data_3QVY # _model_server_result.job_id PbZ8beyRrqde1IsXLK-UXA _model_server_result.datetime_utc '2024-11-22 11:57:31' _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 3qvy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":500}' # _entry.id 3QVY # _exptl.entry_id 3QVY _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 13 _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 3QVY _cell.length_a 52.088 _cell.length_b 52.088 _cell.length_c 253.943 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QVY _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA _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 F N N ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N ? 3 L N N ? 3 M N N ? 3 N N N ? 3 P N N ? 3 R N N ? 3 S N N ? 3 T N N ? 3 W N 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 covale ? covale1 A SG CYS 82 A CYS 82 1_555 O CAG ME7 . C ME7 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? covale ? covale2 A SG CYS 98 A CYS 98 1_555 E CAB HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.858 ? covale ? covale3 A SG CYS 101 A CYS 101 1_555 E CAC HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.794 ? covale ? covale4 B SG CYS 82 B CYS 82 1_555 U CAE ME7 . D ME7 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.805 ? covale ? covale5 B SG CYS 98 B CYS 98 1_555 K CAB HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.832 ? covale ? covale6 B SG CYS 101 B CYS 101 1_555 K CAC HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.785 ? covale ? covale7 C SG CYS 82 C CYS 82 1_555 O CAE ME7 . C ME7 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.816 ? covale ? covale8 C SG CYS 98 C CYS 98 1_555 Q CAB HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.837 ? covale ? covale9 C SG CYS 101 C CYS 101 1_555 Q CAC HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.825 ? covale ? covale10 D SG CYS 82 D CYS 82 1_555 U CAH ME7 . D ME7 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.795 ? covale ? covale11 D SG CYS 98 D CYS 98 1_555 V CAB HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? covale ? covale12 D SG CYS 101 D CYS 101 1_555 V CAC HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? metalc ? metalc1 A O ALA 1 A ALA 1 1_555 G ZN ZN . A ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc2 A N ALA 1 A ALA 1 1_555 G ZN ZN . A ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc3 A OD1 ASP 2 A ASP 2 1_555 I ZN ZN . A ZN 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc4 A OE1 GLU 4 A GLU 4 1_555 H ZN ZN . A ZN 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc5 A OE2 GLU 4 A GLU 4 1_555 J ZN ZN . A ZN 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc6 A OD1 ASP 5 A ASP 5 1_555 I ZN ZN . A ZN 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc7 A SD MET 7 A MET 7 1_555 E FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc8 A OD2 ASP 39 A ASP 39 1_555 G ZN ZN . A ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc9 A NE2 HIS 63 A HIS 63 1_555 T ZN ZN . D ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc10 A NE2 HIS 73 A HIS 73 1_555 F ZN ZN . A ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? metalc ? metalc11 A OD2 ASP 74 A ASP 74 1_555 P ZN ZN . C ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.924 ? metalc ? metalc12 A NE2 HIS 77 A HIS 77 1_555 F ZN ZN . A ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc13 A NE2 HIS 102 A HIS 102 1_555 E FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? metalc ? metalc14 H ZN ZN . A ZN 108 1_555 E O2A HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc15 F ZN ZN . A ZN 500 1_555 C OD2 ASP 74 C ASP 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? metalc ? metalc16 F ZN ZN . A ZN 500 1_555 D NE2 HIS 63 D HIS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.782 ? metalc ? metalc17 B OE2 GLU 4 B GLU 4 1_555 M ZN ZN . B ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc18 B OE1 GLU 4 B GLU 4 1_555 M ZN ZN . B ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? metalc ? metalc19 B SD MET 7 B MET 7 1_555 K FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc20 B NE2 HIS 63 B HIS 63 1_555 P ZN ZN . C ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.827 ? metalc ? metalc21 B NE2 HIS 73 B HIS 73 1_555 L ZN ZN . B ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.828 ? metalc ? metalc22 B OD2 ASP 74 B ASP 74 1_555 T ZN ZN . D ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc23 B OD1 ASP 74 B ASP 74 1_555 T ZN ZN . D ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? metalc ? metalc24 B NE2 HIS 77 B HIS 77 1_555 L ZN ZN . B ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc25 B NE2 HIS 102 B HIS 102 1_555 K FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc26 M ZN ZN . B ZN 107 1_555 K O2A HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? metalc ? metalc27 L ZN ZN . B ZN 500 1_555 C NE2 HIS 63 C HIS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc28 L ZN ZN . B ZN 500 1_555 D OD2 ASP 74 D ASP 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? metalc ? metalc29 L ZN ZN . B ZN 500 1_555 D OD1 ASP 74 D ASP 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? metalc ? metalc30 C N ALA 1 C ALA 1 1_555 R ZN ZN . C ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.896 ? metalc ? metalc31 C O ALA 1 C ALA 1 1_555 R ZN ZN . C ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc32 C SD MET 7 C MET 7 1_555 Q FE HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc33 C OE1 GLU 8 C GLU 8 1_555 S ZN ZN . C ZN 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.702 ? metalc ? metalc34 C OD2 ASP 12 C ASP 12 1_555 S ZN ZN . C ZN 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc35 C OD2 ASP 39 C ASP 39 1_555 R ZN ZN . C ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc36 C NE2 HIS 73 C HIS 73 1_555 P ZN ZN . C ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc37 C NE2 HIS 77 C HIS 77 1_555 P ZN ZN . C ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc38 C NE2 HIS 102 C HIS 102 1_555 Q FE HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? metalc ? metalc39 D OE2 GLU 4 D GLU 4 1_555 W ZN ZN . D ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc40 D OE1 GLU 4 D GLU 4 1_555 W ZN ZN . D ZN 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc41 D SD MET 7 D MET 7 1_555 V FE HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc42 D NE2 HIS 73 D HIS 73 1_555 T ZN ZN . D ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.864 ? metalc ? metalc43 D NE2 HIS 77 D HIS 77 1_555 T ZN ZN . D ZN 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc44 D NE2 HIS 102 D HIS 102 1_555 V FE HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc45 W ZN ZN . D ZN 107 1_555 V O2A HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? # _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 3QVY _atom_sites.fract_transf_matrix[1][1] 0.019198 _atom_sites.fract_transf_matrix[1][2] 0.011084 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022168 _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] 0.003938 _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 2 HEM A 1 150 150 HEM HEM . F 3 ZN A 1 500 500 ZN ZN . G 3 ZN A 1 107 107 ZN ZN . H 3 ZN A 1 108 108 ZN ZN . I 3 ZN A 1 109 109 ZN ZN . J 3 ZN A 1 110 110 ZN ZN . K 2 HEM B 1 150 150 HEM HEM . L 3 ZN B 1 500 500 ZN ZN . M 3 ZN B 1 107 107 ZN ZN . N 3 ZN B 1 108 108 ZN ZN . O 4 ME7 C 1 501 501 ME7 ME7 . P 3 ZN C 1 500 500 ZN ZN . Q 2 HEM C 1 150 150 HEM HEM . R 3 ZN C 1 107 107 ZN ZN . S 3 ZN C 1 108 108 ZN ZN . T 3 ZN D 1 500 500 ZN ZN . U 4 ME7 D 1 501 501 ME7 ME7 . V 2 HEM D 1 150 150 HEM HEM . W 3 ZN D 1 107 107 ZN ZN . X 5 HOH A 1 111 111 HOH HOH . X 5 HOH A 2 112 112 HOH HOH . X 5 HOH A 3 113 113 HOH HOH . X 5 HOH A 4 114 114 HOH HOH . X 5 HOH A 5 115 115 HOH HOH . X 5 HOH A 6 116 116 HOH HOH . X 5 HOH A 7 117 117 HOH HOH . X 5 HOH A 8 118 118 HOH HOH . Y 5 HOH B 1 109 109 HOH HOH . Y 5 HOH B 2 110 110 HOH HOH . Y 5 HOH B 3 111 111 HOH HOH . Z 5 HOH C 1 109 109 HOH HOH . Z 5 HOH C 2 110 110 HOH HOH . Z 5 HOH C 3 111 111 HOH HOH . Z 5 HOH C 4 112 112 HOH HOH . Z 5 HOH C 5 113 113 HOH HOH . Z 5 HOH C 6 114 114 HOH HOH . Z 5 HOH C 7 115 115 HOH HOH . Z 5 HOH C 8 116 116 HOH HOH . AA 5 HOH D 1 108 108 HOH HOH . AA 5 HOH D 2 109 109 HOH HOH . AA 5 HOH D 3 110 110 HOH HOH . AA 5 HOH D 4 111 111 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 L _atom_site.label_entity_id 3 _atom_site.Cartn_x -9.488 _atom_site.Cartn_y 22.258 _atom_site.Cartn_z -2.422 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 25.29 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 500 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #