data_6XB2 # _model_server_result.job_id 0ljT4jJMUPDBq1THWXafmg _model_server_result.datetime_utc '2025-05-23 05:39:28' _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 6xb2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 6XB2 # _exptl.entry_id 6XB2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 78.133 _entity.id 3 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 'DIMETHYL SULFOXIDE' _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 100.739 _cell.angle_gamma 90 _cell.entry_id 6XB2 _cell.length_a 45.292 _cell.length_b 54.636 _cell.length_c 115.157 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XB2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y (x,y,-x+z)' _symmetry.space_group_name_H-M 'I 1 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _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 A SG CYS 145 A CYS 145 1_555 C C1 NEN . A NEN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.794 ? covale ? covale2 A SG CYS 156 A CYS 156 1_555 B C1 NEN . A NEN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.803 ? # _chem_comp.formula 'C2 H6 O S' _chem_comp.formula_weight 78.133 _chem_comp.id DMS _chem_comp.mon_nstd_flag . _chem_comp.name 'DIMETHYL SULFOXIDE' _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 S O DMS doub 83 n n S C1 DMS sing 84 n n S C2 DMS sing 85 n n C1 H11 DMS sing 86 n n C1 H12 DMS sing 87 n n C1 H13 DMS sing 88 n n C2 H21 DMS sing 89 n n C2 H22 DMS sing 90 n n C2 H23 DMS sing 91 n n # _atom_sites.entry_id 6XB2 _atom_sites.fract_transf_matrix[1][1] 0.022079 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004187 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018303 _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] 0.008839 _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 B 2 NEN A 1 401 401 NEN CNM . C 2 NEN A 1 402 501 NEN CNM . D 3 DMS A 1 403 601 DMS DMS . E 4 HOH A 1 501 16 HOH HOH . E 4 HOH A 2 502 34 HOH HOH . E 4 HOH A 3 503 25 HOH HOH . E 4 HOH A 4 504 24 HOH HOH . E 4 HOH A 5 505 35 HOH HOH . E 4 HOH A 6 506 31 HOH HOH . E 4 HOH A 7 507 11 HOH HOH . E 4 HOH A 8 508 46 HOH HOH . E 4 HOH A 9 509 2 HOH HOH . E 4 HOH A 10 510 20 HOH HOH . E 4 HOH A 11 511 33 HOH HOH . E 4 HOH A 12 512 21 HOH HOH . E 4 HOH A 13 513 3 HOH HOH . E 4 HOH A 14 514 1 HOH HOH . E 4 HOH A 15 515 45 HOH HOH . E 4 HOH A 16 516 10 HOH HOH . E 4 HOH A 17 517 17 HOH HOH . E 4 HOH A 18 518 22 HOH HOH . E 4 HOH A 19 519 6 HOH HOH . E 4 HOH A 20 520 8 HOH HOH . E 4 HOH A 21 521 14 HOH HOH . E 4 HOH A 22 522 28 HOH HOH . E 4 HOH A 23 523 43 HOH HOH . E 4 HOH A 24 524 15 HOH HOH . E 4 HOH A 25 525 13 HOH HOH . E 4 HOH A 26 526 32 HOH HOH . E 4 HOH A 27 527 48 HOH HOH . E 4 HOH A 28 528 39 HOH HOH . E 4 HOH A 29 529 44 HOH HOH . E 4 HOH A 30 530 5 HOH HOH . E 4 HOH A 31 531 42 HOH HOH . E 4 HOH A 32 532 37 HOH HOH . E 4 HOH A 33 533 18 HOH HOH . E 4 HOH A 34 534 26 HOH HOH . E 4 HOH A 35 535 9 HOH HOH . E 4 HOH A 36 536 40 HOH HOH . E 4 HOH A 37 537 30 HOH HOH . E 4 HOH A 38 538 29 HOH HOH . E 4 HOH A 39 539 47 HOH HOH . E 4 HOH A 40 540 38 HOH HOH . E 4 HOH A 41 541 27 HOH HOH . E 4 HOH A 42 542 4 HOH HOH . E 4 HOH A 43 543 23 HOH HOH . E 4 HOH A 44 544 19 HOH HOH . E 4 HOH A 45 545 36 HOH HOH . E 4 HOH A 46 546 12 HOH HOH . E 4 HOH A 47 547 41 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 S S DMS . . . D 3 8.055 -1.431 4.701 0.69 56.29 ? S DMS 403 A 1 HETATM 2 O O DMS . . . D 3 8.974 -0.435 4.076 0.69 53.98 ? O DMS 403 A 1 HETATM 3 C C1 DMS . . . D 3 7.532 -2.652 3.466 0.69 36.14 ? C1 DMS 403 A 1 HETATM 4 C C2 DMS . . . D 3 6.449 -0.65 5.02 0.69 40.3 ? C2 DMS 403 A 1 HETATM 5 H H11 DMS . . . D 3 6.691 -3.184 3.829 0.69 43.41 ? H11 DMS 403 A 1 HETATM 6 H H12 DMS . . . D 3 8.325 -3.33 3.281 0.69 43.41 ? H12 DMS 403 A 1 HETATM 7 H H13 DMS . . . D 3 7.275 -2.157 2.566 0.69 43.41 ? H13 DMS 403 A 1 HETATM 8 H H21 DMS . . . D 3 6.515 -0.047 5.888 0.69 48.4 ? H21 DMS 403 A 1 HETATM 9 H H22 DMS . . . D 3 5.715 -1.399 5.166 0.69 48.4 ? H22 DMS 403 A 1 HETATM 10 H H23 DMS . . . D 3 6.179 -0.047 4.192 0.69 48.4 ? H23 DMS 403 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 224 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 10 #