data_3SY8 # _model_server_result.job_id qlDEy8Y-6C68_Pq8RYmRXg _model_server_result.datetime_utc '2024-10-25 20:33:56' _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 3sy8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 3SY8 # _exptl.entry_id 3SY8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 4 _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 120 _cell.entry_id 3SY8 _cell.length_a 118.795 _cell.length_b 118.795 _cell.length_c 495.1 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SY8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA octameric 8 software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M 1 1,2 A,B,C,D,E,F,G,H,I,J,K,L,M 2 1 # 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' 12_555 x,x-y,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 82.516667 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 F N N ? 2 G N N ? 2 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 metalc ? metalc1 A OE2 GLU 175 A GLU 175 1_555 E MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc2 A OD1 ASN 233 A ASN 233 1_555 E MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc3 A OE1 GLU 265 A GLU 265 1_555 E MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc4 A OD2 ASP 295 A ASP 295 1_555 E MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc5 B OE2 GLU 175 B GLU 175 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc6 B OD1 ASN 233 B ASN 233 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc7 B OE1 GLU 265 B GLU 265 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc8 B OD2 ASP 295 B ASP 295 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? metalc ? metalc9 C OE2 GLU 175 C GLU 175 1_555 G MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc10 C OD1 ASN 233 C ASN 233 1_555 G MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc11 C OE1 GLU 265 C GLU 265 1_555 G MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? metalc ? metalc12 C OD2 ASP 295 C ASP 295 1_555 G MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc13 G MG MG . C MG 401 1_555 L O HOH . C HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc14 D OE2 GLU 175 D GLU 175 1_555 H MG MG . D MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc15 D OD1 ASN 233 D ASN 233 1_555 H MG MG . D MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc16 D OE1 GLU 265 D GLU 265 1_555 H MG MG . D MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc17 D OD2 ASP 295 D ASP 295 1_555 H MG MG . D MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc18 H MG MG . D MG 401 1_555 I O8 EPE . D EPE 3380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.838 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3SY8 _atom_sites.fract_transf_matrix[1][1] 0.008418 _atom_sites.fract_transf_matrix[1][2] 0.00486 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00972 _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] 0.00202 _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 2 MG A 1 401 1 MG MG . F 2 MG B 1 401 1 MG MG . G 2 MG C 1 401 1 MG MG . H 2 MG D 1 401 1 MG MG . I 3 EPE D 1 3380 3380 EPE EPE . J 4 HOH A 1 402 10 HOH HOH . J 4 HOH A 2 403 403 HOH HOH . J 4 HOH A 3 404 56 HOH HOH . J 4 HOH A 4 405 81 HOH HOH . J 4 HOH A 5 406 85 HOH HOH . J 4 HOH A 6 407 123 HOH HOH . J 4 HOH A 7 408 126 HOH HOH . J 4 HOH A 8 409 140 HOH HOH . J 4 HOH A 9 410 161 HOH HOH . J 4 HOH A 10 411 175 HOH HOH . J 4 HOH A 11 412 185 HOH HOH . J 4 HOH A 12 413 186 HOH HOH . J 4 HOH A 13 414 196 HOH HOH . J 4 HOH A 14 415 201 HOH HOH . J 4 HOH A 15 416 209 HOH HOH . J 4 HOH A 16 417 225 HOH HOH . J 4 HOH A 17 418 239 HOH HOH . J 4 HOH A 18 419 240 HOH HOH . J 4 HOH A 19 420 255 HOH HOH . J 4 HOH A 20 421 260 HOH HOH . J 4 HOH A 21 422 266 HOH HOH . J 4 HOH A 22 423 292 HOH HOH . J 4 HOH A 23 424 363 HOH HOH . J 4 HOH A 24 425 391 HOH HOH . J 4 HOH A 25 447 447 HOH HOH . J 4 HOH A 26 450 450 HOH HOH . J 4 HOH A 27 451 451 HOH HOH . J 4 HOH A 28 452 452 HOH HOH . J 4 HOH A 29 458 458 HOH HOH . J 4 HOH A 30 459 459 HOH HOH . J 4 HOH A 31 460 460 HOH HOH . J 4 HOH A 32 461 461 HOH HOH . J 4 HOH A 33 462 462 HOH HOH . J 4 HOH A 34 463 463 HOH HOH . J 4 HOH A 35 468 468 HOH HOH . K 4 HOH B 1 402 11 HOH HOH . K 4 HOH B 2 403 16 HOH HOH . K 4 HOH B 3 404 18 HOH HOH . K 4 HOH B 4 405 22 HOH HOH . K 4 HOH B 5 406 40 HOH HOH . K 4 HOH B 6 407 48 HOH HOH . K 4 HOH B 7 408 61 HOH HOH . K 4 HOH B 8 409 72 HOH HOH . K 4 HOH B 9 410 82 HOH HOH . K 4 HOH B 10 411 95 HOH HOH . K 4 HOH B 11 412 97 HOH HOH . K 4 HOH B 12 413 104 HOH HOH . K 4 HOH B 13 414 111 HOH HOH . K 4 HOH B 14 415 121 HOH HOH . K 4 HOH B 15 416 142 HOH HOH . K 4 HOH B 16 417 146 HOH HOH . K 4 HOH B 17 418 150 HOH HOH . K 4 HOH B 18 419 156 HOH HOH . K 4 HOH B 19 420 163 HOH HOH . K 4 HOH B 20 421 166 HOH HOH . K 4 HOH B 21 422 170 HOH HOH . K 4 HOH B 22 423 171 HOH HOH . K 4 HOH B 23 424 181 HOH HOH . K 4 HOH B 24 425 184 HOH HOH . K 4 HOH B 25 426 193 HOH HOH . K 4 HOH B 26 427 197 HOH HOH . K 4 HOH B 27 428 207 HOH HOH . K 4 HOH B 28 429 211 HOH HOH . K 4 HOH B 29 430 212 HOH HOH . K 4 HOH B 30 431 213 HOH HOH . K 4 HOH B 31 432 215 HOH HOH . K 4 HOH B 32 433 223 HOH HOH . K 4 HOH B 33 434 241 HOH HOH . K 4 HOH B 34 435 243 HOH HOH . K 4 HOH B 35 436 259 HOH HOH . K 4 HOH B 36 437 291 HOH HOH . K 4 HOH B 37 438 357 HOH HOH . K 4 HOH B 38 448 448 HOH HOH . K 4 HOH B 39 455 455 HOH HOH . K 4 HOH B 40 457 457 HOH HOH . K 4 HOH B 41 464 464 HOH HOH . K 4 HOH B 42 465 465 HOH HOH . K 4 HOH B 43 466 466 HOH HOH . K 4 HOH B 44 469 469 HOH HOH . K 4 HOH B 45 470 470 HOH HOH . K 4 HOH B 46 472 472 HOH HOH . K 4 HOH B 47 473 473 HOH HOH . K 4 HOH B 48 474 474 HOH HOH . K 4 HOH B 49 475 475 HOH HOH . K 4 HOH B 50 476 476 HOH HOH . K 4 HOH B 51 477 477 HOH HOH . K 4 HOH B 52 478 478 HOH HOH . K 4 HOH B 53 479 479 HOH HOH . L 4 HOH C 1 402 6 HOH HOH . L 4 HOH C 2 403 9 HOH HOH . L 4 HOH C 3 404 20 HOH HOH . L 4 HOH C 4 405 31 HOH HOH . L 4 HOH C 5 406 45 HOH HOH . L 4 HOH C 6 407 88 HOH HOH . L 4 HOH C 7 408 92 HOH HOH . L 4 HOH C 8 409 148 HOH HOH . L 4 HOH C 9 410 165 HOH HOH . L 4 HOH C 10 411 178 HOH HOH . L 4 HOH C 11 412 194 HOH HOH . L 4 HOH C 12 413 198 HOH HOH . L 4 HOH C 13 414 199 HOH HOH . L 4 HOH C 14 415 204 HOH HOH . L 4 HOH C 15 416 205 HOH HOH . L 4 HOH C 16 417 210 HOH HOH . L 4 HOH C 17 418 214 HOH HOH . L 4 HOH C 18 419 234 HOH HOH . L 4 HOH C 19 420 236 HOH HOH . L 4 HOH C 20 421 247 HOH HOH . L 4 HOH C 21 422 286 HOH HOH . L 4 HOH C 22 423 311 HOH HOH . L 4 HOH C 23 424 347 HOH HOH . L 4 HOH C 24 425 350 HOH HOH . L 4 HOH C 25 426 362 HOH HOH . L 4 HOH C 26 481 481 HOH HOH . L 4 HOH C 27 482 482 HOH HOH . L 4 HOH C 28 483 483 HOH HOH . L 4 HOH C 29 484 484 HOH HOH . L 4 HOH C 30 485 485 HOH HOH . L 4 HOH C 31 486 486 HOH HOH . L 4 HOH C 32 487 487 HOH HOH . L 4 HOH C 33 488 488 HOH HOH . M 4 HOH D 1 402 2 HOH HOH . M 4 HOH D 2 403 3 HOH HOH . M 4 HOH D 3 404 17 HOH HOH . M 4 HOH D 4 405 27 HOH HOH . M 4 HOH D 5 406 29 HOH HOH . M 4 HOH D 6 407 36 HOH HOH . M 4 HOH D 7 408 37 HOH HOH . M 4 HOH D 8 409 44 HOH HOH . M 4 HOH D 9 410 53 HOH HOH . M 4 HOH D 10 411 59 HOH HOH . M 4 HOH D 11 412 63 HOH HOH . M 4 HOH D 12 413 64 HOH HOH . M 4 HOH D 13 414 75 HOH HOH . M 4 HOH D 14 415 79 HOH HOH . M 4 HOH D 15 416 83 HOH HOH . M 4 HOH D 16 417 114 HOH HOH . M 4 HOH D 17 418 136 HOH HOH . M 4 HOH D 18 419 137 HOH HOH . M 4 HOH D 19 420 138 HOH HOH . M 4 HOH D 20 421 149 HOH HOH . M 4 HOH D 21 422 176 HOH HOH . M 4 HOH D 22 423 192 HOH HOH . M 4 HOH D 23 424 200 HOH HOH . M 4 HOH D 24 425 425 HOH HOH . M 4 HOH D 25 426 426 HOH HOH . M 4 HOH D 26 427 206 HOH HOH . M 4 HOH D 27 428 218 HOH HOH . M 4 HOH D 28 429 228 HOH HOH . M 4 HOH D 29 430 231 HOH HOH . M 4 HOH D 30 431 237 HOH HOH . M 4 HOH D 31 432 242 HOH HOH . M 4 HOH D 32 433 290 HOH HOH . M 4 HOH D 33 434 315 HOH HOH . M 4 HOH D 34 435 323 HOH HOH . M 4 HOH D 35 449 449 HOH HOH . M 4 HOH D 36 453 453 HOH HOH . M 4 HOH D 37 454 454 HOH HOH . M 4 HOH D 38 456 456 HOH HOH . M 4 HOH D 39 471 471 HOH HOH . M 4 HOH D 40 480 480 HOH HOH . M 4 HOH D 41 489 489 HOH HOH . M 4 HOH D 42 490 490 HOH HOH . M 4 HOH D 43 491 491 HOH HOH . M 4 HOH D 44 492 492 HOH HOH . M 4 HOH D 45 493 493 HOH HOH . M 4 HOH D 46 494 494 HOH HOH . M 4 HOH D 47 495 495 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 2 _atom_site.Cartn_x 56.766 _atom_site.Cartn_y 54.426 _atom_site.Cartn_z -22.211 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 49.36 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 401 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 158 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #