data_5D6L # _model_server_result.job_id vbKnyHkJUo0S7IvdDlNolg _model_server_result.datetime_utc '2024-11-23 21:03:28' _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 5d6l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":1210}' # _entry.id 5D6L # _exptl.entry_id 5D6L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 90.121 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,4-BUTANEDIOL _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 105.67 _cell.angle_gamma 90 _cell.entry_id 5D6L _cell.length_a 107.26 _cell.length_b 170.36 _cell.length_c 40.27 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D6L _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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,G,H,I,J,K,L,M,N,O,P,Q _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 ? 5 J N N ? 5 K N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 BGC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B BGC 1 B 1 BGC A 401 MAL 2 n B GLC 2 B 2 GLC A 401 MAL # 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 113 A CYS 106 1_555 A SG CYS 198 A CYS 191 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 191 A CYS 184 1_555 A SG CYS 197 A CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A SG CYS 400 A CYS 265 1_555 L C2 ACM . A ACM 1211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.74 ? covale ? covale2 A SG CYS 476 A CYS 341 1_555 P C1 PLM . A PLM 1215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.692 ? covale ? covale3 B O4 BGC . B BGC 1 1_555 B C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 sing # _chem_comp.formula 'C4 H10 O2' _chem_comp.formula_weight 90.121 _chem_comp.id BU1 _chem_comp.mon_nstd_flag . _chem_comp.name 1,4-BUTANEDIOL _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 BU1 sing 188 n n C1 O5 BU1 sing 189 n n C1 H11 BU1 sing 190 n n C1 H12 BU1 sing 191 n n C2 C3 BU1 sing 192 n n C2 H21 BU1 sing 193 n n C2 H22 BU1 sing 194 n n C3 C4 BU1 sing 195 n n C3 H31 BU1 sing 196 n n C3 H32 BU1 sing 197 n n C4 O6 BU1 sing 198 n n C4 H41 BU1 sing 199 n n C4 H42 BU1 sing 200 n n O5 HO5 BU1 sing 201 n n O6 HO6 BU1 sing 202 n n # _atom_sites.entry_id 5D6L _atom_sites.fract_transf_matrix[1][1] 0.009323 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002615 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00587 _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] 0.025791 _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 3 SO4 A 1 1202 402 SO4 SO4 . D 3 SO4 A 1 1203 403 SO4 SO4 . E 3 SO4 A 1 1204 404 SO4 SO4 . F 3 SO4 A 1 1205 405 SO4 SO4 . G 3 SO4 A 1 1206 406 SO4 SO4 . H 3 SO4 A 1 1207 407 SO4 SO4 . I 4 CAU A 1 1208 408 CAU CAU . J 5 BU1 A 1 1209 409 BU1 BU1 . K 5 BU1 A 1 1210 410 BU1 BU1 . L 6 ACM A 1 1211 411 ACM ACM . M 7 CLR A 1 1212 412 CLR CLR . N 7 CLR A 1 1213 413 CLR CLR . O 7 CLR A 1 1214 414 CLR CLR . P 8 PLM A 1 1215 415 PLM PLM . Q 9 12P A 1 1216 416 12P 12P . # 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 BU1 . . . K 5 27.797 26.104 17.751 1 78.48 ? C1 BU1 1210 A 1 HETATM 2 C C2 BU1 . . . K 5 28.132 26.427 16.311 1 69.27 ? C2 BU1 1210 A 1 HETATM 3 C C3 BU1 . . . K 5 27.71 27.849 16.005 1 67.22 ? C3 BU1 1210 A 1 HETATM 4 C C4 BU1 . . . K 5 28.896 28.636 15.49 1 63.72 ? C4 BU1 1210 A 1 HETATM 5 O O5 BU1 . . . K 5 28.226 24.795 18.056 1 75.72 ? O5 BU1 1210 A 1 HETATM 6 O O6 BU1 . . . K 5 29.576 29.234 16.571 1 61.84 ? O6 BU1 1210 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 6 #