data_4K81 # _model_server_result.job_id 4HQyIBdlpOaAWLuK6JGBYg _model_server_result.datetime_utc '2024-11-02 16:25:05' _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 4k81 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":401}' # _entry.id 4K81 # _exptl.entry_id 4K81 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 9 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.75 _cell.angle_gamma 90 _cell.entry_id 4K81 _cell.length_a 79.727 _cell.length_b 115.593 _cell.length_c 103.107 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4K81 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 ? dimeric 2 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,K,L,M,N,O,Z,AA 1 1 C,D,P,Q,R,S,BA,CA 2 1 E,F,T,U,V,W,DA,EA 3 1 G,H,X,Y,FA,GA 4 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 I N N ? 3 J N N ? 3 K N N ? 3 L N N ? 3 M N N ? 3 P N N ? 3 Q N N ? 3 T N N ? 3 U 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 metalc ? metalc1 B OG SER 22 B SER 17 1_555 O MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc2 B OG1 THR 40 B THR 35 1_555 O MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc3 N O2B GTP . B GTP 202 1_555 O MG MG . B MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc4 O MG MG . B MG 203 1_555 AA O HOH . B HOH 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc5 D OG SER 22 D SER 17 1_555 S MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc6 D OG1 THR 40 D THR 35 1_555 S MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc7 R O2G GTP . D GTP 200 1_555 S MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc8 R O2B GTP . D GTP 200 1_555 S MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc9 S MG MG . D MG 201 1_555 CA O HOH . D HOH 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc10 F OG SER 22 F SER 17 1_555 W MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? metalc ? metalc11 F OG1 THR 40 F THR 35 1_555 W MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc12 F OD2 ASP 62 F ASP 57 1_555 W MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.981 ? metalc ? metalc13 V O2B GTP . F GTP 200 1_555 W MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc14 V O2G GTP . F GTP 200 1_555 W MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc15 W MG MG . F MG 201 1_555 EA O HOH . F HOH 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc16 H OG SER 22 H SER 17 1_555 Y MG MG . H MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc17 H OG1 THR 40 H THR 35 1_555 Y MG MG . H MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc18 X O2G GTP . H GTP 200 1_555 Y MG MG . H MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.911 ? metalc ? metalc19 X O2B GTP . H GTP 200 1_555 Y MG MG . H MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? metalc ? metalc20 Y MG MG . H MG 201 1_555 GA O HOH . H HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? # _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 4K81 _atom_sites.fract_transf_matrix[1][1] 0.012543 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001484 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008651 _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] 0.009766 _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 I 3 GOL A 1 401 400 GOL GOL . J 3 GOL A 1 402 401 GOL GOL . K 3 GOL A 1 403 403 GOL GOL . L 3 GOL A 1 404 404 GOL GOL . M 3 GOL B 1 201 402 GOL GOL . N 4 GTP B 1 202 200 GTP GTP . O 5 MG B 1 203 201 MG MG . P 3 GOL C 1 400 400 GOL GOL . Q 3 GOL C 1 401 401 GOL GOL . R 4 GTP D 1 200 200 GTP GTP . S 5 MG D 1 201 201 MG MG . T 3 GOL E 1 400 400 GOL GOL . U 3 GOL E 1 401 401 GOL GOL . V 4 GTP F 1 200 200 GTP GTP . W 5 MG F 1 201 201 MG MG . X 4 GTP H 1 200 200 GTP GTP . Y 5 MG H 1 201 201 MG MG . Z 6 HOH A 1 501 4 HOH HOH . Z 6 HOH A 2 502 5 HOH HOH . Z 6 HOH A 3 503 9 HOH HOH . Z 6 HOH A 4 504 10 HOH HOH . Z 6 HOH A 5 505 23 HOH HOH . Z 6 HOH A 6 506 27 HOH HOH . Z 6 HOH A 7 507 28 HOH HOH . Z 6 HOH A 8 508 30 HOH HOH . Z 6 HOH A 9 509 33 HOH HOH . Z 6 HOH A 10 510 41 HOH HOH . Z 6 HOH A 11 511 43 HOH HOH . Z 6 HOH A 12 512 49 HOH HOH . Z 6 HOH A 13 513 53 HOH HOH . Z 6 HOH A 14 514 56 HOH HOH . Z 6 HOH A 15 515 59 HOH HOH . Z 6 HOH A 16 516 65 HOH HOH . Z 6 HOH A 17 517 69 HOH HOH . Z 6 HOH A 18 518 83 HOH HOH . Z 6 HOH A 19 519 100 HOH HOH . Z 6 HOH A 20 520 106 HOH HOH . Z 6 HOH A 21 521 108 HOH HOH . Z 6 HOH A 22 522 118 HOH HOH . Z 6 HOH A 23 523 125 HOH HOH . Z 6 HOH A 24 524 163 HOH HOH . Z 6 HOH A 25 525 166 HOH HOH . Z 6 HOH A 26 526 168 HOH HOH . Z 6 HOH A 27 527 192 HOH HOH . Z 6 HOH A 28 528 194 HOH HOH . Z 6 HOH A 29 529 195 HOH HOH . Z 6 HOH A 30 530 197 HOH HOH . Z 6 HOH A 31 531 198 HOH HOH . Z 6 HOH A 32 532 208 HOH HOH . Z 6 HOH A 33 533 209 HOH HOH . Z 6 HOH A 34 534 227 HOH HOH . Z 6 HOH A 35 535 240 HOH HOH . Z 6 HOH A 36 536 241 HOH HOH . Z 6 HOH A 37 537 260 HOH HOH . Z 6 HOH A 38 538 264 HOH HOH . Z 6 HOH A 39 539 291 HOH HOH . Z 6 HOH A 40 540 311 HOH HOH . Z 6 HOH A 41 541 320 HOH HOH . Z 6 HOH A 42 542 329 HOH HOH . Z 6 HOH A 43 543 332 HOH HOH . Z 6 HOH A 44 544 337 HOH HOH . Z 6 HOH A 45 545 340 HOH HOH . Z 6 HOH A 46 546 348 HOH HOH . AA 6 HOH B 1 301 1 HOH HOH . AA 6 HOH B 2 302 6 HOH HOH . AA 6 HOH B 3 303 8 HOH HOH . AA 6 HOH B 4 304 12 HOH HOH . AA 6 HOH B 5 305 14 HOH HOH . AA 6 HOH B 6 306 18 HOH HOH . AA 6 HOH B 7 307 29 HOH HOH . AA 6 HOH B 8 308 52 HOH HOH . AA 6 HOH B 9 309 67 HOH HOH . AA 6 HOH B 10 310 70 HOH HOH . AA 6 HOH B 11 311 78 HOH HOH . AA 6 HOH B 12 312 97 HOH HOH . AA 6 HOH B 13 313 101 HOH HOH . AA 6 HOH B 14 314 139 HOH HOH . AA 6 HOH B 15 315 167 HOH HOH . AA 6 HOH B 16 316 180 HOH HOH . AA 6 HOH B 17 317 181 HOH HOH . AA 6 HOH B 18 318 212 HOH HOH . AA 6 HOH B 19 319 246 HOH HOH . AA 6 HOH B 20 320 271 HOH HOH . AA 6 HOH B 21 321 300 HOH HOH . AA 6 HOH B 22 322 301 HOH HOH . AA 6 HOH B 23 323 305 HOH HOH . AA 6 HOH B 24 324 324 HOH HOH . BA 6 HOH C 1 501 3 HOH HOH . BA 6 HOH C 2 502 24 HOH HOH . BA 6 HOH C 3 503 31 HOH HOH . BA 6 HOH C 4 504 45 HOH HOH . BA 6 HOH C 5 505 64 HOH HOH . BA 6 HOH C 6 506 77 HOH HOH . BA 6 HOH C 7 507 84 HOH HOH . BA 6 HOH C 8 508 95 HOH HOH . BA 6 HOH C 9 509 120 HOH HOH . BA 6 HOH C 10 510 132 HOH HOH . BA 6 HOH C 11 511 143 HOH HOH . BA 6 HOH C 12 512 161 HOH HOH . BA 6 HOH C 13 513 162 HOH HOH . BA 6 HOH C 14 514 175 HOH HOH . BA 6 HOH C 15 515 178 HOH HOH . BA 6 HOH C 16 516 188 HOH HOH . BA 6 HOH C 17 517 193 HOH HOH . BA 6 HOH C 18 518 217 HOH HOH . BA 6 HOH C 19 519 222 HOH HOH . BA 6 HOH C 20 520 230 HOH HOH . BA 6 HOH C 21 521 236 HOH HOH . BA 6 HOH C 22 522 237 HOH HOH . BA 6 HOH C 23 523 247 HOH HOH . BA 6 HOH C 24 524 308 HOH HOH . BA 6 HOH C 25 525 318 HOH HOH . CA 6 HOH D 1 301 2 HOH HOH . CA 6 HOH D 2 302 11 HOH HOH . CA 6 HOH D 3 303 19 HOH HOH . CA 6 HOH D 4 304 89 HOH HOH . CA 6 HOH D 5 305 111 HOH HOH . CA 6 HOH D 6 306 112 HOH HOH . CA 6 HOH D 7 307 116 HOH HOH . CA 6 HOH D 8 308 124 HOH HOH . CA 6 HOH D 9 309 135 HOH HOH . CA 6 HOH D 10 310 140 HOH HOH . CA 6 HOH D 11 311 157 HOH HOH . CA 6 HOH D 12 312 164 HOH HOH . CA 6 HOH D 13 313 172 HOH HOH . CA 6 HOH D 14 314 176 HOH HOH . CA 6 HOH D 15 315 206 HOH HOH . CA 6 HOH D 16 316 210 HOH HOH . CA 6 HOH D 17 317 275 HOH HOH . CA 6 HOH D 18 318 279 HOH HOH . CA 6 HOH D 19 319 281 HOH HOH . CA 6 HOH D 20 320 287 HOH HOH . CA 6 HOH D 21 321 319 HOH HOH . DA 6 HOH E 1 501 7 HOH HOH . DA 6 HOH E 2 502 15 HOH HOH . DA 6 HOH E 3 503 17 HOH HOH . DA 6 HOH E 4 504 21 HOH HOH . DA 6 HOH E 5 505 25 HOH HOH . DA 6 HOH E 6 506 37 HOH HOH . DA 6 HOH E 7 507 38 HOH HOH . DA 6 HOH E 8 508 61 HOH HOH . DA 6 HOH E 9 509 66 HOH HOH . DA 6 HOH E 10 510 68 HOH HOH . DA 6 HOH E 11 511 80 HOH HOH . DA 6 HOH E 12 512 81 HOH HOH . DA 6 HOH E 13 513 91 HOH HOH . DA 6 HOH E 14 514 92 HOH HOH . DA 6 HOH E 15 515 105 HOH HOH . DA 6 HOH E 16 516 110 HOH HOH . DA 6 HOH E 17 517 113 HOH HOH . DA 6 HOH E 18 518 119 HOH HOH . DA 6 HOH E 19 519 121 HOH HOH . DA 6 HOH E 20 520 145 HOH HOH . DA 6 HOH E 21 521 160 HOH HOH . DA 6 HOH E 22 522 184 HOH HOH . DA 6 HOH E 23 523 200 HOH HOH . DA 6 HOH E 24 524 204 HOH HOH . DA 6 HOH E 25 525 205 HOH HOH . DA 6 HOH E 26 526 213 HOH HOH . DA 6 HOH E 27 527 255 HOH HOH . DA 6 HOH E 28 528 257 HOH HOH . DA 6 HOH E 29 529 261 HOH HOH . DA 6 HOH E 30 530 282 HOH HOH . DA 6 HOH E 31 531 290 HOH HOH . DA 6 HOH E 32 532 298 HOH HOH . DA 6 HOH E 33 533 342 HOH HOH . EA 6 HOH F 1 301 34 HOH HOH . EA 6 HOH F 2 302 35 HOH HOH . EA 6 HOH F 3 303 39 HOH HOH . EA 6 HOH F 4 304 50 HOH HOH . EA 6 HOH F 5 305 57 HOH HOH . EA 6 HOH F 6 306 75 HOH HOH . EA 6 HOH F 7 307 82 HOH HOH . EA 6 HOH F 8 308 85 HOH HOH . EA 6 HOH F 9 309 170 HOH HOH . EA 6 HOH F 10 310 179 HOH HOH . EA 6 HOH F 11 311 214 HOH HOH . EA 6 HOH F 12 312 219 HOH HOH . EA 6 HOH F 13 313 239 HOH HOH . EA 6 HOH F 14 314 278 HOH HOH . EA 6 HOH F 15 315 284 HOH HOH . EA 6 HOH F 16 316 321 HOH HOH . FA 6 HOH G 1 401 42 HOH HOH . FA 6 HOH G 2 402 46 HOH HOH . FA 6 HOH G 3 403 62 HOH HOH . FA 6 HOH G 4 404 123 HOH HOH . FA 6 HOH G 5 405 153 HOH HOH . FA 6 HOH G 6 406 165 HOH HOH . FA 6 HOH G 7 407 189 HOH HOH . FA 6 HOH G 8 408 201 HOH HOH . FA 6 HOH G 9 409 215 HOH HOH . FA 6 HOH G 10 410 233 HOH HOH . GA 6 HOH H 1 301 13 HOH HOH . GA 6 HOH H 2 302 138 HOH HOH . GA 6 HOH H 3 303 159 HOH HOH . GA 6 HOH H 4 304 183 HOH HOH . GA 6 HOH H 5 305 191 HOH HOH . GA 6 HOH H 6 306 225 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 . . . Q 3 -3.229 4.652 -45.323 1 43.88 ? C1 GOL 401 C 1 HETATM 2 O O1 GOL . . . Q 3 -4.561 4.567 -44.803 1 44.89 ? O1 GOL 401 C 1 HETATM 3 C C2 GOL . . . Q 3 -2.636 3.265 -45.217 1 43.19 ? C2 GOL 401 C 1 HETATM 4 O O2 GOL . . . Q 3 -1.924 3.084 -43.982 1 44.04 ? O2 GOL 401 C 1 HETATM 5 C C3 GOL . . . Q 3 -1.711 3.001 -46.385 1 42.9 ? C3 GOL 401 C 1 HETATM 6 O O3 GOL . . . Q 3 -1.159 1.689 -46.244 1 40.79 ? O3 GOL 401 C 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #