data_5L15 # _model_server_result.job_id 7uA61Vi0kjPJb_q30mZf2A _model_server_result.datetime_utc '2024-11-25 18:17:41' _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 5l15 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":511}' # _entry.id 5L15 # _exptl.entry_id 5L15 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 4 _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 90 _cell.entry_id 5L15 _cell.length_a 182.436 _cell.length_b 182.436 _cell.length_c 182.436 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L15 _symmetry.cell_setting ? _symmetry.Int_Tables_number 211 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 15_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 16_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 2 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 2 6 5 MAN MAN C1 O1 . O2 HO2 . sing 6 ? 2 7 3 MAN BMA C1 O1 . O6 HO6 . sing 7 ? 2 8 7 MAN MAN C1 O1 . O3 HO3 . sing 8 ? 2 9 7 MAN MAN C1 O1 . O6 HO6 . 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 NAG 1 B 1 NAG A 503 NAG 2 n B NAG 2 B 2 NAG A 504 NAG 2 n B BMA 3 B 3 BMA A 505 BMA 2 n B MAN 4 B 4 MAN A 506 MAN 2 n B MAN 5 B 5 MAN A 507 MAN 2 n B MAN 6 B 6 MAN A 508 MAN 2 n B MAN 7 B 7 MAN A 509 MAN 2 n B MAN 8 B 8 MAN A 511 MAN 2 n B MAN 9 B 9 MAN A 510 MAN # 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 20 A CYS 93 1_555 A SG CYS 346 A CYS 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 52 A CYS 125 1_555 A SG CYS 57 A CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 104 A CYS 177 1_555 A SG CYS 122 A CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 112 A CYS 185 1_555 A SG CYS 159 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 A SG CYS 161 A CYS 234 1_555 A SG CYS 166 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 207 A CYS 280 1_555 A SG CYS 220 A CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf7 A SG CYS 209 A CYS 282 1_555 A SG CYS 218 A CYS 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf8 A SG CYS 247 A CYS 320 1_555 A SG CYS 265 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 A SG CYS 350 A CYS 423 1_555 A SG CYS 376 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A ND2 ASN 74 A ASN 147 1_555 C C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 129 A ASN 202 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale4 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale6 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 B O2 MAN . B MAN 4 1_555 B C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale8 B O2 MAN . B MAN 5 1_555 B C1 MAN . B MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale9 B O3 MAN . B MAN 7 1_555 B C1 MAN . B MAN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale10 B O6 MAN . B MAN 7 1_555 B C1 MAN . B MAN 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 A O ASP 222 A ASP 295 1_555 D CA CA . A CA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc2 A O GLY 226 A GLY 299 1_555 D CA CA . A CA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc3 A OD2 ASP 253 A ASP 326 1_555 D CA CA . A CA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc4 A O ASN 275 A ASN 348 1_555 D CA CA . A CA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc5 D CA CA . A CA 511 1_555 F O HOH . A HOH 659 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? metalc ? metalc6 D CA CA . A CA 511 1_555 F O HOH . A HOH 684 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? # _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 5L15 _atom_sites.fract_transf_matrix[1][1] 0.005481 _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] 0.005481 _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] 0.005481 _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 NAG A 1 501 502 NAG NAG . D 4 CA A 1 511 512 CA CA . E 5 G39 A 1 512 800 G39 G39 . F 6 HOH A 1 601 38 HOH HOH . F 6 HOH A 2 602 142 HOH HOH . F 6 HOH A 3 603 110 HOH HOH . F 6 HOH A 4 604 42 HOH HOH . F 6 HOH A 5 605 5 HOH HOH . F 6 HOH A 6 606 76 HOH HOH . F 6 HOH A 7 607 28 HOH HOH . F 6 HOH A 8 608 106 HOH HOH . F 6 HOH A 9 609 49 HOH HOH . F 6 HOH A 10 610 47 HOH HOH . F 6 HOH A 11 611 53 HOH HOH . F 6 HOH A 12 612 8 HOH HOH . F 6 HOH A 13 613 33 HOH HOH . F 6 HOH A 14 614 128 HOH HOH . F 6 HOH A 15 615 15 HOH HOH . F 6 HOH A 16 616 132 HOH HOH . F 6 HOH A 17 617 9 HOH HOH . F 6 HOH A 18 618 23 HOH HOH . F 6 HOH A 19 619 150 HOH HOH . F 6 HOH A 20 620 1 HOH HOH . F 6 HOH A 21 621 21 HOH HOH . F 6 HOH A 22 622 6 HOH HOH . F 6 HOH A 23 623 19 HOH HOH . F 6 HOH A 24 624 125 HOH HOH . F 6 HOH A 25 625 41 HOH HOH . F 6 HOH A 26 626 69 HOH HOH . F 6 HOH A 27 627 14 HOH HOH . F 6 HOH A 28 628 43 HOH HOH . F 6 HOH A 29 629 36 HOH HOH . F 6 HOH A 30 630 26 HOH HOH . F 6 HOH A 31 631 67 HOH HOH . F 6 HOH A 32 632 92 HOH HOH . F 6 HOH A 33 633 66 HOH HOH . F 6 HOH A 34 634 88 HOH HOH . F 6 HOH A 35 635 30 HOH HOH . F 6 HOH A 36 636 39 HOH HOH . F 6 HOH A 37 637 55 HOH HOH . F 6 HOH A 38 638 81 HOH HOH . F 6 HOH A 39 639 71 HOH HOH . F 6 HOH A 40 640 3 HOH HOH . F 6 HOH A 41 641 84 HOH HOH . F 6 HOH A 42 642 60 HOH HOH . F 6 HOH A 43 643 100 HOH HOH . F 6 HOH A 44 644 59 HOH HOH . F 6 HOH A 45 645 68 HOH HOH . F 6 HOH A 46 646 54 HOH HOH . F 6 HOH A 47 647 133 HOH HOH . F 6 HOH A 48 648 130 HOH HOH . F 6 HOH A 49 649 16 HOH HOH . F 6 HOH A 50 650 58 HOH HOH . F 6 HOH A 51 651 13 HOH HOH . F 6 HOH A 52 652 4 HOH HOH . F 6 HOH A 53 653 99 HOH HOH . F 6 HOH A 54 654 35 HOH HOH . F 6 HOH A 55 655 52 HOH HOH . F 6 HOH A 56 656 124 HOH HOH . F 6 HOH A 57 657 120 HOH HOH . F 6 HOH A 58 658 97 HOH HOH . F 6 HOH A 59 659 10 HOH HOH . F 6 HOH A 60 660 78 HOH HOH . F 6 HOH A 61 661 18 HOH HOH . F 6 HOH A 62 662 20 HOH HOH . F 6 HOH A 63 663 32 HOH HOH . F 6 HOH A 64 664 119 HOH HOH . F 6 HOH A 65 665 89 HOH HOH . F 6 HOH A 66 666 12 HOH HOH . F 6 HOH A 67 667 51 HOH HOH . F 6 HOH A 68 668 2 HOH HOH . F 6 HOH A 69 669 46 HOH HOH . F 6 HOH A 70 670 129 HOH HOH . F 6 HOH A 71 671 75 HOH HOH . F 6 HOH A 72 672 145 HOH HOH . F 6 HOH A 73 673 31 HOH HOH . F 6 HOH A 74 674 25 HOH HOH . F 6 HOH A 75 675 27 HOH HOH . F 6 HOH A 76 676 127 HOH HOH . F 6 HOH A 77 677 101 HOH HOH . F 6 HOH A 78 678 29 HOH HOH . F 6 HOH A 79 679 86 HOH HOH . F 6 HOH A 80 680 87 HOH HOH . F 6 HOH A 81 681 24 HOH HOH . F 6 HOH A 82 682 37 HOH HOH . F 6 HOH A 83 683 108 HOH HOH . F 6 HOH A 84 684 40 HOH HOH . F 6 HOH A 85 685 91 HOH HOH . F 6 HOH A 86 686 48 HOH HOH . F 6 HOH A 87 687 82 HOH HOH . F 6 HOH A 88 688 122 HOH HOH . F 6 HOH A 89 689 103 HOH HOH . F 6 HOH A 90 690 44 HOH HOH . F 6 HOH A 91 691 115 HOH HOH . F 6 HOH A 92 692 56 HOH HOH . F 6 HOH A 93 693 114 HOH HOH . F 6 HOH A 94 694 111 HOH HOH . F 6 HOH A 95 695 45 HOH HOH . F 6 HOH A 96 696 104 HOH HOH . F 6 HOH A 97 697 22 HOH HOH . F 6 HOH A 98 698 64 HOH HOH . F 6 HOH A 99 699 61 HOH HOH . F 6 HOH A 100 700 80 HOH HOH . F 6 HOH A 101 701 96 HOH HOH . F 6 HOH A 102 702 83 HOH HOH . F 6 HOH A 103 703 95 HOH HOH . F 6 HOH A 104 704 144 HOH HOH . F 6 HOH A 105 705 141 HOH HOH . F 6 HOH A 106 706 131 HOH HOH . F 6 HOH A 107 707 74 HOH HOH . F 6 HOH A 108 708 57 HOH HOH . F 6 HOH A 109 709 11 HOH HOH . F 6 HOH A 110 710 139 HOH HOH . F 6 HOH A 111 711 63 HOH HOH . F 6 HOH A 112 712 34 HOH HOH . F 6 HOH A 113 713 118 HOH HOH . F 6 HOH A 114 714 17 HOH HOH . F 6 HOH A 115 715 93 HOH HOH . F 6 HOH A 116 716 62 HOH HOH . F 6 HOH A 117 717 136 HOH HOH . F 6 HOH A 118 718 65 HOH HOH . F 6 HOH A 119 719 112 HOH HOH . F 6 HOH A 120 720 94 HOH HOH . F 6 HOH A 121 721 143 HOH HOH . F 6 HOH A 122 722 105 HOH HOH . F 6 HOH A 123 723 113 HOH HOH . F 6 HOH A 124 724 72 HOH HOH . F 6 HOH A 125 725 137 HOH HOH . F 6 HOH A 126 726 73 HOH HOH . F 6 HOH A 127 727 7 HOH HOH . F 6 HOH A 128 728 126 HOH HOH . F 6 HOH A 129 729 85 HOH HOH . F 6 HOH A 130 730 98 HOH HOH . F 6 HOH A 131 731 149 HOH HOH . F 6 HOH A 132 732 152 HOH HOH . F 6 HOH A 133 733 102 HOH HOH . F 6 HOH A 134 734 148 HOH HOH . F 6 HOH A 135 735 138 HOH HOH . F 6 HOH A 136 736 140 HOH HOH . F 6 HOH A 137 737 147 HOH HOH . F 6 HOH A 138 738 77 HOH HOH . F 6 HOH A 139 739 134 HOH HOH . F 6 HOH A 140 740 107 HOH HOH . F 6 HOH A 141 741 135 HOH HOH . F 6 HOH A 142 742 123 HOH HOH . F 6 HOH A 143 743 79 HOH HOH . F 6 HOH A 144 744 121 HOH HOH . F 6 HOH A 145 745 151 HOH HOH . F 6 HOH A 146 746 70 HOH HOH . F 6 HOH A 147 747 117 HOH HOH . F 6 HOH A 148 748 90 HOH HOH . F 6 HOH A 149 749 50 HOH HOH . F 6 HOH A 150 750 109 HOH HOH . F 6 HOH A 151 751 146 HOH HOH . F 6 HOH A 152 752 116 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 4 _atom_site.Cartn_x 28.989 _atom_site.Cartn_y -29.6 _atom_site.Cartn_z -62.351 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 73.68 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 511 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #