data_2G79 # _model_server_result.job_id TMnZfn3mNJ-XTVDuxGRCgA _model_server_result.datetime_utc '2024-11-22 00:14:19' _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 2g79 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":200}' # _entry.id 2G79 # _exptl.entry_id 2G79 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RETINAL _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 90 _cell.angle_gamma 90 _cell.entry_id 2G79 _cell.length_a 45.493 _cell.length_b 46.325 _cell.length_c 73.597 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2G79 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id G _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 metalc ? metalc1 B NA NA . A NA 300 1_555 H O HOH . A HOH 546 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc2 B NA NA . A NA 300 1_555 H O HOH . A HOH 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? metalc ? metalc3 C NA NA . A NA 301 1_555 H O HOH . A HOH 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc4 C NA NA . A NA 301 1_555 H O HOH . A HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc5 D NA NA . A NA 302 1_555 H O HOH . A HOH 543 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc6 D NA NA . A NA 302 1_555 H O HOH . A HOH 543 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.966 ? metalc ? metalc7 D NA NA . A NA 302 1_555 H O HOH . A HOH 544 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.33 ? # _chem_comp.formula 'C20 H28 O' _chem_comp.formula_weight 284.436 _chem_comp.id RET _chem_comp.mon_nstd_flag . _chem_comp.name RETINAL _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 C1 C2 RET sing 256 n n C1 C6 RET sing 257 n n C1 C16 RET sing 258 n n C1 C17 RET sing 259 n n C2 C3 RET sing 260 n n C2 H21 RET sing 261 n n C2 H22 RET sing 262 n n C3 C4 RET sing 263 n n C3 H31 RET sing 264 n n C3 H32 RET sing 265 n n C4 C5 RET sing 266 n n C4 H41 RET sing 267 n n C4 H42 RET sing 268 n n C5 C6 RET doub 269 n n C5 C18 RET sing 270 n n C6 C7 RET sing 271 n n C7 C8 RET doub 272 e n C7 H7 RET sing 273 n n C8 C9 RET sing 274 n n C8 H8 RET sing 275 n n C9 C10 RET doub 276 e n C9 C19 RET sing 277 n n C10 C11 RET sing 278 n n C10 H10 RET sing 279 n n C11 C12 RET doub 280 e n C11 H11 RET sing 281 n n C12 C13 RET sing 282 n n C12 H12 RET sing 283 n n C13 C14 RET doub 284 e n C13 C20 RET sing 285 n n C14 C15 RET sing 286 n n C14 H14 RET sing 287 n n C15 O1 RET doub 288 n n C15 H15 RET sing 289 n n C16 H161 RET sing 290 n n C16 H162 RET sing 291 n n C16 H163 RET sing 292 n n C17 H171 RET sing 293 n n C17 H172 RET sing 294 n n C17 H173 RET sing 295 n n C18 H181 RET sing 296 n n C18 H182 RET sing 297 n n C18 H183 RET sing 298 n n C19 H191 RET sing 299 n n C19 H192 RET sing 300 n n C19 H193 RET sing 301 n n C20 H201 RET sing 302 n n C20 H202 RET sing 303 n n C20 H203 RET sing 304 n n # _atom_sites.entry_id 2G79 _atom_sites.fract_transf_matrix[1][1] 0.02198 _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] 0.02159 _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] 0.01359 _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 NA A 1 300 300 NA NA . C 2 NA A 1 301 301 NA NA . D 2 NA A 1 302 302 NA NA . E 3 SO4 A 1 400 400 SO4 SO4 . F 3 SO4 A 1 401 401 SO4 SO4 . G 4 RET A 1 200 200 RET RET . H 5 HOH A 1 402 1 HOH HOH . H 5 HOH A 2 403 2 HOH HOH . H 5 HOH A 3 404 3 HOH HOH . H 5 HOH A 4 405 4 HOH HOH . H 5 HOH A 5 406 5 HOH HOH . H 5 HOH A 6 407 6 HOH HOH . H 5 HOH A 7 408 7 HOH HOH . H 5 HOH A 8 409 8 HOH HOH . H 5 HOH A 9 410 9 HOH HOH . H 5 HOH A 10 411 10 HOH HOH . H 5 HOH A 11 412 11 HOH HOH . H 5 HOH A 12 413 12 HOH HOH . H 5 HOH A 13 414 13 HOH HOH . H 5 HOH A 14 415 14 HOH HOH . H 5 HOH A 15 416 15 HOH HOH . H 5 HOH A 16 417 16 HOH HOH . H 5 HOH A 17 418 17 HOH HOH . H 5 HOH A 18 419 18 HOH HOH . H 5 HOH A 19 420 19 HOH HOH . H 5 HOH A 20 421 20 HOH HOH . H 5 HOH A 21 422 21 HOH HOH . H 5 HOH A 22 423 22 HOH HOH . H 5 HOH A 23 424 23 HOH HOH . H 5 HOH A 24 425 24 HOH HOH . H 5 HOH A 25 426 25 HOH HOH . H 5 HOH A 26 427 26 HOH HOH . H 5 HOH A 27 428 27 HOH HOH . H 5 HOH A 28 429 28 HOH HOH . H 5 HOH A 29 430 29 HOH HOH . H 5 HOH A 30 431 30 HOH HOH . H 5 HOH A 31 432 31 HOH HOH . H 5 HOH A 32 433 32 HOH HOH . H 5 HOH A 33 434 33 HOH HOH . H 5 HOH A 34 435 34 HOH HOH . H 5 HOH A 35 436 35 HOH HOH . H 5 HOH A 36 437 36 HOH HOH . H 5 HOH A 37 438 37 HOH HOH . H 5 HOH A 38 439 38 HOH HOH . H 5 HOH A 39 440 39 HOH HOH . H 5 HOH A 40 441 40 HOH HOH . H 5 HOH A 41 442 41 HOH HOH . H 5 HOH A 42 443 42 HOH HOH . H 5 HOH A 43 444 43 HOH HOH . H 5 HOH A 44 445 44 HOH HOH . H 5 HOH A 45 446 45 HOH HOH . H 5 HOH A 46 447 46 HOH HOH . H 5 HOH A 47 448 47 HOH HOH . H 5 HOH A 48 449 48 HOH HOH . H 5 HOH A 49 450 49 HOH HOH . H 5 HOH A 50 451 50 HOH HOH . H 5 HOH A 51 452 51 HOH HOH . H 5 HOH A 52 453 52 HOH HOH . H 5 HOH A 53 454 53 HOH HOH . H 5 HOH A 54 455 54 HOH HOH . H 5 HOH A 55 456 55 HOH HOH . H 5 HOH A 56 457 56 HOH HOH . H 5 HOH A 57 458 57 HOH HOH . H 5 HOH A 58 459 58 HOH HOH . H 5 HOH A 59 460 59 HOH HOH . H 5 HOH A 60 461 60 HOH HOH . H 5 HOH A 61 462 61 HOH HOH . H 5 HOH A 62 463 62 HOH HOH . H 5 HOH A 63 464 63 HOH HOH . H 5 HOH A 64 465 64 HOH HOH . H 5 HOH A 65 466 65 HOH HOH . H 5 HOH A 66 467 66 HOH HOH . H 5 HOH A 67 468 67 HOH HOH . H 5 HOH A 68 469 68 HOH HOH . H 5 HOH A 69 470 69 HOH HOH . H 5 HOH A 70 471 70 HOH HOH . H 5 HOH A 71 472 71 HOH HOH . H 5 HOH A 72 473 72 HOH HOH . H 5 HOH A 73 474 73 HOH HOH . H 5 HOH A 74 475 74 HOH HOH . H 5 HOH A 75 476 75 HOH HOH . H 5 HOH A 76 477 76 HOH HOH . H 5 HOH A 77 478 77 HOH HOH . H 5 HOH A 78 479 78 HOH HOH . H 5 HOH A 79 480 79 HOH HOH . H 5 HOH A 80 481 80 HOH HOH . H 5 HOH A 81 482 81 HOH HOH . H 5 HOH A 82 483 82 HOH HOH . H 5 HOH A 83 484 83 HOH HOH . H 5 HOH A 84 485 84 HOH HOH . H 5 HOH A 85 486 85 HOH HOH . H 5 HOH A 86 487 86 HOH HOH . H 5 HOH A 87 488 87 HOH HOH . H 5 HOH A 88 489 88 HOH HOH . H 5 HOH A 89 490 89 HOH HOH . H 5 HOH A 90 491 90 HOH HOH . H 5 HOH A 91 492 91 HOH HOH . H 5 HOH A 92 493 92 HOH HOH . H 5 HOH A 93 494 93 HOH HOH . H 5 HOH A 94 495 94 HOH HOH . H 5 HOH A 95 496 95 HOH HOH . H 5 HOH A 96 497 96 HOH HOH . H 5 HOH A 97 498 97 HOH HOH . H 5 HOH A 98 499 98 HOH HOH . H 5 HOH A 99 500 99 HOH HOH . H 5 HOH A 100 501 100 HOH HOH . H 5 HOH A 101 502 101 HOH HOH . H 5 HOH A 102 503 102 HOH HOH . H 5 HOH A 103 504 103 HOH HOH . H 5 HOH A 104 505 104 HOH HOH . H 5 HOH A 105 506 105 HOH HOH . H 5 HOH A 106 507 106 HOH HOH . H 5 HOH A 107 508 107 HOH HOH . H 5 HOH A 108 509 108 HOH HOH . H 5 HOH A 109 510 109 HOH HOH . H 5 HOH A 110 511 110 HOH HOH . H 5 HOH A 111 512 111 HOH HOH . H 5 HOH A 112 513 112 HOH HOH . H 5 HOH A 113 514 113 HOH HOH . H 5 HOH A 114 515 114 HOH HOH . H 5 HOH A 115 516 115 HOH HOH . H 5 HOH A 116 517 116 HOH HOH . H 5 HOH A 117 518 117 HOH HOH . H 5 HOH A 118 519 118 HOH HOH . H 5 HOH A 119 520 119 HOH HOH . H 5 HOH A 120 521 120 HOH HOH . H 5 HOH A 121 522 121 HOH HOH . H 5 HOH A 122 523 122 HOH HOH . H 5 HOH A 123 524 123 HOH HOH . H 5 HOH A 124 525 124 HOH HOH . H 5 HOH A 125 526 125 HOH HOH . H 5 HOH A 126 527 126 HOH HOH . H 5 HOH A 127 528 127 HOH HOH . H 5 HOH A 128 529 128 HOH HOH . H 5 HOH A 129 530 129 HOH HOH . H 5 HOH A 130 531 130 HOH HOH . H 5 HOH A 131 532 131 HOH HOH . H 5 HOH A 132 533 132 HOH HOH . H 5 HOH A 133 534 133 HOH HOH . H 5 HOH A 134 535 134 HOH HOH . H 5 HOH A 135 536 135 HOH HOH . H 5 HOH A 136 537 136 HOH HOH . H 5 HOH A 137 538 137 HOH HOH . H 5 HOH A 138 539 138 HOH HOH . H 5 HOH A 139 540 139 HOH HOH . H 5 HOH A 140 541 140 HOH HOH . H 5 HOH A 141 542 141 HOH HOH . H 5 HOH A 142 543 142 HOH HOH . H 5 HOH A 143 544 143 HOH HOH . H 5 HOH A 144 545 144 HOH HOH . H 5 HOH A 145 546 145 HOH HOH . H 5 HOH A 146 547 146 HOH HOH . H 5 HOH A 147 548 147 HOH HOH . H 5 HOH A 148 549 148 HOH HOH . H 5 HOH A 149 550 149 HOH HOH . H 5 HOH A 150 551 150 HOH HOH . H 5 HOH A 151 552 151 HOH HOH . H 5 HOH A 152 553 152 HOH HOH . H 5 HOH A 153 554 153 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 RET . A . G 4 21.794 6.49 -21.299 0.3 33.14 ? C1 RET 200 A 1 HETATM 2 C C1 RET . B . G 4 19.794 4.969 -21.355 0.7 40.02 ? C1 RET 200 A 1 HETATM 3 C C2 RET . A . G 4 21.039 7.251 -22.378 0.3 33.9 ? C2 RET 200 A 1 HETATM 4 C C2 RET . B . G 4 19.683 5.569 -22.731 0.7 40.41 ? C2 RET 200 A 1 HETATM 5 C C3 RET . A . G 4 20.352 6.292 -23.337 0.3 33.74 ? C3 RET 200 A 1 HETATM 6 C C3 RET . B . G 4 19.859 7.07 -22.677 0.7 41.39 ? C3 RET 200 A 1 HETATM 7 C C4 RET . A . G 4 19.26 5.601 -22.543 0.3 33.84 ? C4 RET 200 A 1 HETATM 8 C C4 RET . B . G 4 21.288 7.393 -22.309 0.7 40.79 ? C4 RET 200 A 1 HETATM 9 C C5 RET . A . G 4 19.876 4.834 -21.404 0.3 33.9 ? C5 RET 200 A 1 HETATM 10 C C5 RET . B . G 4 21.77 6.512 -21.197 0.7 39.22 ? C5 RET 200 A 1 HETATM 11 C C6 RET . A . G 4 21.043 5.237 -20.831 0.3 33.64 ? C6 RET 200 A 1 HETATM 12 C C6 RET . B . G 4 21.112 5.405 -20.745 0.7 38.88 ? C6 RET 200 A 1 HETATM 13 C C7 RET . A . G 4 21.681 4.557 -19.679 0.3 33.92 ? C7 RET 200 A 1 HETATM 14 C C7 RET . B . G 4 21.711 4.66 -19.609 0.7 37.04 ? C7 RET 200 A 1 HETATM 15 C C8 RET . A . G 4 21.094 3.669 -18.894 0.3 34.01 ? C8 RET 200 A 1 HETATM 16 C C8 RET . B . G 4 21.111 3.716 -18.89 0.7 34.93 ? C8 RET 200 A 1 HETATM 17 C C9 RET . . . G 4 21.788 3.091 -17.745 1 34.69 ? C9 RET 200 A 1 HETATM 18 C C10 RET . . . G 4 21.071 2.209 -17.031 1 35.48 ? C10 RET 200 A 1 HETATM 19 C C11 RET . . . G 4 21.57 1.529 -15.863 1 36.88 ? C11 RET 200 A 1 HETATM 20 C C12 RET . . . G 4 20.726 0.683 -15.267 1 36.87 ? C12 RET 200 A 1 HETATM 21 C C13 RET . A . G 4 21.119 -0.076 -14.059 0.3 36.84 ? C13 RET 200 A 1 HETATM 22 C C13 RET . B . G 4 21.053 0.004 -14.011 0.7 37.98 ? C13 RET 200 A 1 HETATM 23 C C14 RET . A . G 4 20.172 -0.82 -13.468 0.3 35.7 ? C14 RET 200 A 1 HETATM 24 C C14 RET . B . G 4 19.98 -0.489 -13.384 0.7 36.16 ? C14 RET 200 A 1 HETATM 25 C C15 RET . A . G 4 20.366 -1.631 -12.265 0.3 33.41 ? C15 RET 200 A 1 HETATM 26 C C15 RET . B . G 4 19.907 -1.071 -12.061 0.7 34.72 ? C15 RET 200 A 1 HETATM 27 O O1 RET . A . G 4 21.435 -1.754 -11.691 0.3 33.37 ? O1 RET 200 A 1 HETATM 28 O O1 RET . B . G 4 18.759 -1.19 -11.62 0.7 34.01 ? O1 RET 200 A 1 HETATM 29 C C16 RET . A . G 4 22.003 7.431 -20.113 0.3 33.01 ? C16 RET 200 A 1 HETATM 30 C C16 RET . B . G 4 19.772 3.454 -21.592 0.7 40.52 ? C16 RET 200 A 1 HETATM 31 C C17 RET . A . G 4 23.172 6.121 -21.842 0.3 33.41 ? C17 RET 200 A 1 HETATM 32 C C17 RET . B . G 4 18.635 5.477 -20.491 0.7 40.11 ? C17 RET 200 A 1 HETATM 33 C C18 RET . A . G 4 19.082 3.623 -20.999 0.3 34.37 ? C18 RET 200 A 1 HETATM 34 C C18 RET . B . G 4 23.083 6.968 -20.633 0.7 40.43 ? C18 RET 200 A 1 HETATM 35 C C19 RET . . . G 4 23.224 3.434 -17.41 1 35.08 ? C19 RET 200 A 1 HETATM 36 C C20 RET . A . G 4 22.526 -0.035 -13.52 0.3 37.15 ? C20 RET 200 A 1 HETATM 37 C C20 RET . B . G 4 22.435 -0.011 -13.422 0.7 38.81 ? C20 RET 200 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 37 #