data_6DP3 # _model_server_result.job_id HBf3AALscjx88xO5ZX1V5g _model_server_result.datetime_utc '2024-11-16 23:43:06' _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 6dp3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":216}' # _entry.id 6DP3 # _exptl.entry_id 6DP3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.04 _cell.angle_gamma 90 _cell.entry_id 6DP3 _cell.length_a 81.53 _cell.length_b 38.108 _cell.length_c 61.723 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DP3 _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA _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 ? 9 P N N ? 9 Q N N ? 9 R N N ? 9 S N N ? 9 T N N ? 9 Z 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 covale ? covale1 Q C1 EDO . A EDO 213 1_555 V O3 GOL . A GOL 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale2 B O3' U 4 B U 4 1_555 C P C 1 b C 5 1_555 ? C ? ? C ? ? ? ? ? ? ? 1.59 sing covale ? covale3 Z O2 EDO . C EDO 102 1_555 AA C1 GOL . C GOL 103 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.375 ? metalc ? metalc1 A OD2 ASP 17 A ASP 71 1_555 E MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc2 A OD1 ASP 17 A ASP 71 1_555 F MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? metalc ? metalc3 A OE1 GLU 55 A GLU 109 1_555 F MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc4 A OD1 ASP 78 A ASP 132 1_555 F MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc5 A OD2 ASP 78 A ASP 132 1_555 F MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc6 A OE1 GLU 134 A GLU 188 1_555 H K K . A K 204 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.829 ? metalc ? metalc7 A OE2 GLU 134 A GLU 188 1_555 H K K . A K 204 1_555 ? ? ? ? B ? ? ? ? ? ? ? 3.274 ? metalc ? metalc8 A OD1 ASP 138 A ASP 192 1_555 E MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc9 A OD1 ASP 138 A ASP 192 1_555 G K K . A K 203 1_555 ? ? ? ? C ? ? ? ? ? ? ? 2.803 ? metalc ? metalc10 A OD2 ASP 138 A ASP 192 1_555 G K K . A K 203 1_555 ? ? ? ? C ? ? ? ? ? ? ? 3.342 ? metalc ? metalc11 E MG MG . A MG 201 1_555 BA O HOH . A HOH 302 1_555 ? ? ? ? C ? ? ? ? ? ? ? 2.024 ? metalc ? metalc12 E MG MG . A MG 201 1_555 BA O HOH . A HOH 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc13 E MG MG . A MG 201 1_555 BA O HOH . A HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc14 E MG MG . A MG 201 1_555 C OP3 C 1 b C 5 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.021 ? metalc ? metalc15 E MG MG . A MG 201 1_555 C OP1 C 1 b C 5 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.438 ? metalc ? metalc16 E MG MG . A MG 201 1_555 C OP1 C 1 b C 5 1_555 ? ? ? ? C ? ? ? ? ? ? ? 2.259 ? metalc ? metalc17 F MG MG . A MG 202 1_555 B O3' U 4 B U 4 1_555 ? ? ? ? C ? ? ? ? ? ? ? 2.621 ? metalc ? metalc18 F MG MG . A MG 202 1_555 C OP1 C 1 b C 5 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.108 ? metalc ? metalc19 F MG MG . A MG 202 1_555 C OP1 C 1 b C 5 1_555 ? ? ? ? C ? ? ? ? ? ? ? 2.15 ? metalc ? metalc20 G K K . A K 203 1_555 BA O HOH . A HOH 302 1_555 ? C ? ? C ? ? ? ? ? ? ? 3.082 ? metalc ? metalc21 G K K . A K 203 1_555 BA O HOH . A HOH 317 1_555 ? C ? ? ? ? ? ? ? ? ? ? 3.26 ? metalc ? metalc22 G K K . A K 203 1_555 BA O HOH . A HOH 325 1_555 ? C ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc23 G K K . A K 203 1_555 C OP2 G 2 b G 6 1_555 ? C ? ? ? ? ? ? ? ? ? ? 2.856 ? metalc ? metalc24 H K K . A K 204 1_555 BA O HOH . A HOH 307 1_555 ? B ? ? ? ? ? ? ? ? ? ? 3.242 ? metalc ? metalc25 H K K . A K 204 1_555 C OP2 C 1 b C 5 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.544 ? metalc ? metalc26 D O6 DG 5 C DG 5 1_555 Y K K . C K 101 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.554 ? metalc ? metalc27 Y K K . C K 101 1_555 EA O HOH . C HOH 203 1_555 ? B ? ? B ? ? ? ? ? ? ? 3.419 ? metalc ? metalc28 Y K K . C K 101 1_555 EA O HOH . C HOH 207 1_555 ? B ? ? B ? ? ? ? ? ? ? 3.023 ? hydrog WATSON-CRICK hydrog1 B N1 A 1 B A 1 1_555 D N3 DT 6 C DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N6 A 1 B A 1 1_555 D O4 DT 6 C DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B N3 C 2 B C 2 1_555 D N1 DG 5 C DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N4 C 2 B C 2 1_555 D O6 DG 5 C DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B O2 C 2 B C 2 1_555 D N2 DG 5 C DG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N1 A 3 B A 3 1_555 D N3 DT 4 C DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N6 A 3 B A 3 1_555 D O4 DT 4 C DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N3 U 4 B U 4 1_555 D N1 DA 3 C DA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O4 U 4 B U 4 1_555 D N6 DA 3 C DA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 C N3 C 1 b C 5 1_555 D N1 DG 2 C DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 C N4 C 1 b C 5 1_555 D O6 DG 2 C DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 C O2 C 1 b C 5 1_555 D N2 DG 2 C DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 C N1 G 2 b G 6 1_555 D N3 DC 1 C DC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 C N2 G 2 b G 6 1_555 D O2 DC 1 C DC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 C O6 G 2 b G 6 1_555 D N4 DC 1 C DC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # 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 EDO sing 294 n n C1 C2 EDO sing 295 n n C1 H11 EDO sing 296 n n C1 H12 EDO sing 297 n n O1 HO1 EDO sing 298 n n C2 O2 EDO sing 299 n n C2 H21 EDO sing 300 n n C2 H22 EDO sing 301 n n O2 HO2 EDO sing 302 n n # _atom_sites.entry_id 6DP3 _atom_sites.fract_transf_matrix[1][1] 0.012265 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001298 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.026241 _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] 0.016292 _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 5 MG A 1 201 201 MG MG . F 5 MG A 1 202 202 MG MG . G 6 K A 1 203 211 K K . H 6 K A 1 204 212 K K . I 7 IOD A 1 205 2 IOD IOD . J 7 IOD A 1 206 3 IOD IOD . K 7 IOD A 1 207 4 IOD IOD . L 8 GOL A 1 208 5 GOL GOL . M 8 GOL A 1 209 10 GOL GOL . N 8 GOL A 1 210 11 GOL GOL . O 8 GOL A 1 211 12 GOL GOL . P 9 EDO A 1 212 1 EDO EDO . Q 9 EDO A 1 213 3 EDO EDO . R 9 EDO A 1 214 4 EDO EDO . S 9 EDO A 1 215 5 EDO EDO . T 9 EDO A 1 216 6 EDO EDO . U 8 GOL A 1 217 1 GOL GOL . V 8 GOL A 1 218 2 GOL GOL . W 8 GOL A 1 219 4 GOL GOL . X 8 GOL A 1 220 5 GOL GOL . Y 6 K C 1 101 213 K K . Z 9 EDO C 1 102 7 EDO EDO . AA 8 GOL C 1 103 3 GOL GOL . BA 10 HOH A 1 301 205 HOH HOH . BA 10 HOH A 2 302 88 HOH HOH . BA 10 HOH A 3 303 204 HOH HOH . BA 10 HOH A 4 304 195 HOH HOH . BA 10 HOH A 5 305 188 HOH HOH . BA 10 HOH A 6 306 66 HOH HOH . BA 10 HOH A 7 307 64 HOH HOH . BA 10 HOH A 8 308 131 HOH HOH . BA 10 HOH A 9 309 85 HOH HOH . BA 10 HOH A 10 310 58 HOH HOH . BA 10 HOH A 11 311 116 HOH HOH . BA 10 HOH A 12 312 105 HOH HOH . BA 10 HOH A 13 313 34 HOH HOH . BA 10 HOH A 14 314 15 HOH HOH . BA 10 HOH A 15 315 127 HOH HOH . BA 10 HOH A 16 316 35 HOH HOH . BA 10 HOH A 17 317 36 HOH HOH . BA 10 HOH A 18 318 20 HOH HOH . BA 10 HOH A 19 319 43 HOH HOH . BA 10 HOH A 20 320 59 HOH HOH . BA 10 HOH A 21 321 207 HOH HOH . BA 10 HOH A 22 322 40 HOH HOH . BA 10 HOH A 23 323 38 HOH HOH . BA 10 HOH A 24 324 60 HOH HOH . BA 10 HOH A 25 325 117 HOH HOH . BA 10 HOH A 26 326 200 HOH HOH . BA 10 HOH A 27 327 51 HOH HOH . BA 10 HOH A 28 328 114 HOH HOH . BA 10 HOH A 29 329 199 HOH HOH . BA 10 HOH A 30 330 1 HOH HOH . BA 10 HOH A 31 331 94 HOH HOH . BA 10 HOH A 32 332 173 HOH HOH . BA 10 HOH A 33 333 82 HOH HOH . BA 10 HOH A 34 334 95 HOH HOH . BA 10 HOH A 35 335 52 HOH HOH . BA 10 HOH A 36 336 53 HOH HOH . BA 10 HOH A 37 337 61 HOH HOH . BA 10 HOH A 38 338 19 HOH HOH . BA 10 HOH A 39 339 10 HOH HOH . BA 10 HOH A 40 340 55 HOH HOH . BA 10 HOH A 41 341 75 HOH HOH . BA 10 HOH A 42 342 193 HOH HOH . BA 10 HOH A 43 343 32 HOH HOH . BA 10 HOH A 44 344 21 HOH HOH . BA 10 HOH A 45 345 177 HOH HOH . BA 10 HOH A 46 346 185 HOH HOH . BA 10 HOH A 47 347 181 HOH HOH . BA 10 HOH A 48 348 180 HOH HOH . BA 10 HOH A 49 349 31 HOH HOH . BA 10 HOH A 50 350 50 HOH HOH . BA 10 HOH A 51 351 92 HOH HOH . BA 10 HOH A 52 352 13 HOH HOH . BA 10 HOH A 53 353 72 HOH HOH . BA 10 HOH A 54 354 142 HOH HOH . BA 10 HOH A 55 355 149 HOH HOH . BA 10 HOH A 56 356 8 HOH HOH . BA 10 HOH A 57 357 202 HOH HOH . BA 10 HOH A 58 358 45 HOH HOH . BA 10 HOH A 59 359 141 HOH HOH . BA 10 HOH A 60 360 81 HOH HOH . BA 10 HOH A 61 361 57 HOH HOH . BA 10 HOH A 62 362 17 HOH HOH . BA 10 HOH A 63 363 37 HOH HOH . BA 10 HOH A 64 364 93 HOH HOH . BA 10 HOH A 65 365 14 HOH HOH . BA 10 HOH A 66 366 179 HOH HOH . BA 10 HOH A 67 367 48 HOH HOH . BA 10 HOH A 68 368 7 HOH HOH . BA 10 HOH A 69 369 206 HOH HOH . BA 10 HOH A 70 370 9 HOH HOH . BA 10 HOH A 71 371 96 HOH HOH . BA 10 HOH A 72 372 146 HOH HOH . BA 10 HOH A 73 373 2 HOH HOH . BA 10 HOH A 74 374 91 HOH HOH . BA 10 HOH A 75 375 133 HOH HOH . BA 10 HOH A 76 376 197 HOH HOH . BA 10 HOH A 77 377 198 HOH HOH . BA 10 HOH A 78 378 24 HOH HOH . BA 10 HOH A 79 379 74 HOH HOH . BA 10 HOH A 80 380 90 HOH HOH . BA 10 HOH A 81 381 121 HOH HOH . BA 10 HOH A 82 382 125 HOH HOH . BA 10 HOH A 83 383 77 HOH HOH . BA 10 HOH A 84 384 76 HOH HOH . BA 10 HOH A 85 385 143 HOH HOH . BA 10 HOH A 86 386 196 HOH HOH . CA 10 HOH B 1 101 194 HOH HOH . CA 10 HOH B 2 102 201 HOH HOH . CA 10 HOH B 3 103 16 HOH HOH . CA 10 HOH B 4 104 190 HOH HOH . CA 10 HOH B 5 105 69 HOH HOH . CA 10 HOH B 6 106 169 HOH HOH . CA 10 HOH B 7 107 110 HOH HOH . DA 10 HOH b 1 101 119 HOH HOH . DA 10 HOH b 2 102 104 HOH HOH . DA 10 HOH b 3 103 112 HOH HOH . DA 10 HOH b 4 104 100 HOH HOH . EA 10 HOH C 1 201 18 HOH HOH . EA 10 HOH C 2 202 171 HOH HOH . EA 10 HOH C 3 203 109 HOH HOH . EA 10 HOH C 4 204 191 HOH HOH . EA 10 HOH C 5 205 186 HOH HOH . EA 10 HOH C 6 206 172 HOH HOH . EA 10 HOH C 7 207 12 HOH HOH . EA 10 HOH C 8 208 168 HOH HOH . EA 10 HOH C 9 209 203 HOH HOH . EA 10 HOH C 10 210 136 HOH HOH . EA 10 HOH C 11 211 73 HOH HOH . EA 10 HOH C 12 212 187 HOH HOH . EA 10 HOH C 13 213 170 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 EDO . . . T 9 3.673 2.43 9.116 1 81.93 ? C1 EDO 216 A 1 HETATM 2 O O1 EDO . . . T 9 5.051 2.043 9.122 1 94.96 ? O1 EDO 216 A 1 HETATM 3 C C2 EDO . . . T 9 3.099 2.281 10.519 1 90.37 ? C2 EDO 216 A 1 HETATM 4 O O2 EDO . . . T 9 1.765 2.798 10.546 1 100.47 ? O2 EDO 216 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 50 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 4 #