOH A 121 621 125 HOH HOH . 
F 5 HOH A 122 622 115 HOH HOH . 
F 5 HOH A 123 623 96 HOH HOH . 
F 5 HOH A 124 624 78 HOH HOH . 
F 5 HOH A 125 625 109 HOH HOH . 
F 5 HOH A 126 626 26 HOH HOH . 
F 5 HOH A 127 627 104 HOH HOH . 
F 5 HOH A 128 628 44 HOH HOH . 
F 5 HOH A 129 629 132 HOH HOH . 
F 5 HOH A 130 630 116 HOH HOH . 
F 5 HOH A 131 631 101 HOH HOH . 
F 5 HOH A 132 632 27 HOH HOH . 
F 5 HOH A 133 633 69 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 . . . D 4 -12.332 -11.927 28.386 1 66.59 ? C1 GOL 403 A 1 
HETATM 2 O O1 GOL . . . D 4 -11.553 -13.032 28.88 1 66.42 ? O1 GOL 403 A 1 
HETATM 3 C C2 GOL . . . D 4 -13.251 -11.408 29.487 1 74.95 ? C2 GOL 403 A 1 
HETATM 4 O O2 GOL . . . D 4 -13.92 -10.239 29.006 1 69.24 ? O2 GOL 403 A 1 
HETATM 5 C C3 GOL . . . D 4 -12.467 -11.069 30.761 1 74.52 ? C3 GOL 403 A 1 
HETATM 6 O O3 GOL . . . D 4 -11.325 -10.219 30.519 1 77.95 ? O3 GOL 403 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           343 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#