data_5VH5 # _model_server_result.job_id 22f6JDd0H2m4n4zqzDUNHg _model_server_result.datetime_utc '2024-10-19 16:28:33' _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 5vh5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 5VH5 # _exptl.entry_id 5VH5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _entity.pdbx_number_of_molecules 3 _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 5VH5 _cell.length_a 50.16 _cell.length_b 148.03 _cell.length_c 75.9 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VH5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 1,2 # 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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -37.95 # 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 ? 3 E 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 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 . O6 HO6 . sing 4 ? 2 5 4 NAG MAN C1 O1 . O2 HO2 . sing 5 ? 2 6 5 GAL NAG C1 O1 . O4 HO4 . sing 6 ? 2 7 3 MAN BMA C1 O1 . O3 HO3 . sing 7 ? 2 8 1 FUL 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 A 1001 NAG 2 n B NAG 2 B 2 NAG A 1002 NAG 2 n B BMA 3 B 3 BMA A 1003 BMA 2 n B MAN 4 B 4 MAN A 1004 MAN 2 n B NAG 5 B 5 NAG A 1005 NAG 2 n B GAL 6 B 6 GAL A 1006 GAL 2 n B MAN 7 B 7 MAN A 1008 MAN 2 n B FUL 8 B 8 FUL A 1011 FUL # 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 69 A CYS 264 1_555 A SG CYS 129 A CYS 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 A SG CYS 175 A CYS 370 1_555 A SG CYS 233 A CYS 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? covale ? covale1 A ND2 ASN 105 A ASN 300 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale3 B O6 NAG . B NAG 1 1_555 B C1 FUL . B FUL 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale4 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale5 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 B O2 MAN . B MAN 4 1_555 B C1 NAG . B NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale8 B O4 NAG . B NAG 5 1_555 B C1 GAL . B GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A NE2 HIS 76 A HIS 271 1_555 D ZN ZN . A ZN 502 8_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc2 A ND1 HIS 93 A HIS 288 1_555 D ZN ZN . A ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc3 A NE2 HIS 118 A HIS 313 1_555 C ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc4 A OE1 GLU 126 A GLU 321 1_555 E ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc5 A OE2 GLU 126 A GLU 321 1_555 E ZN ZN . A ZN 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc6 A OE1 GLU 126 A GLU 321 1_555 E ZN ZN . A ZN 503 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.575 ? metalc ? metalc7 A OE2 GLU 126 A GLU 321 1_555 E ZN ZN . A ZN 503 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc8 A NE2 HIS 243 A HIS 438 1_555 C ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc9 C ZN ZN . A ZN 501 1_555 F O ACT . A ACT 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc10 C ZN ZN . A ZN 501 1_555 F OXT ACT . A ACT 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc11 C ZN ZN . A ZN 501 1_555 G O HOH . A HOH 630 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc12 D ZN ZN . A ZN 502 1_555 G O HOH . A HOH 605 8_455 ? ? ? ? ? ? ? ? ? ? ? ? 1.779 ? metalc ? metalc13 D ZN ZN . A ZN 502 1_555 G O HOH . A HOH 754 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.849 ? metalc ? metalc14 E ZN ZN . A ZN 503 1_555 G O HOH . A HOH 732 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? # _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 5VH5 _atom_sites.fract_transf_matrix[1][1] 0.019936 _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] 0.006755 _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] 0.013175 _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 ZN A 1 501 501 ZN ZN . D 3 ZN A 1 502 502 ZN ZN . E 3 ZN A 1 503 503 ZN ZN . F 4 ACT A 1 504 601 ACT ACT . G 5 HOH A 1 601 22 HOH HOH . G 5 HOH A 2 602 168 HOH HOH . G 5 HOH A 3 603 178 HOH HOH . G 5 HOH A 4 604 189 HOH HOH . G 5 HOH A 5 605 187 HOH HOH . G 5 HOH A 6 606 165 HOH HOH . G 5 HOH A 7 607 70 HOH HOH . G 5 HOH A 8 608 166 HOH HOH . G 5 HOH A 9 609 179 HOH HOH . G 5 HOH A 10 610 156 HOH HOH . G 5 HOH A 11 611 148 HOH HOH . G 5 HOH A 12 612 163 HOH HOH . G 5 HOH A 13 613 202 HOH HOH . G 5 HOH A 14 614 99 HOH HOH . G 5 HOH A 15 615 83 HOH HOH . G 5 HOH A 16 616 171 HOH HOH . G 5 HOH A 17 617 194 HOH HOH . G 5 HOH A 18 618 170 HOH HOH . G 5 HOH A 19 619 82 HOH HOH . G 5 HOH A 20 620 106 HOH HOH . G 5 HOH A 21 621 128 HOH HOH . G 5 HOH A 22 622 84 HOH HOH . G 5 HOH A 23 623 108 HOH HOH . G 5 HOH A 24 624 62 HOH HOH . G 5 HOH A 25 625 89 HOH HOH . G 5 HOH A 26 626 64 HOH HOH . G 5 HOH A 27 627 68 HOH HOH . G 5 HOH A 28 628 198 HOH HOH . G 5 HOH A 29 629 113 HOH HOH . G 5 HOH A 30 630 136 HOH HOH . G 5 HOH A 31 631 78 HOH HOH . G 5 HOH A 32 632 63 HOH HOH . G 5 HOH A 33 633 58 HOH HOH . G 5 HOH A 34 634 45 HOH HOH . G 5 HOH A 35 635 169 HOH HOH . G 5 HOH A 36 636 18 HOH HOH . G 5 HOH A 37 637 104 HOH HOH . G 5 HOH A 38 638 103 HOH HOH . G 5 HOH A 39 639 167 HOH HOH . G 5 HOH A 40 640 100 HOH HOH . G 5 HOH A 41 641 86 HOH HOH . G 5 HOH A 42 642 21 HOH HOH . G 5 HOH A 43 643 131 HOH HOH . G 5 HOH A 44 644 150 HOH HOH . G 5 HOH A 45 645 160 HOH HOH . G 5 HOH A 46 646 97 HOH HOH . G 5 HOH A 47 647 16 HOH HOH . G 5 HOH A 48 648 133 HOH HOH . G 5 HOH A 49 649 34 HOH HOH . G 5 HOH A 50 650 123 HOH HOH . G 5 HOH A 51 651 143 HOH HOH . G 5 HOH A 52 652 20 HOH HOH . G 5 HOH A 53 653 12 HOH HOH . G 5 HOH A 54 654 65 HOH HOH . G 5 HOH A 55 655 119 HOH HOH . G 5 HOH A 56 656 39 HOH HOH . G 5 HOH A 57 657 6 HOH HOH . G 5 HOH A 58 658 3 HOH HOH . G 5 HOH A 59 659 61 HOH HOH . G 5 HOH A 60 660 42 HOH HOH . G 5 HOH A 61 661 56 HOH HOH . G 5 HOH A 62 662 32 HOH HOH . G 5 HOH A 63 663 2 HOH HOH . G 5 HOH A 64 664 164 HOH HOH . G 5 HOH A 65 665 23 HOH HOH . G 5 HOH A 66 666 96 HOH HOH . G 5 HOH A 67 667 4 HOH HOH . G 5 HOH A 68 668 24 HOH HOH . G 5 HOH A 69 669 94 HOH HOH . G 5 HOH A 70 670 9 HOH HOH . G 5 HOH A 71 671 29 HOH HOH . G 5 HOH A 72 672 46 HOH HOH . G 5 HOH A 73 673 180 HOH HOH . G 5 HOH A 74 674 11 HOH HOH . G 5 HOH A 75 675 188 HOH HOH . G 5 HOH A 76 676 157 HOH HOH . G 5 HOH A 77 677 144 HOH HOH . G 5 HOH A 78 678 40 HOH HOH . G 5 HOH A 79 679 49 HOH HOH . G 5 HOH A 80 680 115 HOH HOH . G 5 HOH A 81 681 15 HOH HOH . G 5 HOH A 82 682 14 HOH HOH . G 5 HOH A 83 683 31 HOH HOH . G 5 HOH A 84 684 159 HOH HOH . G 5 HOH A 85 685 77 HOH HOH . G 5 HOH A 86 686 50 HOH HOH . G 5 HOH A 87 687 184 HOH HOH . G 5 HOH A 88 688 105 HOH HOH . G 5 HOH A 89 689 47 HOH HOH . G 5 HOH A 90 690 59 HOH HOH . G 5 HOH A 91 691 141 HOH HOH . G 5 HOH A 92 692 91 HOH HOH . G 5 HOH A 93 693 5 HOH HOH . G 5 HOH A 94 694 110 HOH HOH . G 5 HOH A 95 695 13 HOH HOH . G 5 HOH A 96 696 8 HOH HOH . G 5 HOH A 97 697 127 HOH HOH . G 5 HOH A 98 698 158 HOH HOH . G 5 HOH A 99 699 130 HOH HOH . G 5 HOH A 100 700 43 HOH HOH . G 5 HOH A 101 701 1 HOH HOH . G 5 HOH A 102 702 199 HOH HOH . G 5 HOH A 103 703 53 HOH HOH . G 5 HOH A 104 704 60 HOH HOH . G 5 HOH A 105 705 80 HOH HOH . G 5 HOH A 106 706 19 HOH HOH . G 5 HOH A 107 707 41 HOH HOH . G 5 HOH A 108 708 196 HOH HOH . G 5 HOH A 109 709 101 HOH HOH . G 5 HOH A 110 710 95 HOH HOH . G 5 HOH A 111 711 44 HOH HOH . G 5 HOH A 112 712 75 HOH HOH . G 5 HOH A 113 713 35 HOH HOH . G 5 HOH A 114 714 25 HOH HOH . G 5 HOH A 115 715 38 HOH HOH . G 5 HOH A 116 716 37 HOH HOH . G 5 HOH A 117 717 67 HOH HOH . G 5 HOH A 118 718 102 HOH HOH . G 5 HOH A 119 719 57 HOH HOH . G 5 HOH A 120 720 138 HOH HOH . G 5 HOH A 121 721 10 HOH HOH . G 5 HOH A 122 722 190 HOH HOH . G 5 HOH A 123 723 27 HOH HOH . G 5 HOH A 124 724 76 HOH HOH . G 5 HOH A 125 725 55 HOH HOH . G 5 HOH A 126 726 107 HOH HOH . G 5 HOH A 127 727 161 HOH HOH . G 5 HOH A 128 728 30 HOH HOH . G 5 HOH A 129 729 197 HOH HOH . G 5 HOH A 130 730 17 HOH HOH . G 5 HOH A 131 731 74 HOH HOH . G 5 HOH A 132 732 183 HOH HOH . G 5 HOH A 133 733 81 HOH HOH . G 5 HOH A 134 734 51 HOH HOH . G 5 HOH A 135 735 177 HOH HOH . G 5 HOH A 136 736 147 HOH HOH . G 5 HOH A 137 737 28 HOH HOH . G 5 HOH A 138 738 33 HOH HOH . G 5 HOH A 139 739 201 HOH HOH . G 5 HOH A 140 740 112 HOH HOH . G 5 HOH A 141 741 193 HOH HOH . G 5 HOH A 142 742 117 HOH HOH . G 5 HOH A 143 743 182 HOH HOH . G 5 HOH A 144 744 146 HOH HOH . G 5 HOH A 145 745 154 HOH HOH . G 5 HOH A 146 746 79 HOH HOH . G 5 HOH A 147 747 111 HOH HOH . G 5 HOH A 148 748 71 HOH HOH . G 5 HOH A 149 749 92 HOH HOH . G 5 HOH A 150 750 155 HOH HOH . G 5 HOH A 151 751 195 HOH HOH . G 5 HOH A 152 752 137 HOH HOH . G 5 HOH A 153 753 139 HOH HOH . G 5 HOH A 154 754 186 HOH HOH . G 5 HOH A 155 755 191 HOH HOH . G 5 HOH A 156 756 69 HOH HOH . G 5 HOH A 157 757 90 HOH HOH . G 5 HOH A 158 758 116 HOH HOH . G 5 HOH A 159 759 120 HOH HOH . G 5 HOH A 160 760 140 HOH HOH . G 5 HOH A 161 761 174 HOH HOH . G 5 HOH A 162 762 54 HOH HOH . G 5 HOH A 163 763 122 HOH HOH . G 5 HOH A 164 764 200 HOH HOH . G 5 HOH A 165 765 185 HOH HOH . G 5 HOH A 166 766 125 HOH HOH . G 5 HOH A 167 767 162 HOH HOH . G 5 HOH A 168 768 129 HOH HOH . G 5 HOH A 169 769 145 HOH HOH . G 5 HOH A 170 770 88 HOH HOH . G 5 HOH A 171 771 98 HOH HOH . G 5 HOH A 172 772 151 HOH HOH . G 5 HOH A 173 773 114 HOH HOH . G 5 HOH A 174 774 192 HOH HOH . G 5 HOH A 175 775 175 HOH HOH . G 5 HOH A 176 776 126 HOH HOH . G 5 HOH A 177 777 121 HOH HOH . G 5 HOH A 178 778 173 HOH HOH . G 5 HOH A 179 779 52 HOH HOH . G 5 HOH A 180 780 26 HOH HOH . G 5 HOH A 181 781 109 HOH HOH . G 5 HOH A 182 782 93 HOH HOH . G 5 HOH A 183 783 73 HOH HOH . G 5 HOH A 184 784 172 HOH HOH . G 5 HOH A 185 785 48 HOH HOH . G 5 HOH A 186 786 153 HOH HOH . G 5 HOH A 187 787 176 HOH HOH . G 5 HOH A 188 788 152 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 D _atom_site.label_entity_id 3 _atom_site.Cartn_x -3.216 _atom_site.Cartn_y 29.507 _atom_site.Cartn_z -0.021 _atom_site.occupancy 0.67 _atom_site.B_iso_or_equiv 35.72 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 502 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 1 #