data_6VM7 # _model_server_result.job_id Hdl7DsaxXY83oqmgBG6cjA _model_server_result.datetime_utc '2024-11-04 23:17:11' _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 6vm7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":202}' # _entry.id 6VM7 # _exptl.entry_id 6VM7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 6VM7 _cell.length_a 68.118 _cell.length_b 94.403 _cell.length_c 143.849 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VM7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression C,D,E,F,G,H,K,L,M 1 1 A,B,I,J 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' 4_545 x+1/2,-y-1/2,-z 1 0 0 0 -1 0 0 0 -1 34.059 -47.2015 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 F N N ? 6 G N N ? 6 H 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 24 D CYS 24 1_555 A SG CYS 92 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 137 D CYS 137 1_555 A SG CYS 187 D CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 162 D CYS 162 1_555 B SG CYS 170 E CYS 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 B SG CYS 22 E CYS 22 1_555 B SG CYS 90 E CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 B SG CYS 144 E CYS 144 1_555 B SG CYS 209 E CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 C SG CYS 101 A CYS 101 1_555 C SG CYS 164 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 C SG CYS 203 A CYS 203 1_555 C SG CYS 259 A CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 D SG CYS 26 B CYS 26 1_555 D SG CYS 81 B CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? # _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 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 6VM7 _atom_sites.fract_transf_matrix[1][1] 0.01468 _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] 0.010593 _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] 0.006952 _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 F 6 GOL A 1 301 1 GOL GOL . G 6 GOL B 1 201 3 GOL GOL . H 6 GOL B 1 202 4 GOL GOL . I 7 HOH D 1 301 16 HOH HOH . I 7 HOH D 2 302 154 HOH HOH . I 7 HOH D 3 303 30 HOH HOH . I 7 HOH D 4 304 46 HOH HOH . I 7 HOH D 5 305 35 HOH HOH . I 7 HOH D 6 306 29 HOH HOH . I 7 HOH D 7 307 9 HOH HOH . I 7 HOH D 8 308 39 HOH HOH . I 7 HOH D 9 309 44 HOH HOH . I 7 HOH D 10 310 68 HOH HOH . I 7 HOH D 11 311 61 HOH HOH . I 7 HOH D 12 312 11 HOH HOH . I 7 HOH D 13 313 157 HOH HOH . I 7 HOH D 14 314 84 HOH HOH . I 7 HOH D 15 315 50 HOH HOH . I 7 HOH D 16 316 76 HOH HOH . I 7 HOH D 17 317 159 HOH HOH . I 7 HOH D 18 318 155 HOH HOH . I 7 HOH D 19 319 156 HOH HOH . J 7 HOH E 1 301 145 HOH HOH . J 7 HOH E 2 302 158 HOH HOH . J 7 HOH E 3 303 162 HOH HOH . J 7 HOH E 4 304 5 HOH HOH . J 7 HOH E 5 305 33 HOH HOH . J 7 HOH E 6 306 153 HOH HOH . J 7 HOH E 7 307 103 HOH HOH . J 7 HOH E 8 308 59 HOH HOH . J 7 HOH E 9 309 161 HOH HOH . J 7 HOH E 10 310 28 HOH HOH . J 7 HOH E 11 311 85 HOH HOH . J 7 HOH E 12 312 107 HOH HOH . J 7 HOH E 13 313 62 HOH HOH . J 7 HOH E 14 314 74 HOH HOH . J 7 HOH E 15 315 19 HOH HOH . J 7 HOH E 16 316 40 HOH HOH . J 7 HOH E 17 317 63 HOH HOH . J 7 HOH E 18 318 12 HOH HOH . J 7 HOH E 19 319 31 HOH HOH . J 7 HOH E 20 320 70 HOH HOH . J 7 HOH E 21 321 135 HOH HOH . J 7 HOH E 22 322 56 HOH HOH . J 7 HOH E 23 323 102 HOH HOH . J 7 HOH E 24 324 1 HOH HOH . J 7 HOH E 25 325 7 HOH HOH . J 7 HOH E 26 326 72 HOH HOH . J 7 HOH E 27 327 53 HOH HOH . J 7 HOH E 28 328 15 HOH HOH . J 7 HOH E 29 329 160 HOH HOH . K 7 HOH A 1 401 113 HOH HOH . K 7 HOH A 2 402 131 HOH HOH . K 7 HOH A 3 403 2 HOH HOH . K 7 HOH A 4 404 4 HOH HOH . K 7 HOH A 5 405 66 HOH HOH . K 7 HOH A 6 406 60 HOH HOH . K 7 HOH A 7 407 173 HOH HOH . K 7 HOH A 8 408 147 HOH HOH . K 7 HOH A 9 409 21 HOH HOH . K 7 HOH A 10 410 43 HOH HOH . K 7 HOH A 11 411 32 HOH HOH . K 7 HOH A 12 412 86 HOH HOH . K 7 HOH A 13 413 73 HOH HOH . K 7 HOH A 14 414 24 HOH HOH . K 7 HOH A 15 415 104 HOH HOH . K 7 HOH A 16 416 112 HOH HOH . K 7 HOH A 17 417 20 HOH HOH . K 7 HOH A 18 418 94 HOH HOH . K 7 HOH A 19 419 88 HOH HOH . K 7 HOH A 20 420 126 HOH HOH . K 7 HOH A 21 421 3 HOH HOH . K 7 HOH A 22 422 105 HOH HOH . K 7 HOH A 23 423 169 HOH HOH . K 7 HOH A 24 424 14 HOH HOH . K 7 HOH A 25 425 48 HOH HOH . K 7 HOH A 26 426 34 HOH HOH . K 7 HOH A 27 427 51 HOH HOH . K 7 HOH A 28 428 22 HOH HOH . K 7 HOH A 29 429 95 HOH HOH . K 7 HOH A 30 430 71 HOH HOH . K 7 HOH A 31 431 132 HOH HOH . K 7 HOH A 32 432 164 HOH HOH . K 7 HOH A 33 433 171 HOH HOH . K 7 HOH A 34 434 168 HOH HOH . K 7 HOH A 35 435 172 HOH HOH . K 7 HOH A 36 436 170 HOH HOH . K 7 HOH A 37 437 176 HOH HOH . K 7 HOH A 38 438 166 HOH HOH . K 7 HOH A 39 439 163 HOH HOH . K 7 HOH A 40 440 165 HOH HOH . K 7 HOH A 41 441 167 HOH HOH . K 7 HOH A 42 442 133 HOH HOH . L 7 HOH B 1 301 10 HOH HOH . L 7 HOH B 2 302 45 HOH HOH . L 7 HOH B 3 303 42 HOH HOH . L 7 HOH B 4 304 13 HOH HOH . L 7 HOH B 5 305 98 HOH HOH . L 7 HOH B 6 306 82 HOH HOH . L 7 HOH B 7 307 119 HOH HOH . L 7 HOH B 8 308 175 HOH HOH . L 7 HOH B 9 309 174 HOH HOH . M 7 HOH C 1 101 8 HOH HOH . M 7 HOH C 2 102 37 HOH HOH . M 7 HOH C 3 103 149 HOH HOH . M 7 HOH C 4 104 17 HOH HOH . M 7 HOH C 5 105 23 HOH HOH . M 7 HOH C 6 106 47 HOH HOH . M 7 HOH C 7 107 150 HOH HOH . M 7 HOH C 8 108 114 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 . . . H 6 -46.256 9.665 -16.059 1 54.75 ? C1 GOL 202 B 1 HETATM 2 O O1 GOL . . . H 6 -45.528 10.17 -17.17 1 56.19 ? O1 GOL 202 B 1 HETATM 3 C C2 GOL . . . H 6 -47.752 9.821 -16.241 1 56.4 ? C2 GOL 202 B 1 HETATM 4 O O2 GOL . . . H 6 -48.231 10.989 -15.588 1 58 ? O2 GOL 202 B 1 HETATM 5 C C3 GOL . . . H 6 -48.563 8.624 -15.805 1 54.54 ? C3 GOL 202 B 1 HETATM 6 O O3 GOL . . . H 6 -48.515 8.461 -14.396 1 54.75 ? O3 GOL 202 B 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #