data_8BQB # _model_server_result.job_id pwoq8B4eQNbavOQjUuZweA _model_server_result.datetime_utc '2024-11-22 21:29:09' _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 8bqb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 8BQB # _exptl.entry_id 8BQB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 194.182 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1R,2S,3S,4S,5R,6R)-6-(HYDROXYMETHYL)CYCLOHEXANE-1,2,3,4,5-PENTOL _entity.pdbx_number_of_molecules 3 _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 8BQB _cell.length_a 126.441 _cell.length_b 176.159 _cell.length_c 115.701 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BQB _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,J 1 1 B,F,G,K 2 1 C,H,I,L 3 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 D N N ? 2 F N N ? 2 I 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 OE1 GLU 265 A GLU 265 1_555 D C1 YLL . A YLL 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.405 ? covale ? covale2 D O4 YLL . A YLL 401 1_555 E C1 BGC . A BGC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale3 B OE1 GLU 265 B GLU 265 1_555 F C1 YLL . B YLL 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale4 F O4 YLL . B YLL 401 1_555 G C1 BGC . B BGC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.629 ? covale ? covale5 C OE1 GLU 265 C GLU 265 1_555 I C1 YLL . C YLL 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale6 H C1 BGC . C BGC 401 1_555 I O4 YLL . C YLL 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? # _chem_comp.formula 'C7 H14 O6' _chem_comp.formula_weight 194.182 _chem_comp.id YLL _chem_comp.mon_nstd_flag . _chem_comp.name (1R,2S,3S,4S,5R,6R)-6-(HYDROXYMETHYL)CYCLOHEXANE-1,2,3,4,5-PENTOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O5 C7 YLL sing 387 n n O5 H5 YLL sing 388 n n C7 C5 YLL sing 389 n n C7 C1 YLL sing 390 n n C7 H7 YLL sing 391 n n C5 C6 YLL sing 392 n n C5 C4 YLL sing 393 n n C5 HA YLL sing 394 n n C6 O6 YLL sing 395 n n C6 H6C1 YLL sing 396 n n C6 H6C2 YLL sing 397 n n O6 H6 YLL sing 398 n n C4 O4 YLL sing 399 n n C4 C3 YLL sing 400 n n C4 H4 YLL sing 401 n n O4 HB YLL sing 402 n n C3 O3 YLL sing 403 n n C3 C2 YLL sing 404 n n C3 H3 YLL sing 405 n n O3 HC YLL sing 406 n n C2 O2 YLL sing 407 n n C2 C1 YLL sing 408 n n C2 H2 YLL sing 409 n n O2 HD YLL sing 410 n n C1 H1 YLL sing 411 n n C1 OXT YLL sing 412 n n OXT HXT YLL sing 413 n n # _atom_sites.entry_id 8BQB _atom_sites.fract_transf_matrix[1][1] 0.007909 _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] 0.005677 _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] 0.008643 _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 D 2 YLL A 1 401 401 YLL YLL . E 3 BGC A 1 402 501 BGC BGC . F 2 YLL B 1 401 401 YLL YLL . G 3 BGC B 1 402 501 BGC BGC . H 3 BGC C 1 401 401 BGC BGC . I 2 YLL C 1 402 501 YLL YLL . J 4 HOH A 1 501 5 HOH HOH . J 4 HOH A 2 502 7 HOH HOH . J 4 HOH A 3 503 15 HOH HOH . J 4 HOH A 4 504 4 HOH HOH . J 4 HOH A 5 505 14 HOH HOH . J 4 HOH A 6 506 12 HOH HOH . J 4 HOH A 7 507 2 HOH HOH . J 4 HOH A 8 508 21 HOH HOH . K 4 HOH B 1 501 17 HOH HOH . K 4 HOH B 2 502 1 HOH HOH . K 4 HOH B 3 503 11 HOH HOH . K 4 HOH B 4 504 16 HOH HOH . K 4 HOH B 5 505 6 HOH HOH . K 4 HOH B 6 506 8 HOH HOH . K 4 HOH B 7 507 3 HOH HOH . K 4 HOH B 8 508 13 HOH HOH . K 4 HOH B 9 509 10 HOH HOH . L 4 HOH C 1 501 20 HOH HOH . L 4 HOH C 2 502 22 HOH HOH . L 4 HOH C 3 503 18 HOH HOH . L 4 HOH C 4 504 19 HOH HOH . L 4 HOH C 5 505 9 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 O O5 YLL . . . D 2 -6.502 33.833 -3.957 1 36.47 0 O5 YLL 401 A 1 HETATM 2 C C7 YLL . . . D 2 -6.895 32.449 -3.957 1 33.26 0 C7 YLL 401 A 1 HETATM 3 C C5 YLL . . . D 2 -8.018 32.166 -2.946 1 33.45 0 C5 YLL 401 A 1 HETATM 4 C C6 YLL . . . D 2 -9.249 33.011 -3.197 1 32.8 0 C6 YLL 401 A 1 HETATM 5 O O6 YLL . . . D 2 -8.858 34.352 -3.067 1 35.48 0 O6 YLL 401 A 1 HETATM 6 C C4 YLL . . . D 2 -7.546 32.341 -1.505 1 33.49 0 C4 YLL 401 A 1 HETATM 7 O O4 YLL . . . D 2 -8.556 31.945 -0.572 1 31.57 0 O4 YLL 401 A 1 HETATM 8 C C3 YLL . . . D 2 -6.252 31.587 -1.201 1 36.54 0 C3 YLL 401 A 1 HETATM 9 O O3 YLL . . . D 2 -5.838 31.961 0.12 1 35.42 0 O3 YLL 401 A 1 HETATM 10 C C2 YLL . . . D 2 -5.163 31.922 -2.226 1 35.09 0 C2 YLL 401 A 1 HETATM 11 O O2 YLL . . . D 2 -3.986 31.159 -1.972 1 35.13 0 O2 YLL 401 A 1 HETATM 12 C C1 YLL . . . D 2 -5.647 31.645 -3.646 1 34.56 0 C1 YLL 401 A 1 HETATM 13 H H5 YLL . . . D 2 -5.672 33.86 -3.827 0 36.67 0 H5 YLL 401 A 1 HETATM 14 H H7 YLL . . . D 2 -7.216 32.213 -4.87 1 34.08 0 H7 YLL 401 A 1 HETATM 15 H HA YLL . . . D 2 -8.278 31.219 -3.056 1 33.3 0 HA YLL 401 A 1 HETATM 16 H H6C1 YLL . . . D 2 -9.953 32.803 -2.548 1 33.57 0 H6C1 YLL 401 A 1 HETATM 17 H H6C2 YLL . . . D 2 -9.596 32.851 -4.1 1 33.57 0 H6C2 YLL 401 A 1 HETATM 18 H H4 YLL . . . D 2 -7.372 33.311 -1.357 1 33.68 0 H4 YLL 401 A 1 HETATM 19 H H6 YLL . . . D 2 -9.553 34.873 -3.175 0 34.5 0 H6 YLL 401 A 1 HETATM 20 H HB YLL . . . D 2 -9.147 31.508 -0.973 1 32.27 0 HB YLL 401 A 1 HETATM 21 H H3 YLL . . . D 2 -6.425 30.614 -1.222 1 35.47 0 H3 YLL 401 A 1 HETATM 22 H HC YLL . . . D 2 -5.047 32.288 0.063 0 35.16 0 HC YLL 401 A 1 HETATM 23 H H2 YLL . . . D 2 -4.938 32.884 -2.148 1 35.19 0 H2 YLL 401 A 1 HETATM 24 H HD YLL . . . D 2 -3.809 30.709 -2.677 0 35.14 0 HD YLL 401 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 41 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #