data_1JDD # _model_server_result.job_id 6efIo87hOSXA1MV4vvXYMw _model_server_result.datetime_utc '2024-11-22 10:12:46' _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 1jdd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":451}' # _entry.id 1JDD # _exptl.entry_id 1JDD _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 2 _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 1JDD _cell.length_a 65.6 _cell.length_b 170.7 _cell.length_c 46.8 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1JDD _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 _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 # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 GLC GLC C1 O1 . O4 HO4 . sing 2 ? 2 3 2 GLC GLC C1 O1 . O4 HO4 . sing 3 ? 2 4 3 GLC GLC C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B GLC 1 B 1 GLC ? 463 GLC 2 n B GLC 2 B 2 GLC ? 462 GLC 2 n B GLC 3 B 3 GLC ? 461 GLC 2 n B GLC 4 B 4 GLC ? 460 GLC # 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 disulf ? disulf1 A SG CYS 140 A CYS 140 1_555 A SG CYS 150 A CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 216 A CYS 216 1_555 A SG CYS 251 A CYS 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? covale ? covale1 B O4 GLC . B GLC 1 1_555 B C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.382 ? covale ? covale2 B O4 GLC . B GLC 2 1_555 B C1 GLC . B GLC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? covale ? covale3 B O4 GLC . B GLC 3 1_555 B C1 GLC . B GLC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A OD1 ASP 1 A ASP 1 1_555 D CA CA . A CA 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? metalc ? metalc2 A O GLN 2 A GLN 2 1_555 D CA CA . A CA 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc3 A O HIS 13 A HIS 13 1_555 D CA CA . A CA 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc4 A ND1 HIS 13 A HIS 13 1_555 D CA CA . A CA 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc5 A OD1 ASP 16 A ASP 16 1_555 D CA CA . A CA 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc6 A OE2 GLU 17 A GLU 17 1_555 D CA CA . A CA 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc7 A OD1 ASN 116 A ASN 116 1_555 C CA CA . A CA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.57 ? metalc ? metalc8 A OD1 ASP 151 A ASP 151 1_555 C CA CA . A CA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.694 ? metalc ? metalc9 A OD2 ASP 151 A ASP 151 1_555 C CA CA . A CA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc10 A O ASP 154 A ASP 154 1_555 C CA CA . A CA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc11 A OD2 ASP 162 A ASP 162 1_555 C CA CA . A CA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc12 A O GLY 197 A GLY 197 1_555 C CA CA . A CA 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc13 C CA CA . A CA 451 1_555 E O HOH . A HOH 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? # _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 1JDD _atom_sites.fract_transf_matrix[1][1] 0.015244 _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] 0.005858 _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] 0.021368 _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 1 451 451 CA CA . D 3 CA A 1 452 452 CA CA . E 4 HOH A 1 501 501 HOH HOH . E 4 HOH A 2 502 502 HOH HOH . E 4 HOH A 3 503 503 HOH HOH . E 4 HOH A 4 504 504 HOH HOH . E 4 HOH A 5 505 505 HOH HOH . E 4 HOH A 6 506 506 HOH HOH . E 4 HOH A 7 507 507 HOH HOH . E 4 HOH A 8 508 508 HOH HOH . E 4 HOH A 9 509 509 HOH HOH . E 4 HOH A 10 510 510 HOH HOH . E 4 HOH A 11 511 511 HOH HOH . E 4 HOH A 12 512 512 HOH HOH . E 4 HOH A 13 513 513 HOH HOH . E 4 HOH A 14 514 514 HOH HOH . E 4 HOH A 15 515 515 HOH HOH . E 4 HOH A 16 516 516 HOH HOH . E 4 HOH A 17 517 517 HOH HOH . E 4 HOH A 18 518 518 HOH HOH . E 4 HOH A 19 519 519 HOH HOH . E 4 HOH A 20 520 520 HOH HOH . E 4 HOH A 21 521 521 HOH HOH . E 4 HOH A 22 522 522 HOH HOH . E 4 HOH A 23 523 523 HOH HOH . E 4 HOH A 24 524 524 HOH HOH . E 4 HOH A 25 525 525 HOH HOH . E 4 HOH A 26 526 526 HOH HOH . E 4 HOH A 27 527 527 HOH HOH . E 4 HOH A 28 528 528 HOH HOH . E 4 HOH A 29 529 529 HOH HOH . E 4 HOH A 30 530 530 HOH HOH . E 4 HOH A 31 531 531 HOH HOH . E 4 HOH A 32 532 532 HOH HOH . E 4 HOH A 33 533 533 HOH HOH . E 4 HOH A 34 534 534 HOH HOH . E 4 HOH A 35 535 535 HOH HOH . E 4 HOH A 36 536 536 HOH HOH . E 4 HOH A 37 537 537 HOH HOH . E 4 HOH A 38 538 538 HOH HOH . E 4 HOH A 39 539 539 HOH HOH . E 4 HOH A 40 540 540 HOH HOH . E 4 HOH A 41 541 541 HOH HOH . E 4 HOH A 42 542 542 HOH HOH . E 4 HOH A 43 543 543 HOH HOH . E 4 HOH A 44 544 544 HOH HOH . E 4 HOH A 45 545 545 HOH HOH . E 4 HOH A 46 546 546 HOH HOH . E 4 HOH A 47 547 547 HOH HOH . E 4 HOH A 48 548 548 HOH HOH . E 4 HOH A 49 549 549 HOH HOH . E 4 HOH A 50 550 550 HOH HOH . E 4 HOH A 51 551 551 HOH HOH . E 4 HOH A 52 552 552 HOH HOH . E 4 HOH A 53 553 553 HOH HOH . E 4 HOH A 54 554 554 HOH HOH . E 4 HOH A 55 555 555 HOH HOH . E 4 HOH A 56 556 556 HOH HOH . E 4 HOH A 57 557 557 HOH HOH . E 4 HOH A 58 558 558 HOH HOH . E 4 HOH A 59 559 559 HOH HOH . E 4 HOH A 60 560 560 HOH HOH . E 4 HOH A 61 561 561 HOH HOH . E 4 HOH A 62 562 562 HOH HOH . E 4 HOH A 63 563 563 HOH HOH . E 4 HOH A 64 564 564 HOH HOH . E 4 HOH A 65 565 565 HOH HOH . E 4 HOH A 66 566 566 HOH HOH . E 4 HOH A 67 567 567 HOH HOH . E 4 HOH A 68 568 568 HOH HOH . E 4 HOH A 69 569 569 HOH HOH . E 4 HOH A 70 570 570 HOH HOH . E 4 HOH A 71 571 571 HOH HOH . E 4 HOH A 72 572 572 HOH HOH . E 4 HOH A 73 573 573 HOH HOH . E 4 HOH A 74 574 574 HOH HOH . E 4 HOH A 75 575 575 HOH HOH . E 4 HOH A 76 576 576 HOH HOH . E 4 HOH A 77 577 577 HOH HOH . E 4 HOH A 78 578 578 HOH HOH . E 4 HOH A 79 579 579 HOH HOH . E 4 HOH A 80 580 580 HOH HOH . E 4 HOH A 81 581 581 HOH HOH . E 4 HOH A 82 582 582 HOH HOH . E 4 HOH A 83 583 583 HOH HOH . E 4 HOH A 84 584 584 HOH HOH . E 4 HOH A 85 585 585 HOH HOH . E 4 HOH A 86 586 586 HOH HOH . E 4 HOH A 87 587 587 HOH HOH . E 4 HOH A 88 588 588 HOH HOH . E 4 HOH A 89 589 589 HOH HOH . E 4 HOH A 90 590 590 HOH HOH . E 4 HOH A 91 591 591 HOH HOH . E 4 HOH A 92 592 592 HOH HOH . E 4 HOH A 93 593 593 HOH HOH . E 4 HOH A 94 594 594 HOH HOH . E 4 HOH A 95 595 595 HOH HOH . E 4 HOH A 96 596 596 HOH HOH . E 4 HOH A 97 597 597 HOH HOH . E 4 HOH A 98 598 598 HOH HOH . E 4 HOH A 99 599 599 HOH HOH . E 4 HOH A 100 600 600 HOH HOH . E 4 HOH A 101 601 601 HOH HOH . E 4 HOH A 102 602 602 HOH HOH . E 4 HOH A 103 603 603 HOH HOH . E 4 HOH A 104 604 604 HOH HOH . E 4 HOH A 105 605 605 HOH HOH . E 4 HOH A 106 606 606 HOH HOH . E 4 HOH A 107 607 607 HOH HOH . E 4 HOH A 108 608 608 HOH HOH . E 4 HOH A 109 609 609 HOH HOH . E 4 HOH A 110 610 610 HOH HOH . E 4 HOH A 111 611 611 HOH HOH . E 4 HOH A 112 612 612 HOH HOH . E 4 HOH A 113 613 613 HOH HOH . E 4 HOH A 114 614 614 HOH HOH . E 4 HOH A 115 615 615 HOH HOH . E 4 HOH A 116 616 616 HOH HOH . E 4 HOH A 117 617 617 HOH HOH . E 4 HOH A 118 618 618 HOH HOH . E 4 HOH A 119 619 619 HOH HOH . E 4 HOH A 120 620 620 HOH HOH . E 4 HOH A 121 621 621 HOH HOH . E 4 HOH A 122 622 622 HOH HOH . E 4 HOH A 123 623 623 HOH HOH . E 4 HOH A 124 624 624 HOH HOH . E 4 HOH A 125 625 625 HOH HOH . E 4 HOH A 126 626 626 HOH HOH . E 4 HOH A 127 627 627 HOH HOH . E 4 HOH A 128 628 628 HOH HOH . E 4 HOH A 129 629 629 HOH HOH . E 4 HOH A 130 630 630 HOH HOH . E 4 HOH A 131 631 631 HOH HOH . E 4 HOH A 132 632 632 HOH HOH . E 4 HOH A 133 633 633 HOH HOH . E 4 HOH A 134 634 634 HOH HOH . E 4 HOH A 135 635 635 HOH HOH . E 4 HOH A 136 636 636 HOH HOH . E 4 HOH A 137 637 637 HOH HOH . E 4 HOH A 138 638 638 HOH HOH . E 4 HOH A 139 639 639 HOH HOH . E 4 HOH A 140 640 640 HOH HOH . E 4 HOH A 141 641 641 HOH HOH . E 4 HOH A 142 642 642 HOH HOH . E 4 HOH A 143 643 643 HOH HOH . E 4 HOH A 144 644 644 HOH HOH . E 4 HOH A 145 645 645 HOH HOH . E 4 HOH A 146 646 646 HOH HOH . E 4 HOH A 147 647 647 HOH HOH . E 4 HOH A 148 648 648 HOH HOH . E 4 HOH A 149 649 649 HOH HOH . E 4 HOH A 150 650 650 HOH HOH . E 4 HOH A 151 651 651 HOH HOH . E 4 HOH A 152 652 652 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 C _atom_site.label_entity_id 3 _atom_site.Cartn_x 24.643 _atom_site.Cartn_y 91.634 _atom_site.Cartn_z 12.861 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 21.2 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 451 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #