data_8CAV # _model_server_result.job_id jmOpYljsaxpj6cNYwuFR9A _model_server_result.datetime_utc '2025-02-18 13:59:31' _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 8cav # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1001}' # _entry.id 8CAV # _exptl.entry_id 8CAV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 106.25 _cell.angle_gamma 90 _cell.entry_id 8CAV _cell.length_a 84.37 _cell.length_b 116.13 _cell.length_c 97.41 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CAV _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 _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 ? 3 E N N ? 3 F N N ? 3 I N N ? 3 K 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 729 A CYS 729 1_555 A SG CYS 775 A CYS 775 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 B SG CYS 729 B CYS 729 1_555 B SG CYS 775 B CYS 775 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc1 A OD2 ASP 368 A ASP 368 1_555 H MG MG . A MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc2 G O2A ANP . A ANP 1003 1_555 H MG MG . A MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc3 J O5' ANP . B ANP 1102 1_555 L MG MG . B MG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C1 C2 MPD sing 287 n n C1 H11 MPD sing 288 n n C1 H12 MPD sing 289 n n C1 H13 MPD sing 290 n n C2 O2 MPD sing 291 n n C2 CM MPD sing 292 n n C2 C3 MPD sing 293 n n O2 HO2 MPD sing 294 n n CM HM1 MPD sing 295 n n CM HM2 MPD sing 296 n n CM HM3 MPD sing 297 n n C3 C4 MPD sing 298 n n C3 H31 MPD sing 299 n n C3 H32 MPD sing 300 n n C4 O4 MPD sing 301 n n C4 C5 MPD sing 302 n n C4 H4 MPD sing 303 n n O4 HO4 MPD sing 304 n n C5 H51 MPD sing 305 n n C5 H52 MPD sing 306 n n C5 H53 MPD sing 307 n n # _atom_sites.entry_id 8CAV _atom_sites.fract_transf_matrix[1][1] 0.011853 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003455 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008611 _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] 0.010693 _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 MPD A 1 1001 1001 MPD MPD . F 3 MPD A 1 1002 1101 MPD MPD . G 4 ANP A 1 1003 901 ANP ANP . H 5 MG A 1 1004 1 MG MG . I 3 MPD B 1 1101 1101 MPD MPD . J 4 ANP B 1 1102 901 ANP ANP . K 3 MPD B 1 1103 1001 MPD MPD . L 5 MG B 1 1104 2 MG MG . M 6 HOH A 1 1101 10 HOH HOH . M 6 HOH A 2 1102 6 HOH HOH . M 6 HOH A 3 1103 4 HOH HOH . M 6 HOH A 4 1104 7 HOH HOH . M 6 HOH A 5 1105 9 HOH HOH . M 6 HOH A 6 1106 8 HOH HOH . M 6 HOH A 7 1107 1 HOH HOH . M 6 HOH A 8 1108 11 HOH HOH . M 6 HOH A 9 1109 3 HOH HOH . M 6 HOH A 10 1110 12 HOH HOH . M 6 HOH A 11 1111 13 HOH HOH . M 6 HOH A 12 1112 5 HOH HOH . M 6 HOH A 13 1113 14 HOH HOH . N 6 HOH B 1 1201 16 HOH HOH . N 6 HOH B 2 1202 2 HOH HOH . N 6 HOH B 3 1203 15 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 MPD . . . E 3 5.645 8.307 26.948 1 69.89 ? C1 MPD 1001 A 1 HETATM 2 C C2 MPD . . . E 3 4.671 9.348 27.483 1 69.89 ? C2 MPD 1001 A 1 HETATM 3 O O2 MPD . . . E 3 4.134 8.87 28.745 1 69.89 ? O2 MPD 1001 A 1 HETATM 4 C CM MPD . . . E 3 3.52 9.504 26.496 1 69.89 ? CM MPD 1001 A 1 HETATM 5 C C3 MPD . . . E 3 5.381 10.68 27.72 1 69.89 ? C3 MPD 1001 A 1 HETATM 6 C C4 MPD . . . E 3 4.454 11.75 28.278 1 69.89 ? C4 MPD 1001 A 1 HETATM 7 O O4 MPD . . . E 3 4.13 11.391 29.6 1 69.89 ? O4 MPD 1001 A 1 HETATM 8 C C5 MPD . . . E 3 5.092 13.134 28.299 1 69.89 ? C5 MPD 1001 A 1 HETATM 9 H H11 MPD . . . E 3 6.65 8.727 26.925 1 15.71 ? H11 MPD 1001 A 1 HETATM 10 H H12 MPD . . . E 3 5.349 8.017 25.94 1 15.71 ? H12 MPD 1001 A 1 HETATM 11 H H13 MPD . . . E 3 5.632 7.431 27.597 1 15.71 ? H13 MPD 1001 A 1 HETATM 12 H HO2 MPD . . . E 3 4.424 9.463 29.47 1 15.71 ? HO2 MPD 1001 A 1 HETATM 13 H HM1 MPD . . . E 3 2.693 10.021 26.982 1 15.71 ? HM1 MPD 1001 A 1 HETATM 14 H HM2 MPD . . . E 3 3.856 10.083 25.636 1 15.71 ? HM2 MPD 1001 A 1 HETATM 15 H HM3 MPD . . . E 3 3.19 8.519 26.166 1 15.71 ? HM3 MPD 1001 A 1 HETATM 16 H H31 MPD . . . E 3 5.801 11.03 26.777 1 15.71 ? H31 MPD 1001 A 1 HETATM 17 H H32 MPD . . . E 3 6.205 10.525 28.417 1 15.71 ? H32 MPD 1001 A 1 HETATM 18 H H4 MPD . . . E 3 3.573 11.805 27.638 1 15.71 ? H4 MPD 1001 A 1 HETATM 19 H HO4 MPD . . . E 3 3.595 12.11 29.985 1 15.71 ? HO4 MPD 1001 A 1 HETATM 20 H H51 MPD . . . E 3 5.116 13.508 29.322 1 15.71 ? H51 MPD 1001 A 1 HETATM 21 H H52 MPD . . . E 3 4.508 13.813 27.677 1 15.71 ? H52 MPD 1001 A 1 HETATM 22 H H53 MPD . . . E 3 6.109 13.071 27.911 1 15.71 ? H53 MPD 1001 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 63 _model_server_stats.create_model_time_ms 157 _model_server_stats.query_time_ms 1316 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 22 #