data_1Y3G # _model_server_result.job_id -mgBLjRbtjbUvStR-yK98w _model_server_result.datetime_utc '2024-11-22 20:12:52' _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 1y3g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":319}' # _entry.id 1Y3G # _exptl.entry_id 1Y3G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _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 90 _cell.angle_gamma 120 _cell.entry_id 1Y3G _cell.length_a 93.52 _cell.length_b 93.52 _cell.length_c 131.77 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Y3G _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E 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 I C 3PL . E 3PL 803 1_555 J N AMM . E AMM 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 J C AMM . E AMM 804 1_555 K N LEU . E LEU 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? metalc ? metalc1 A OD2 ASP 57 E ASP 57 1_555 D CA CA . E CA 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.557 ? metalc ? metalc2 A OD1 ASP 57 E ASP 57 1_555 D CA CA . E CA 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc3 A OD1 ASP 59 E ASP 59 1_555 D CA CA . E CA 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc4 A O GLN 61 E GLN 61 1_555 D CA CA . E CA 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc5 A OD2 ASP 138 E ASP 138 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc6 A NE2 HIS 142 E HIS 142 1_555 F ZN ZN . E ZN 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.982 ? metalc ? metalc7 A NE2 HIS 146 E HIS 146 1_555 F ZN ZN . E ZN 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc8 A OE2 GLU 166 E GLU 166 1_555 F ZN ZN . E ZN 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc9 A OE1 GLU 177 E GLU 177 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? metalc ? metalc10 A OE2 GLU 177 E GLU 177 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc11 A OE2 GLU 177 E GLU 177 1_555 C CA CA . E CA 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc12 A O ASN 183 E ASN 183 1_555 C CA CA . E CA 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc13 A OD1 ASP 185 E ASP 185 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc14 A OD2 ASP 185 E ASP 185 1_555 C CA CA . E CA 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc15 A O GLU 187 E GLU 187 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc16 A OE1 GLU 190 E GLU 190 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc17 A OE2 GLU 190 E GLU 190 1_555 B CA CA . E CA 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? metalc ? metalc18 A OE2 GLU 190 E GLU 190 1_555 C CA CA . E CA 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? metalc ? metalc19 A O TYR 193 E TYR 193 1_555 E CA CA . E CA 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc20 A O THR 194 E THR 194 1_555 E CA CA . E CA 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc21 A OG1 THR 194 E THR 194 1_555 E CA CA . E CA 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc22 A O ILE 197 E ILE 197 1_555 E CA CA . E CA 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? metalc ? metalc23 A OD1 ASP 200 E ASP 200 1_555 E CA CA . E CA 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc24 B CA CA . E CA 317 1_555 L O HOH . E HOH 346 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.559 ? metalc ? metalc25 C CA CA . E CA 318 1_555 L O HOH . E HOH 353 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc26 C CA CA . E CA 318 1_555 L O HOH . E HOH 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc27 D CA CA . E CA 319 1_555 L O HOH . E HOH 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? metalc ? metalc28 D CA CA . E CA 319 1_555 L O HOH . E HOH 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc29 D CA CA . E CA 319 1_555 L O HOH . E HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc30 E CA CA . E CA 320 1_555 L O HOH . E HOH 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc31 E CA CA . E CA 320 1_555 L O HOH . E HOH 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc32 F ZN ZN . E ZN 321 1_555 J O1 AMM . E AMM 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? # _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 1Y3G _atom_sites.fract_transf_matrix[1][1] 0.010693 _atom_sites.fract_transf_matrix[1][2] 0.006174 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012347 _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] 0.007589 _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 CA E 1 317 317 CA CA . C 2 CA E 1 318 318 CA CA . D 2 CA E 1 319 319 CA CA . E 2 CA E 1 320 320 CA CA . F 3 ZN E 1 321 321 ZN ZN . G 4 DMS E 1 801 801 DMS DMS . H 4 DMS E 1 802 802 DMS DMS . I 5 3PL E 1 803 1 3PL 3PL . J 6 AMM E 1 804 2 AMM AMM . K 7 LEU E 1 805 3 LEU LEU . L 8 HOH E 1 331 331 HOH HOH . L 8 HOH E 2 334 334 HOH HOH . L 8 HOH E 3 335 335 HOH HOH . L 8 HOH E 4 337 337 HOH HOH . L 8 HOH E 5 338 338 HOH HOH . L 8 HOH E 6 339 339 HOH HOH . L 8 HOH E 7 340 340 HOH HOH . L 8 HOH E 8 342 342 HOH HOH . L 8 HOH E 9 343 343 HOH HOH . L 8 HOH E 10 344 344 HOH HOH . L 8 HOH E 11 345 345 HOH HOH . L 8 HOH E 12 346 346 HOH HOH . L 8 HOH E 13 347 347 HOH HOH . L 8 HOH E 14 348 348 HOH HOH . L 8 HOH E 15 349 349 HOH HOH . L 8 HOH E 16 350 350 HOH HOH . L 8 HOH E 17 351 351 HOH HOH . L 8 HOH E 18 352 352 HOH HOH . L 8 HOH E 19 353 353 HOH HOH . L 8 HOH E 20 354 354 HOH HOH . L 8 HOH E 21 355 355 HOH HOH . L 8 HOH E 22 356 356 HOH HOH . L 8 HOH E 23 357 357 HOH HOH . L 8 HOH E 24 358 358 HOH HOH . L 8 HOH E 25 359 359 HOH HOH . L 8 HOH E 26 361 361 HOH HOH . L 8 HOH E 27 366 366 HOH HOH . L 8 HOH E 28 368 368 HOH HOH . L 8 HOH E 29 371 371 HOH HOH . L 8 HOH E 30 373 373 HOH HOH . L 8 HOH E 31 374 374 HOH HOH . L 8 HOH E 32 380 380 HOH HOH . L 8 HOH E 33 381 381 HOH HOH . L 8 HOH E 34 383 383 HOH HOH . L 8 HOH E 35 386 386 HOH HOH . L 8 HOH E 36 387 387 HOH HOH . L 8 HOH E 37 393 393 HOH HOH . L 8 HOH E 38 395 395 HOH HOH . L 8 HOH E 39 398 398 HOH HOH . L 8 HOH E 40 403 403 HOH HOH . L 8 HOH E 41 404 404 HOH HOH . L 8 HOH E 42 405 405 HOH HOH . L 8 HOH E 43 408 408 HOH HOH . L 8 HOH E 44 410 410 HOH HOH . L 8 HOH E 45 413 413 HOH HOH . L 8 HOH E 46 414 414 HOH HOH . L 8 HOH E 47 415 415 HOH HOH . L 8 HOH E 48 419 419 HOH HOH . L 8 HOH E 49 420 420 HOH HOH . L 8 HOH E 50 425 425 HOH HOH . L 8 HOH E 51 444 444 HOH HOH . L 8 HOH E 52 454 454 HOH HOH . L 8 HOH E 53 464 464 HOH HOH . L 8 HOH E 54 468 468 HOH HOH . L 8 HOH E 55 470 470 HOH HOH . L 8 HOH E 56 475 475 HOH HOH . L 8 HOH E 57 476 476 HOH HOH . L 8 HOH E 58 477 477 HOH HOH . L 8 HOH E 59 479 479 HOH HOH . L 8 HOH E 60 480 480 HOH HOH . L 8 HOH E 61 481 481 HOH HOH . L 8 HOH E 62 482 482 HOH HOH . L 8 HOH E 63 484 484 HOH HOH . L 8 HOH E 64 487 487 HOH HOH . L 8 HOH E 65 491 491 HOH HOH . L 8 HOH E 66 495 495 HOH HOH . L 8 HOH E 67 502 502 HOH HOH . L 8 HOH E 68 503 503 HOH HOH . L 8 HOH E 69 506 506 HOH HOH . L 8 HOH E 70 507 507 HOH HOH . L 8 HOH E 71 508 508 HOH HOH . L 8 HOH E 72 512 512 HOH HOH . L 8 HOH E 73 524 524 HOH HOH . L 8 HOH E 74 525 525 HOH HOH . L 8 HOH E 75 527 527 HOH HOH . L 8 HOH E 76 528 528 HOH HOH . L 8 HOH E 77 531 531 HOH HOH . L 8 HOH E 78 534 534 HOH HOH . L 8 HOH E 79 536 536 HOH HOH . L 8 HOH E 80 538 538 HOH HOH . L 8 HOH E 81 539 539 HOH HOH . L 8 HOH E 82 540 540 HOH HOH . L 8 HOH E 83 543 543 HOH HOH . L 8 HOH E 84 544 544 HOH HOH . L 8 HOH E 85 553 553 HOH HOH . L 8 HOH E 86 554 554 HOH HOH . L 8 HOH E 87 603 603 HOH HOH . L 8 HOH E 88 604 604 HOH HOH . L 8 HOH E 89 606 606 HOH HOH . L 8 HOH E 90 612 612 HOH HOH . L 8 HOH E 91 613 613 HOH HOH . L 8 HOH E 92 614 614 HOH HOH . L 8 HOH E 93 615 615 HOH HOH . L 8 HOH E 94 616 616 HOH HOH . L 8 HOH E 95 617 617 HOH HOH . L 8 HOH E 96 620 620 HOH HOH . L 8 HOH E 97 626 626 HOH HOH . L 8 HOH E 98 627 627 HOH HOH . L 8 HOH E 99 630 630 HOH HOH . L 8 HOH E 100 631 631 HOH HOH . L 8 HOH E 101 632 632 HOH HOH . L 8 HOH E 102 633 633 HOH HOH . L 8 HOH E 103 634 634 HOH HOH . L 8 HOH E 104 635 635 HOH HOH . L 8 HOH E 105 636 636 HOH HOH . L 8 HOH E 106 638 638 HOH HOH . L 8 HOH E 107 645 645 HOH HOH . L 8 HOH E 108 647 647 HOH HOH . L 8 HOH E 109 701 701 HOH HOH . L 8 HOH E 110 702 702 HOH HOH . L 8 HOH E 111 703 703 HOH HOH . L 8 HOH E 112 704 704 HOH HOH . L 8 HOH E 113 705 705 HOH HOH . L 8 HOH E 114 706 706 HOH HOH . L 8 HOH E 115 707 707 HOH HOH . L 8 HOH E 116 708 708 HOH HOH . L 8 HOH E 117 709 709 HOH HOH . L 8 HOH E 118 710 710 HOH HOH . L 8 HOH E 119 711 711 HOH HOH . L 8 HOH E 120 712 712 HOH HOH . L 8 HOH E 121 713 713 HOH HOH . L 8 HOH E 122 714 714 HOH HOH . L 8 HOH E 123 715 715 HOH HOH . L 8 HOH E 124 716 716 HOH HOH . L 8 HOH E 125 717 717 HOH HOH . L 8 HOH E 126 718 718 HOH HOH . L 8 HOH E 127 719 719 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 D _atom_site.label_entity_id 2 _atom_site.Cartn_x 14.558 _atom_site.Cartn_y 45.67 _atom_site.Cartn_z 15.803 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 16.97 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 319 _atom_site.auth_asym_id E _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #