data_1VRK # _model_server_result.job_id cAnP_dJEnhWzy48LFcahLw _model_server_result.datetime_utc '2024-10-16 18:48:53' _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 1vrk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":153}' # _entry.id 1VRK # _exptl.entry_id 1VRK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM 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 91.7 _cell.angle_gamma 90 _cell.entry_id 1VRK _cell.length_a 61.209 _cell.length_b 40.56 _cell.length_c 32.774 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VRK _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F 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 B C LYS 3 B LYS 3 1_555 B N TRF 4 B TRF 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 B C TRF 4 B TRF 4 1_555 B N GLN 5 B GLN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 B C SER 20 B SER 20 1_555 B N NH2 21 B NH2 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.252 ? metalc ? metalc1 A OD1 ASP 20 A ASP 20 1_555 C CA CA . A CA 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc2 A OD1 ASP 22 A ASP 22 1_555 C CA CA . A CA 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc3 A OD1 ASP 24 A ASP 24 1_555 C CA CA . A CA 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc4 A O THR 26 A THR 26 1_555 C CA CA . A CA 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc5 A OE2 GLU 31 A GLU 31 1_555 C CA CA . A CA 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc6 A OE1 GLU 31 A GLU 31 1_555 C CA CA . A CA 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? metalc ? metalc7 A OD1 ASP 56 A ASP 56 1_555 D CA CA . A CA 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc8 A OD1 ASP 58 A ASP 58 1_555 D CA CA . A CA 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc9 A OD1 ASN 60 A ASN 60 1_555 D CA CA . A CA 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc10 A O THR 62 A THR 62 1_555 D CA CA . A CA 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc11 A OE1 GLU 67 A GLU 67 1_555 D CA CA . A CA 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? metalc ? metalc12 A OE2 GLU 67 A GLU 67 1_555 D CA CA . A CA 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc13 A OD1 ASP 93 A ASP 93 1_555 E CA CA . A CA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.669 ? metalc ? metalc14 A OD1 ASP 95 A ASP 95 1_555 E CA CA . A CA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc15 A OD1 ASN 97 A ASN 97 1_555 E CA CA . A CA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc16 A O PHE 99 A PHE 99 1_555 E CA CA . A CA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc17 A OE1 GLU 104 A GLU 104 1_555 E CA CA . A CA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc18 A OE2 GLU 104 A GLU 104 1_555 E CA CA . A CA 153 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc19 A OD1 ASP 129 A ASP 129 1_555 F CA CA . A CA 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc20 A OD1 ASP 131 A ASP 131 1_555 F CA CA . A CA 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.599 ? metalc ? metalc21 A OD1 ASP 133 A ASP 133 1_555 F CA CA . A CA 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc22 A O GLN 135 A GLN 135 1_555 F CA CA . A CA 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc23 A OE2 GLU 140 A GLU 140 1_555 F CA CA . A CA 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? metalc ? metalc24 A OE1 GLU 140 A GLU 140 1_555 F CA CA . A CA 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc25 C CA CA . A CA 151 1_555 H O HOH . A HOH 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc26 D CA CA . A CA 152 1_555 H O HOH . A HOH 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc27 E CA CA . A CA 153 1_555 H O HOH . A HOH 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc28 F CA CA . A CA 154 1_555 H O HOH . A HOH 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.579 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1VRK _atom_sites.fract_transf_matrix[1][1] 0.016337 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000485 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.024655 _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] 0.030525 _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 C 3 CA A 1 151 151 CA CA . D 3 CA A 1 152 152 CA CA . E 3 CA A 1 153 153 CA CA . F 3 CA A 1 154 154 CA CA . G 4 ACT B 1 601 601 ACT ACT . H 5 HOH A 1 201 201 HOH HOH . H 5 HOH A 2 202 202 HOH HOH . H 5 HOH A 3 203 203 HOH HOH . H 5 HOH A 4 204 204 HOH HOH . H 5 HOH A 5 209 217 HOH HOH . H 5 HOH A 6 210 219 HOH HOH . H 5 HOH A 7 213 225 HOH HOH . H 5 HOH A 8 214 230 HOH HOH . H 5 HOH A 9 217 231 HOH HOH . H 5 HOH A 10 219 232 HOH HOH . H 5 HOH A 11 225 233 HOH HOH . H 5 HOH A 12 230 234 HOH HOH . H 5 HOH A 13 231 237 HOH HOH . H 5 HOH A 14 232 238 HOH HOH . H 5 HOH A 15 233 240 HOH HOH . H 5 HOH A 16 234 241 HOH HOH . H 5 HOH A 17 237 242 HOH HOH . H 5 HOH A 18 238 246 HOH HOH . H 5 HOH A 19 240 248 HOH HOH . H 5 HOH A 20 241 249 HOH HOH . H 5 HOH A 21 242 258 HOH HOH . H 5 HOH A 22 246 262 HOH HOH . H 5 HOH A 23 248 264 HOH HOH . H 5 HOH A 24 249 265 HOH HOH . H 5 HOH A 25 258 266 HOH HOH . H 5 HOH A 26 262 269 HOH HOH . H 5 HOH A 27 264 270 HOH HOH . H 5 HOH A 28 265 272 HOH HOH . H 5 HOH A 29 266 273 HOH HOH . H 5 HOH A 30 269 275 HOH HOH . H 5 HOH A 31 270 276 HOH HOH . H 5 HOH A 32 272 281 HOH HOH . H 5 HOH A 33 273 283 HOH HOH . H 5 HOH A 34 275 288 HOH HOH . H 5 HOH A 35 276 290 HOH HOH . H 5 HOH A 36 281 293 HOH HOH . H 5 HOH A 37 283 297 HOH HOH . H 5 HOH A 38 288 298 HOH HOH . H 5 HOH A 39 290 309 HOH HOH . H 5 HOH A 40 293 310 HOH HOH . H 5 HOH A 41 297 312 HOH HOH . H 5 HOH A 42 298 321 HOH HOH . H 5 HOH A 43 309 322 HOH HOH . H 5 HOH A 44 310 323 HOH HOH . H 5 HOH A 45 312 326 HOH HOH . H 5 HOH A 46 321 329 HOH HOH . H 5 HOH A 47 322 330 HOH HOH . H 5 HOH A 48 323 401 HOH HOH . H 5 HOH A 49 326 402 HOH HOH . H 5 HOH A 50 329 403 HOH HOH . H 5 HOH A 51 330 404 HOH HOH . H 5 HOH A 52 401 406 HOH HOH . H 5 HOH A 53 402 407 HOH HOH . H 5 HOH A 54 403 408 HOH HOH . H 5 HOH A 55 404 409 HOH HOH . H 5 HOH A 56 406 410 HOH HOH . H 5 HOH A 57 407 413 HOH HOH . H 5 HOH A 58 408 416 HOH HOH . H 5 HOH A 59 418 422 HOH HOH . H 5 HOH A 60 419 423 HOH HOH . H 5 HOH A 61 420 424 HOH HOH . H 5 HOH A 62 421 425 HOH HOH . H 5 HOH A 63 422 426 HOH HOH . H 5 HOH A 64 424 428 HOH HOH . H 5 HOH A 65 426 430 HOH HOH . H 5 HOH A 66 427 431 HOH HOH . H 5 HOH A 67 428 432 HOH HOH . H 5 HOH A 68 429 433 HOH HOH . H 5 HOH A 69 430 434 HOH HOH . H 5 HOH A 70 431 436 HOH HOH . H 5 HOH A 71 432 437 HOH HOH . H 5 HOH A 72 433 438 HOH HOH . H 5 HOH A 73 434 439 HOH HOH . H 5 HOH A 74 436 440 HOH HOH . H 5 HOH A 75 437 441 HOH HOH . H 5 HOH A 76 438 442 HOH HOH . H 5 HOH A 77 439 443 HOH HOH . H 5 HOH A 78 440 444 HOH HOH . H 5 HOH A 79 441 445 HOH HOH . H 5 HOH A 80 442 446 HOH HOH . H 5 HOH A 81 443 447 HOH HOH . H 5 HOH A 82 444 448 HOH HOH . H 5 HOH A 83 445 449 HOH HOH . H 5 HOH A 84 449 453 HOH HOH . H 5 HOH A 85 450 454 HOH HOH . H 5 HOH A 86 451 457 HOH HOH . H 5 HOH A 87 452 461 HOH HOH . H 5 HOH A 88 453 462 HOH HOH . H 5 HOH A 89 454 463 HOH HOH . H 5 HOH A 90 457 464 HOH HOH . H 5 HOH A 91 461 465 HOH HOH . H 5 HOH A 92 462 466 HOH HOH . H 5 HOH A 93 464 468 HOH HOH . H 5 HOH A 94 465 469 HOH HOH . H 5 HOH A 95 466 470 HOH HOH . H 5 HOH A 96 467 471 HOH HOH . H 5 HOH A 97 468 473 HOH HOH . H 5 HOH A 98 469 474 HOH HOH . H 5 HOH A 99 470 475 HOH HOH . H 5 HOH A 100 471 476 HOH HOH . H 5 HOH A 101 473 477 HOH HOH . H 5 HOH A 102 474 478 HOH HOH . H 5 HOH A 103 475 479 HOH HOH . H 5 HOH A 104 476 480 HOH HOH . H 5 HOH A 105 477 481 HOH HOH . H 5 HOH A 106 478 482 HOH HOH . H 5 HOH A 107 479 484 HOH HOH . H 5 HOH A 108 480 485 HOH HOH . H 5 HOH A 109 481 486 HOH HOH . H 5 HOH A 110 482 487 HOH HOH . H 5 HOH A 111 484 491 HOH HOH . H 5 HOH A 112 485 492 HOH HOH . H 5 HOH A 113 486 493 HOH HOH . H 5 HOH A 114 487 494 HOH HOH . H 5 HOH A 115 491 495 HOH HOH . H 5 HOH A 116 492 496 HOH HOH . H 5 HOH A 117 493 497 HOH HOH . H 5 HOH A 118 494 498 HOH HOH . H 5 HOH A 119 495 499 HOH HOH . H 5 HOH A 120 497 501 HOH HOH . H 5 HOH A 121 499 503 HOH HOH . H 5 HOH A 122 500 504 HOH HOH . H 5 HOH A 123 501 505 HOH HOH . H 5 HOH A 124 502 506 HOH HOH . H 5 HOH A 125 503 209 HOH HOH . H 5 HOH A 126 504 210 HOH HOH . H 5 HOH A 127 505 213 HOH HOH . H 5 HOH A 128 506 214 HOH HOH . I 5 HOH B 1 409 417 HOH HOH . I 5 HOH B 2 410 418 HOH HOH . I 5 HOH B 3 413 419 HOH HOH . I 5 HOH B 4 416 420 HOH HOH . I 5 HOH B 5 417 421 HOH HOH . I 5 HOH B 6 423 427 HOH HOH . I 5 HOH B 7 425 429 HOH HOH . I 5 HOH B 8 446 450 HOH HOH . I 5 HOH B 9 447 451 HOH HOH . I 5 HOH B 10 448 452 HOH HOH . I 5 HOH B 11 463 467 HOH HOH . I 5 HOH B 12 496 500 HOH HOH . I 5 HOH B 13 498 502 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _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 3 _atom_site.Cartn_x 28.357 _atom_site.Cartn_y -10.952 _atom_site.Cartn_z 8.132 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 36.57 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 153 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #