data_1YLC # _model_server_result.job_id ZvsaQJdr3SHQkmRznZKGRQ _model_server_result.datetime_utc '2025-01-10 09:05:42' _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 1ylc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":800}' # _entry.id 1YLC # _exptl.entry_id 1YLC _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 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 120 _cell.entry_id 1YLC _cell.length_a 92.791 _cell.length_b 92.791 _cell.length_c 62.197 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YLC _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 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 _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 3 _struct_asym.id C _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 disulf ? disulf1 A SG CYS 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale1 B C PHE 4 B PHE 4 1_555 B N ABA 5 B ABA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 B C ABA 5 B ABA 5 1_555 B N LEU 6 B LEU 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale3 B C LEU 29 B LEU 29 1_555 B N ABA 30 B ABA 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale4 B C ABA 30 B ABA 30 1_555 B N GLN 31 B GLN 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale5 B C ASP 50 B ASP 50 1_555 B N ABA 51 B ABA 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale6 B C ABA 51 B ABA 51 1_555 B N MET 52 B MET 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale7 B C THR 54 B THR 54 1_555 B N ABA 55 B ABA 55 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale8 B C ABA 55 B ABA 55 1_555 B N GLY 56 B GLY 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A OE1 GLU 52 A GLU 70 1_555 C CA CA . A CA 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? metalc ? metalc2 A O ASN 54 A ASN 72 1_555 C CA CA . A CA 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc3 A O VAL 57 A VAL 75 1_555 C CA CA . A CA 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc4 A OE1 GLU 59 A GLU 77 1_555 C CA CA . A CA 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? metalc ? metalc5 A OE2 GLU 62 A GLU 80 1_555 C CA CA . A CA 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.558 ? metalc ? metalc6 F O HOH . A HOH 526 1_555 C CA CA . A CA 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? # _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 1YLC _atom_sites.fract_transf_matrix[1][1] 0.010777 _atom_sites.fract_transf_matrix[1][2] 0.006222 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012444 _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] 0.016078 _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 1 800 800 CA CA . D 4 SO4 B 1 990 990 SO4 SO4 . E 4 SO4 B 1 991 991 SO4 SO4 . F 5 HOH A 1 501 501 HOH HOH . F 5 HOH A 2 502 502 HOH HOH . F 5 HOH A 3 503 503 HOH HOH . F 5 HOH A 4 504 504 HOH HOH . F 5 HOH A 5 505 505 HOH HOH . F 5 HOH A 6 506 506 HOH HOH . F 5 HOH A 7 507 507 HOH HOH . F 5 HOH A 8 508 508 HOH HOH . F 5 HOH A 9 509 509 HOH HOH . F 5 HOH A 10 510 510 HOH HOH . F 5 HOH A 11 511 511 HOH HOH . F 5 HOH A 12 513 513 HOH HOH . F 5 HOH A 13 514 514 HOH HOH . F 5 HOH A 14 515 515 HOH HOH . F 5 HOH A 15 516 516 HOH HOH . F 5 HOH A 16 517 517 HOH HOH . F 5 HOH A 17 518 518 HOH HOH . F 5 HOH A 18 519 519 HOH HOH . F 5 HOH A 19 520 520 HOH HOH . F 5 HOH A 20 521 521 HOH HOH . F 5 HOH A 21 523 523 HOH HOH . F 5 HOH A 22 524 524 HOH HOH . F 5 HOH A 23 526 526 HOH HOH . F 5 HOH A 24 527 527 HOH HOH . F 5 HOH A 25 528 528 HOH HOH . F 5 HOH A 26 530 530 HOH HOH . F 5 HOH A 27 531 531 HOH HOH . F 5 HOH A 28 532 532 HOH HOH . F 5 HOH A 29 533 533 HOH HOH . F 5 HOH A 30 534 534 HOH HOH . F 5 HOH A 31 535 535 HOH HOH . F 5 HOH A 32 536 536 HOH HOH . F 5 HOH A 33 537 537 HOH HOH . F 5 HOH A 34 538 538 HOH HOH . F 5 HOH A 35 539 539 HOH HOH . F 5 HOH A 36 540 540 HOH HOH . F 5 HOH A 37 541 541 HOH HOH . F 5 HOH A 38 542 542 HOH HOH . F 5 HOH A 39 543 543 HOH HOH . F 5 HOH A 40 544 544 HOH HOH . F 5 HOH A 41 545 545 HOH HOH . F 5 HOH A 42 546 546 HOH HOH . F 5 HOH A 43 547 547 HOH HOH . F 5 HOH A 44 548 548 HOH HOH . F 5 HOH A 45 549 549 HOH HOH . F 5 HOH A 46 550 550 HOH HOH . F 5 HOH A 47 551 551 HOH HOH . F 5 HOH A 48 552 552 HOH HOH . F 5 HOH A 49 553 553 HOH HOH . F 5 HOH A 50 554 554 HOH HOH . F 5 HOH A 51 555 555 HOH HOH . F 5 HOH A 52 556 556 HOH HOH . F 5 HOH A 53 557 557 HOH HOH . F 5 HOH A 54 558 558 HOH HOH . F 5 HOH A 55 559 559 HOH HOH . F 5 HOH A 56 560 560 HOH HOH . F 5 HOH A 57 561 561 HOH HOH . F 5 HOH A 58 562 562 HOH HOH . F 5 HOH A 59 563 563 HOH HOH . F 5 HOH A 60 564 564 HOH HOH . F 5 HOH A 61 565 565 HOH HOH . F 5 HOH A 62 566 566 HOH HOH . F 5 HOH A 63 567 567 HOH HOH . F 5 HOH A 64 569 569 HOH HOH . F 5 HOH A 65 570 570 HOH HOH . F 5 HOH A 66 571 571 HOH HOH . F 5 HOH A 67 573 573 HOH HOH . F 5 HOH A 68 574 574 HOH HOH . F 5 HOH A 69 575 575 HOH HOH . F 5 HOH A 70 576 576 HOH HOH . F 5 HOH A 71 578 578 HOH HOH . F 5 HOH A 72 579 579 HOH HOH . F 5 HOH A 73 580 580 HOH HOH . F 5 HOH A 74 581 581 HOH HOH . F 5 HOH A 75 583 583 HOH HOH . F 5 HOH A 76 584 584 HOH HOH . F 5 HOH A 77 586 586 HOH HOH . F 5 HOH A 78 588 588 HOH HOH . F 5 HOH A 79 589 589 HOH HOH . F 5 HOH A 80 590 590 HOH HOH . F 5 HOH A 81 591 591 HOH HOH . F 5 HOH A 82 592 592 HOH HOH . F 5 HOH A 83 593 593 HOH HOH . F 5 HOH A 84 595 595 HOH HOH . F 5 HOH A 85 596 596 HOH HOH . F 5 HOH A 86 597 597 HOH HOH . F 5 HOH A 87 598 598 HOH HOH . F 5 HOH A 88 599 599 HOH HOH . F 5 HOH A 89 600 600 HOH HOH . F 5 HOH A 90 601 601 HOH HOH . F 5 HOH A 91 604 604 HOH HOH . F 5 HOH A 92 605 605 HOH HOH . F 5 HOH A 93 606 606 HOH HOH . F 5 HOH A 94 607 607 HOH HOH . F 5 HOH A 95 608 608 HOH HOH . F 5 HOH A 96 609 609 HOH HOH . F 5 HOH A 97 610 610 HOH HOH . F 5 HOH A 98 611 611 HOH HOH . F 5 HOH A 99 613 613 HOH HOH . F 5 HOH A 100 614 614 HOH HOH . F 5 HOH A 101 615 615 HOH HOH . F 5 HOH A 102 616 616 HOH HOH . F 5 HOH A 103 617 617 HOH HOH . F 5 HOH A 104 618 618 HOH HOH . F 5 HOH A 105 621 621 HOH HOH . F 5 HOH A 106 622 622 HOH HOH . F 5 HOH A 107 624 624 HOH HOH . F 5 HOH A 108 625 625 HOH HOH . F 5 HOH A 109 626 626 HOH HOH . F 5 HOH A 110 628 628 HOH HOH . F 5 HOH A 111 629 629 HOH HOH . F 5 HOH A 112 630 630 HOH HOH . F 5 HOH A 113 631 631 HOH HOH . F 5 HOH A 114 632 632 HOH HOH . F 5 HOH A 115 633 633 HOH HOH . F 5 HOH A 116 635 635 HOH HOH . F 5 HOH A 117 638 638 HOH HOH . F 5 HOH A 118 641 641 HOH HOH . F 5 HOH A 119 642 642 HOH HOH . F 5 HOH A 120 643 643 HOH HOH . F 5 HOH A 121 644 644 HOH HOH . F 5 HOH A 122 646 646 HOH HOH . F 5 HOH A 123 647 647 HOH HOH . F 5 HOH A 124 648 648 HOH HOH . F 5 HOH A 125 649 649 HOH HOH . F 5 HOH A 126 650 650 HOH HOH . F 5 HOH A 127 651 651 HOH HOH . F 5 HOH A 128 652 652 HOH HOH . F 5 HOH A 129 653 653 HOH HOH . F 5 HOH A 130 654 654 HOH HOH . F 5 HOH A 131 655 655 HOH HOH . F 5 HOH A 132 656 656 HOH HOH . F 5 HOH A 133 658 658 HOH HOH . F 5 HOH A 134 660 660 HOH HOH . F 5 HOH A 135 661 661 HOH HOH . F 5 HOH A 136 662 662 HOH HOH . F 5 HOH A 137 663 663 HOH HOH . F 5 HOH A 138 665 665 HOH HOH . F 5 HOH A 139 666 666 HOH HOH . F 5 HOH A 140 668 668 HOH HOH . F 5 HOH A 141 669 669 HOH HOH . F 5 HOH A 142 670 670 HOH HOH . F 5 HOH A 143 671 671 HOH HOH . F 5 HOH A 144 673 673 HOH HOH . F 5 HOH A 145 675 675 HOH HOH . F 5 HOH A 146 677 677 HOH HOH . F 5 HOH A 147 680 680 HOH HOH . F 5 HOH A 148 681 681 HOH HOH . F 5 HOH A 149 682 682 HOH HOH . F 5 HOH A 150 683 683 HOH HOH . F 5 HOH A 151 685 685 HOH HOH . F 5 HOH A 152 686 686 HOH HOH . F 5 HOH A 153 689 689 HOH HOH . F 5 HOH A 154 690 690 HOH HOH . F 5 HOH A 155 693 693 HOH HOH . F 5 HOH A 156 694 694 HOH HOH . F 5 HOH A 157 695 695 HOH HOH . F 5 HOH A 158 696 696 HOH HOH . F 5 HOH A 159 697 697 HOH HOH . F 5 HOH A 160 698 698 HOH HOH . F 5 HOH A 161 701 701 HOH HOH . F 5 HOH A 162 704 704 HOH HOH . F 5 HOH A 163 707 707 HOH HOH . F 5 HOH A 164 710 710 HOH HOH . F 5 HOH A 165 711 711 HOH HOH . F 5 HOH A 166 712 712 HOH HOH . F 5 HOH A 167 714 714 HOH HOH . F 5 HOH A 168 715 715 HOH HOH . F 5 HOH A 169 716 716 HOH HOH . F 5 HOH A 170 717 717 HOH HOH . F 5 HOH A 171 718 718 HOH HOH . F 5 HOH A 172 719 719 HOH HOH . F 5 HOH A 173 720 720 HOH HOH . F 5 HOH A 174 722 722 HOH HOH . F 5 HOH A 175 723 723 HOH HOH . F 5 HOH A 176 724 724 HOH HOH . F 5 HOH A 177 726 726 HOH HOH . G 5 HOH B 1 500 500 HOH HOH . G 5 HOH B 2 512 512 HOH HOH . G 5 HOH B 3 522 522 HOH HOH . G 5 HOH B 4 525 525 HOH HOH . G 5 HOH B 5 529 529 HOH HOH . G 5 HOH B 6 568 568 HOH HOH . G 5 HOH B 7 572 572 HOH HOH . G 5 HOH B 8 577 577 HOH HOH . G 5 HOH B 9 582 582 HOH HOH . G 5 HOH B 10 585 585 HOH HOH . G 5 HOH B 11 587 587 HOH HOH . G 5 HOH B 12 594 594 HOH HOH . G 5 HOH B 13 602 602 HOH HOH . G 5 HOH B 14 603 603 HOH HOH . G 5 HOH B 15 612 612 HOH HOH . G 5 HOH B 16 619 619 HOH HOH . G 5 HOH B 17 620 620 HOH HOH . G 5 HOH B 18 623 623 HOH HOH . G 5 HOH B 19 627 627 HOH HOH . G 5 HOH B 20 634 634 HOH HOH . G 5 HOH B 21 636 636 HOH HOH . G 5 HOH B 22 637 637 HOH HOH . G 5 HOH B 23 639 639 HOH HOH . G 5 HOH B 24 640 640 HOH HOH . G 5 HOH B 25 645 645 HOH HOH . G 5 HOH B 26 657 657 HOH HOH . G 5 HOH B 27 659 659 HOH HOH . G 5 HOH B 28 664 664 HOH HOH . G 5 HOH B 29 667 667 HOH HOH . G 5 HOH B 30 672 672 HOH HOH . G 5 HOH B 31 674 674 HOH HOH . G 5 HOH B 32 676 676 HOH HOH . G 5 HOH B 33 678 678 HOH HOH . G 5 HOH B 34 679 679 HOH HOH . G 5 HOH B 35 684 684 HOH HOH . G 5 HOH B 36 687 687 HOH HOH . G 5 HOH B 37 688 688 HOH HOH . G 5 HOH B 38 691 691 HOH HOH . G 5 HOH B 39 692 692 HOH HOH . G 5 HOH B 40 699 699 HOH HOH . G 5 HOH B 41 700 700 HOH HOH . G 5 HOH B 42 702 702 HOH HOH . G 5 HOH B 43 703 703 HOH HOH . G 5 HOH B 44 705 705 HOH HOH . G 5 HOH B 45 706 706 HOH HOH . G 5 HOH B 46 708 708 HOH HOH . G 5 HOH B 47 709 709 HOH HOH . G 5 HOH B 48 713 713 HOH HOH . G 5 HOH B 49 721 721 HOH HOH . G 5 HOH B 50 725 725 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 -8.828 _atom_site.Cartn_y -75.101 _atom_site.Cartn_z -13.377 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 19.51 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 800 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #