data_5UDY # _model_server_result.job_id 1kL3Ay9IzNtv5_GdeGV_Kw _model_server_result.datetime_utc '2024-12-21 17:11:29' _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 5udy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 5UDY # _exptl.entry_id 5UDY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC 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 120 _cell.entry_id 5UDY _cell.length_a 103.246 _cell.length_b 103.246 _cell.length_c 113.554 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UDY _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA _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 ? 4 E N N ? 4 F N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 1 FUC NAG 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 C 2 NAG 2 n B NAG 2 B 2 NAG C 5 NAG 2 n C NAG 1 C 1 NAG C 3 NAG 2 n C NAG 2 C 2 NAG C 6 NAG 3 n D NAG 1 D 1 NAG C 4 NAG 3 n D NAG 2 D 2 NAG C 7 NAG 3 n D FUC 3 D 3 FUC E 1 FUC # 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 A ND2 ASN 89 A ASN 100 1_555 G C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 A ND2 ASN 110 A ASN 121 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale3 A ND2 ASN 135 A ASN 146 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale4 A ND2 ASN 157 A ASN 168 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale5 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A OD1 ASP 28 A ASP 39 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc2 A O ASP 35 A ASP 46 1_555 H NA NA . A NA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc3 A O VAL 38 A VAL 49 1_555 H NA NA . A NA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc4 A OG1 THR 40 A THR 51 1_555 H NA NA . A NA 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc5 A OG1 THR 64 A THR 75 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? metalc ? metalc6 A OD1 ASP 188 A ASP 199 1_555 F ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? metalc ? metalc7 A OD2 ASP 188 A ASP 199 1_555 F ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc8 A NE2 HIS 192 A HIS 203 1_555 F ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc9 A OD2 ASP 235 A ASP 246 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.88 ? metalc ? metalc10 A NE2 HIS 236 A HIS 247 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc11 A NE2 HIS 342 A HIS 353 1_555 F ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc12 F ZN ZN . A ZN 502 1_555 HA O HOH . A HOH 752 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc13 H NA NA . A NA 511 1_555 HA O HOH . A HOH 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc14 H NA NA . A NA 511 1_555 HA O HOH . A HOH 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? metalc ? metalc15 H NA NA . A NA 511 1_555 HA O HOH . A HOH 725 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? # _chem_comp.formula 'Zn 2' _chem_comp.formula_weight 65.409 _chem_comp.id ZN _chem_comp.mon_nstd_flag . _chem_comp.name 'ZINC ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5UDY _atom_sites.fract_transf_matrix[1][1] 0.009686 _atom_sites.fract_transf_matrix[1][2] 0.005592 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011184 _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] 0.008806 _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 E 4 ZN A 1 501 1 ZN ZN . F 4 ZN A 1 502 2 ZN ZN . G 5 NAG A 1 503 1 NAG NAG . H 6 NA A 1 511 1 NA NA . I 7 IOD A 1 512 1 IOD IOD . J 7 IOD A 1 513 2 IOD IOD . K 7 IOD A 1 514 3 IOD IOD . L 7 IOD A 1 515 4 IOD IOD . M 7 IOD A 1 516 5 IOD IOD . N 7 IOD A 1 517 6 IOD IOD . O 7 IOD A 1 518 7 IOD IOD . P 7 IOD A 1 519 8 IOD IOD . Q 7 IOD A 1 520 9 IOD IOD . R 7 IOD A 1 521 10 IOD IOD . S 7 IOD A 1 522 11 IOD IOD . T 7 IOD A 1 523 12 IOD IOD . U 7 IOD A 1 524 13 IOD IOD . V 7 IOD A 1 525 14 IOD IOD . W 7 IOD A 1 526 15 IOD IOD . X 7 IOD A 1 527 16 IOD IOD . Y 7 IOD A 1 528 17 IOD IOD . Z 7 IOD A 1 529 18 IOD IOD . AA 7 IOD A 1 530 19 IOD IOD . BA 7 IOD A 1 531 20 IOD IOD . CA 7 IOD A 1 532 21 IOD IOD . DA 7 IOD A 1 533 22 IOD IOD . EA 7 IOD A 1 534 23 IOD IOD . FA 7 IOD A 1 535 24 IOD IOD . GA 7 IOD A 1 536 25 IOD IOD . HA 8 HOH A 1 601 143 HOH HOH . HA 8 HOH A 2 602 16 HOH HOH . HA 8 HOH A 3 603 145 HOH HOH . HA 8 HOH A 4 604 9 HOH HOH . HA 8 HOH A 5 605 78 HOH HOH . HA 8 HOH A 6 606 22 HOH HOH . HA 8 HOH A 7 607 95 HOH HOH . HA 8 HOH A 8 608 54 HOH HOH . HA 8 HOH A 9 609 37 HOH HOH . HA 8 HOH A 10 610 163 HOH HOH . HA 8 HOH A 11 611 65 HOH HOH . HA 8 HOH A 12 612 17 HOH HOH . HA 8 HOH A 13 613 133 HOH HOH . HA 8 HOH A 14 614 72 HOH HOH . HA 8 HOH A 15 615 50 HOH HOH . HA 8 HOH A 16 616 4 HOH HOH . HA 8 HOH A 17 617 30 HOH HOH . HA 8 HOH A 18 618 82 HOH HOH . HA 8 HOH A 19 619 11 HOH HOH . HA 8 HOH A 20 620 150 HOH HOH . HA 8 HOH A 21 621 147 HOH HOH . HA 8 HOH A 22 622 20 HOH HOH . HA 8 HOH A 23 623 46 HOH HOH . HA 8 HOH A 24 624 32 HOH HOH . HA 8 HOH A 25 625 33 HOH HOH . HA 8 HOH A 26 626 57 HOH HOH . HA 8 HOH A 27 627 75 HOH HOH . HA 8 HOH A 28 628 91 HOH HOH . HA 8 HOH A 29 629 7 HOH HOH . HA 8 HOH A 30 630 115 HOH HOH . HA 8 HOH A 31 631 137 HOH HOH . HA 8 HOH A 32 632 5 HOH HOH . HA 8 HOH A 33 633 138 HOH HOH . HA 8 HOH A 34 634 118 HOH HOH . HA 8 HOH A 35 635 10 HOH HOH . HA 8 HOH A 36 636 101 HOH HOH . HA 8 HOH A 37 637 14 HOH HOH . HA 8 HOH A 38 638 60 HOH HOH . HA 8 HOH A 39 639 24 HOH HOH . HA 8 HOH A 40 640 125 HOH HOH . HA 8 HOH A 41 641 88 HOH HOH . HA 8 HOH A 42 642 129 HOH HOH . HA 8 HOH A 43 643 110 HOH HOH . HA 8 HOH A 44 644 97 HOH HOH . HA 8 HOH A 45 645 52 HOH HOH . HA 8 HOH A 46 646 92 HOH HOH . HA 8 HOH A 47 647 34 HOH HOH . HA 8 HOH A 48 648 41 HOH HOH . HA 8 HOH A 49 649 61 HOH HOH . HA 8 HOH A 50 650 102 HOH HOH . HA 8 HOH A 51 651 49 HOH HOH . HA 8 HOH A 52 652 8 HOH HOH . HA 8 HOH A 53 653 89 HOH HOH . HA 8 HOH A 54 654 148 HOH HOH . HA 8 HOH A 55 655 69 HOH HOH . HA 8 HOH A 56 656 45 HOH HOH . HA 8 HOH A 57 657 18 HOH HOH . HA 8 HOH A 58 658 51 HOH HOH . HA 8 HOH A 59 659 74 HOH HOH . HA 8 HOH A 60 660 116 HOH HOH . HA 8 HOH A 61 661 12 HOH HOH . HA 8 HOH A 62 662 31 HOH HOH . HA 8 HOH A 63 663 111 HOH HOH . HA 8 HOH A 64 664 59 HOH HOH . HA 8 HOH A 65 665 63 HOH HOH . HA 8 HOH A 66 666 117 HOH HOH . HA 8 HOH A 67 667 28 HOH HOH . HA 8 HOH A 68 668 87 HOH HOH . HA 8 HOH A 69 669 144 HOH HOH . HA 8 HOH A 70 670 66 HOH HOH . HA 8 HOH A 71 671 77 HOH HOH . HA 8 HOH A 72 672 19 HOH HOH . HA 8 HOH A 73 673 26 HOH HOH . HA 8 HOH A 74 674 15 HOH HOH . HA 8 HOH A 75 675 29 HOH HOH . HA 8 HOH A 76 676 93 HOH HOH . HA 8 HOH A 77 677 43 HOH HOH . HA 8 HOH A 78 678 122 HOH HOH . HA 8 HOH A 79 679 156 HOH HOH . HA 8 HOH A 80 680 94 HOH HOH . HA 8 HOH A 81 681 136 HOH HOH . HA 8 HOH A 82 682 121 HOH HOH . HA 8 HOH A 83 683 130 HOH HOH . HA 8 HOH A 84 684 70 HOH HOH . HA 8 HOH A 85 685 47 HOH HOH . HA 8 HOH A 86 686 56 HOH HOH . HA 8 HOH A 87 687 113 HOH HOH . HA 8 HOH A 88 688 13 HOH HOH . HA 8 HOH A 89 689 109 HOH HOH . HA 8 HOH A 90 690 67 HOH HOH . HA 8 HOH A 91 691 39 HOH HOH . HA 8 HOH A 92 692 23 HOH HOH . HA 8 HOH A 93 693 44 HOH HOH . HA 8 HOH A 94 694 42 HOH HOH . HA 8 HOH A 95 695 35 HOH HOH . HA 8 HOH A 96 696 1 HOH HOH . HA 8 HOH A 97 697 27 HOH HOH . HA 8 HOH A 98 698 141 HOH HOH . HA 8 HOH A 99 699 149 HOH HOH . HA 8 HOH A 100 700 83 HOH HOH . HA 8 HOH A 101 701 21 HOH HOH . HA 8 HOH A 102 702 104 HOH HOH . HA 8 HOH A 103 703 48 HOH HOH . HA 8 HOH A 104 704 108 HOH HOH . HA 8 HOH A 105 705 3 HOH HOH . HA 8 HOH A 106 706 85 HOH HOH . HA 8 HOH A 107 707 158 HOH HOH . HA 8 HOH A 108 708 154 HOH HOH . HA 8 HOH A 109 709 68 HOH HOH . HA 8 HOH A 110 710 6 HOH HOH . HA 8 HOH A 111 711 98 HOH HOH . HA 8 HOH A 112 712 84 HOH HOH . HA 8 HOH A 113 713 90 HOH HOH . HA 8 HOH A 114 714 62 HOH HOH . HA 8 HOH A 115 715 36 HOH HOH . HA 8 HOH A 116 716 71 HOH HOH . HA 8 HOH A 117 717 64 HOH HOH . HA 8 HOH A 118 718 152 HOH HOH . HA 8 HOH A 119 719 55 HOH HOH . HA 8 HOH A 120 720 107 HOH HOH . HA 8 HOH A 121 721 155 HOH HOH . HA 8 HOH A 122 722 103 HOH HOH . HA 8 HOH A 123 723 139 HOH HOH . HA 8 HOH A 124 724 132 HOH HOH . HA 8 HOH A 125 725 58 HOH HOH . HA 8 HOH A 126 726 99 HOH HOH . HA 8 HOH A 127 727 38 HOH HOH . HA 8 HOH A 128 728 96 HOH HOH . HA 8 HOH A 129 729 140 HOH HOH . HA 8 HOH A 130 730 159 HOH HOH . HA 8 HOH A 131 731 120 HOH HOH . HA 8 HOH A 132 732 25 HOH HOH . HA 8 HOH A 133 733 153 HOH HOH . HA 8 HOH A 134 734 73 HOH HOH . HA 8 HOH A 135 735 114 HOH HOH . HA 8 HOH A 136 736 112 HOH HOH . HA 8 HOH A 137 737 123 HOH HOH . HA 8 HOH A 138 738 124 HOH HOH . HA 8 HOH A 139 739 160 HOH HOH . HA 8 HOH A 140 740 80 HOH HOH . HA 8 HOH A 141 741 81 HOH HOH . HA 8 HOH A 142 742 151 HOH HOH . HA 8 HOH A 143 743 135 HOH HOH . HA 8 HOH A 144 744 142 HOH HOH . HA 8 HOH A 145 745 100 HOH HOH . HA 8 HOH A 146 746 86 HOH HOH . HA 8 HOH A 147 747 40 HOH HOH . HA 8 HOH A 148 748 126 HOH HOH . HA 8 HOH A 149 749 53 HOH HOH . HA 8 HOH A 150 750 161 HOH HOH . HA 8 HOH A 151 751 157 HOH HOH . HA 8 HOH A 152 752 2 HOH HOH . HA 8 HOH A 153 753 119 HOH HOH . HA 8 HOH A 154 754 105 HOH HOH . HA 8 HOH A 155 755 128 HOH HOH . HA 8 HOH A 156 756 127 HOH HOH . HA 8 HOH A 157 757 134 HOH HOH . HA 8 HOH A 158 758 106 HOH HOH . HA 8 HOH A 159 759 146 HOH HOH . HA 8 HOH A 160 760 76 HOH HOH . HA 8 HOH A 161 761 131 HOH HOH . HA 8 HOH A 162 762 79 HOH HOH . HA 8 HOH A 163 763 162 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol ZN _atom_site.label_atom_id ZN _atom_site.label_comp_id ZN _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 4 _atom_site.Cartn_x 56.911 _atom_site.Cartn_y -14.169 _atom_site.Cartn_z 142.608 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 27.52 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 501 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #