data_4RYB
#
_model_server_result.job_id            '_v7BWFGH1ZdaILqXM4GpRg' 
_model_server_result.datetime_utc      '2024-11-04 23:03:17' 
_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          4ryb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":402}' 
#
_entry.id    4RYB 
#
_exptl.entry_id    4RYB 
_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    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            4RYB 
_cell.length_a            66.29 
_cell.length_b            96.36 
_cell.length_c            193.02 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4RYB 
_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    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,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
? 2 C N N 
? 2 D 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 VAL 113 A VAL 113 1_555 A N CSD 114 A CSD 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 A C CSD 114 A CSD 114 1_555 A N ALA 115 A ALA 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale3 B C VAL 113 B VAL 113 1_555 B N CSD 114 B CSD 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? 
covale ? covale4 B C CSD 114 B CSD 114 1_555 B N ALA 115 B ALA 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? 
#
_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 144 n n 
C1 C2 GOL sing 145 n n 
C1 H11 GOL sing 146 n n 
C1 H12 GOL sing 147 n n 
O1 HO1 GOL sing 148 n n 
C2 O2 GOL sing 149 n n 
C2 C3 GOL sing 150 n n 
C2 H2 GOL sing 151 n n 
O2 HO2 GOL sing 152 n n 
C3 O3 GOL sing 153 n n 
C3 H31 GOL sing 154 n n 
C3 H32 GOL sing 155 n n 
O3 HO3 GOL sing 156 n n 
#
_atom_sites.entry_id                     4RYB 
_atom_sites.fract_transf_matrix[1][1]    0.015085 
_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]    0.010378 
_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]    0.005181 
_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
C 2 GOL B 1 401 1 GOL GOL . 
D 2 GOL B 1 402 2 GOL GOL . 
E 3 HOH A 1 401 1 HOH HOH . 
E 3 HOH A 2 402 2 HOH HOH . 
E 3 HOH A 3 403 4 HOH HOH . 
E 3 HOH A 4 404 5 HOH HOH . 
E 3 HOH A 5 405 6 HOH HOH . 
E 3 HOH A 6 406 8 HOH HOH . 
E 3 HOH A 7 407 9 HOH HOH . 
E 3 HOH A 8 408 11 HOH HOH . 
E 3 HOH A 9 409 12 HOH HOH . 
E 3 HOH A 10 410 14 HOH HOH . 
E 3 HOH A 11 411 15 HOH HOH . 
E 3 HOH A 12 412 18 HOH HOH . 
E 3 HOH A 13 413 19 HOH HOH . 
E 3 HOH A 14 414 23 HOH HOH . 
E 3 HOH A 15 415 24 HOH HOH . 
E 3 HOH A 16 416 30 HOH HOH . 
E 3 HOH A 17 417 35 HOH HOH . 
E 3 HOH A 18 418 37 HOH HOH . 
E 3 HOH A 19 419 38 HOH HOH . 
E 3 HOH A 20 420 39 HOH HOH . 
E 3 HOH A 21 421 42 HOH HOH . 
E 3 HOH A 22 422 44 HOH HOH . 
E 3 HOH A 23 423 46 HOH HOH . 
E 3 HOH A 24 424 47 HOH HOH . 
E 3 HOH A 25 425 49 HOH HOH . 
E 3 HOH A 26 426 50 HOH HOH . 
E 3 HOH A 27 427 51 HOH HOH . 
E 3 HOH A 28 428 56 HOH HOH . 
E 3 HOH A 29 429 61 HOH HOH . 
E 3 HOH A 30 430 64 HOH HOH . 
E 3 HOH A 31 431 65 HOH HOH . 
E 3 HOH A 32 432 71 HOH HOH . 
E 3 HOH A 33 433 74 HOH HOH . 
E 3 HOH A 34 434 77 HOH HOH . 
E 3 HOH A 35 435 83 HOH HOH . 
E 3 HOH A 36 436 88 HOH HOH . 
E 3 HOH A 37 437 103 HOH HOH . 
E 3 HOH A 38 438 108 HOH HOH . 
E 3 HOH A 39 439 114 HOH HOH . 
E 3 HOH A 40 440 117 HOH HOH . 
E 3 HOH A 41 441 121 HOH HOH . 
E 3 HOH A 42 442 122 HOH HOH . 
F 3 HOH B 1 501 3 HOH HOH . 
F 3 HOH B 2 502 7 HOH HOH . 
F 3 HOH B 3 503 10 HOH HOH . 
F 3 HOH B 4 504 13 HOH HOH . 
F 3 HOH B 5 505 17 HOH HOH . 
F 3 HOH B 6 506 21 HOH HOH . 
F 3 HOH B 7 507 22 HOH HOH . 
F 3 HOH B 8 508 25 HOH HOH . 
F 3 HOH B 9 509 26 HOH HOH . 
F 3 HOH B 10 510 27 HOH HOH . 
F 3 HOH B 11 511 29 HOH HOH . 
F 3 HOH B 12 512 32 HOH HOH . 
F 3 HOH B 13 513 33 HOH HOH . 
F 3 HOH B 14 514 34 HOH HOH . 
F 3 HOH B 15 515 36 HOH HOH . 
F 3 HOH B 16 516 45 HOH HOH . 
F 3 HOH B 17 517 48 HOH HOH . 
F 3 HOH B 18 518 54 HOH HOH . 
F 3 HOH B 19 519 55 HOH HOH . 
F 3 HOH B 20 520 57 HOH HOH . 
F 3 HOH B 21 521 59 HOH HOH . 
F 3 HOH B 22 522 60 HOH HOH . 
F 3 HOH B 23 523 62 HOH HOH . 
F 3 HOH B 24 524 67 HOH HOH . 
F 3 HOH B 25 525 70 HOH HOH . 
F 3 HOH B 26 526 72 HOH HOH . 
F 3 HOH B 27 527 73 HOH HOH . 
F 3 HOH B 28 528 75 HOH HOH . 
F 3 HOH B 29 529 78 HOH HOH . 
F 3 HOH B 30 530 80 HOH HOH . 
F 3 HOH B 31 531 85 HOH HOH . 
F 3 HOH B 32 532 91 HOH HOH . 
F 3 HOH B 33 533 100 HOH HOH . 
F 3 HOH B 34 534 105 HOH HOH . 
F 3 HOH B 35 535 107 HOH HOH . 
F 3 HOH B 36 536 118 HOH HOH . 
F 3 HOH B 37 537 119 HOH HOH . 
F 3 HOH B 38 538 120 HOH HOH . 
F 3 HOH B 39 539 124 HOH HOH . 
F 3 HOH B 40 540 125 HOH HOH . 
F 3 HOH B 41 541 126 HOH HOH . 
F 3 HOH B 42 542 127 HOH HOH . 
F 3 HOH B 43 543 128 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 2 -4.573 -51.561 -37.835 1 62.61 ? C1 GOL 402 B 1 
HETATM 2 O O1 GOL . . . D 2 -5.872 -51.748 -38.351 1 60.76 ? O1 GOL 402 B 1 
HETATM 3 C C2 GOL . . . D 2 -3.737 -50.74 -38.812 1 61.8 ? C2 GOL 402 B 1 
HETATM 4 O O2 GOL . . . D 2 -4.545 -50.284 -39.874 1 62.57 ? O2 GOL 402 B 1 
HETATM 5 C C3 GOL . . . D 2 -3.13 -49.551 -38.079 1 57.83 ? C3 GOL 402 B 1 
HETATM 6 O O3 GOL . . . D 2 -2.027 -49.045 -38.794 1 55.7 ? O3 GOL 402 B 1 
HETATM 7 H H2 GOL . . . D 2 -2.931 -51.365 -39.198 1 101.22 ? H2 GOL 402 B 1 
HETATM 8 H HO2 GOL . . . D 2 -5.257 -49.711 -39.519 1 105.48 ? HO2 GOL 402 B 1 
HETATM 9 H H31 GOL . . . D 2 -2.811 -49.859 -37.083 1 90.98 ? H31 GOL 402 B 1 
HETATM 10 H H32 GOL . . . D 2 -3.882 -48.769 -37.965 1 90.98 ? H32 GOL 402 B 1 
HETATM 11 H HO3 GOL . . . D 2 -1.679 -48.25 -38.338 1 82.31 ? HO3 GOL 402 B 1 
#
_model_server_stats.io_time_ms              77 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           11 
#