data_3D9L # _model_server_result.job_id ZCvmJ9GGsmRxlwMqCf0-6Q _model_server_result.datetime_utc '2024-11-12 16:05:36' _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 3d9l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":503}' # _entry.id 3D9L # _exptl.entry_id 3D9L _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 1 _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 3D9L _cell.length_a 56.296 _cell.length_b 56.296 _cell.length_c 106.739 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3D9L _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,G,I 1 1 B,D,F,H 2 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C C11 BTN 1 Y BTN 0 1_555 C N TYR 2 Y TYR 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.262 ? covale ? covale2 C C TYR 2 Y TYR 1 1_555 C N SEP 3 Y SEP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale3 C C SEP 3 Y SEP 2 1_555 C N PRO 4 Y PRO 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale4 C C TYR 9 Y TYR 8 1_555 C N SEP 10 Y SEP 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale5 C C SEP 10 Y SEP 9 1_555 C N PRO 11 Y PRO 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.355 ? covale ? covale6 D C TYR 9 Z TYR 1 1_555 D N SEP 10 Z SEP 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 D C SEP 10 Z SEP 2 1_555 D N PRO 11 Z PRO 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? # _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 168 n n C1 C2 GOL sing 169 n n C1 H11 GOL sing 170 n n C1 H12 GOL sing 171 n n O1 HO1 GOL sing 172 n n C2 O2 GOL sing 173 n n C2 C3 GOL sing 174 n n C2 H2 GOL sing 175 n n O2 HO2 GOL sing 176 n n C3 O3 GOL sing 177 n n C3 H31 GOL sing 178 n n C3 H32 GOL sing 179 n n O3 HO3 GOL sing 180 n n # _atom_sites.entry_id 3D9L _atom_sites.fract_transf_matrix[1][1] 0.017763 _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] 0.017763 _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] 0.009369 _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 E 3 ACT A 1 501 501 ACT ACT . F 4 GOL B 1 503 503 GOL GOL . G 5 HOH A 1 502 502 HOH HOH . G 5 HOH A 2 503 503 HOH HOH . G 5 HOH A 3 504 504 HOH HOH . G 5 HOH A 4 505 505 HOH HOH . G 5 HOH A 5 506 506 HOH HOH . G 5 HOH A 6 507 507 HOH HOH . G 5 HOH A 7 508 508 HOH HOH . G 5 HOH A 8 509 509 HOH HOH . G 5 HOH A 9 510 510 HOH HOH . G 5 HOH A 10 511 511 HOH HOH . G 5 HOH A 11 512 512 HOH HOH . G 5 HOH A 12 513 513 HOH HOH . G 5 HOH A 13 514 514 HOH HOH . G 5 HOH A 14 515 515 HOH HOH . G 5 HOH A 15 516 516 HOH HOH . G 5 HOH A 16 517 517 HOH HOH . G 5 HOH A 17 518 518 HOH HOH . G 5 HOH A 18 519 519 HOH HOH . G 5 HOH A 19 520 520 HOH HOH . G 5 HOH A 20 521 521 HOH HOH . G 5 HOH A 21 522 522 HOH HOH . G 5 HOH A 22 523 523 HOH HOH . G 5 HOH A 23 524 524 HOH HOH . G 5 HOH A 24 525 525 HOH HOH . G 5 HOH A 25 526 526 HOH HOH . H 5 HOH B 1 504 504 HOH HOH . H 5 HOH B 2 505 505 HOH HOH . H 5 HOH B 3 506 506 HOH HOH . H 5 HOH B 4 507 507 HOH HOH . H 5 HOH B 5 508 508 HOH HOH . H 5 HOH B 6 509 509 HOH HOH . H 5 HOH B 7 510 510 HOH HOH . H 5 HOH B 8 511 511 HOH HOH . H 5 HOH B 9 512 512 HOH HOH . H 5 HOH B 10 513 513 HOH HOH . H 5 HOH B 11 514 514 HOH HOH . H 5 HOH B 12 515 515 HOH HOH . H 5 HOH B 13 516 516 HOH HOH . H 5 HOH B 14 517 517 HOH HOH . H 5 HOH B 15 518 518 HOH HOH . H 5 HOH B 16 519 519 HOH HOH . H 5 HOH B 17 520 520 HOH HOH . H 5 HOH B 18 521 521 HOH HOH . H 5 HOH B 19 522 522 HOH HOH . H 5 HOH B 20 523 523 HOH HOH . H 5 HOH B 21 524 524 HOH HOH . H 5 HOH B 22 525 525 HOH HOH . H 5 HOH B 23 526 526 HOH HOH . H 5 HOH B 24 527 527 HOH HOH . H 5 HOH B 25 528 528 HOH HOH . H 5 HOH B 26 529 529 HOH HOH . H 5 HOH B 27 530 530 HOH HOH . H 5 HOH B 28 531 531 HOH HOH . H 5 HOH B 29 532 532 HOH HOH . H 5 HOH B 30 533 533 HOH HOH . I 5 HOH Y 1 65 65 HOH HOH . I 5 HOH Y 2 109 109 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 4 27.121 29.991 -11.075 1 62.04 ? C1 GOL 503 B 1 HETATM 2 O O1 GOL . . . F 4 28.145 29.577 -11.963 1 61.87 ? O1 GOL 503 B 1 HETATM 3 C C2 GOL . . . F 4 25.739 29.618 -11.62 1 61.57 ? C2 GOL 503 B 1 HETATM 4 O O2 GOL . . . F 4 25.865 29.057 -12.908 1 62.04 ? O2 GOL 503 B 1 HETATM 5 C C3 GOL . . . F 4 25.054 28.619 -10.69 1 60.83 ? C3 GOL 503 B 1 HETATM 6 O O3 GOL . . . F 4 23.703 28.94 -10.425 1 58.21 ? O3 GOL 503 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 6 #