data_9HVK # _model_server_result.job_id GYDe-5SHd6FqvXKn6EsfWQ _model_server_result.datetime_utc '2025-08-05 10:39:14' _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 9hvk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":805}' # _entry.id 9HVK # _exptl.entry_id 9HVK _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 65.409 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _entity.pdbx_number_of_molecules 4 _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 9HVK _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9HVK _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 ? 8 Q N N ? 8 R N N ? 8 X N N ? 8 Y N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 oligosaccharide 6 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 6 4 3 MAN BMA C1 O1 . O3 HO3 . sing 7 ? 6 5 3 MAN BMA 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 4 n G NAG 1 B 1 NAG B 1 NAG 4 n G NAG 2 B 2 NAG B 2 NAG 4 n H NAG 1 C 1 NAG B 3 NAG 4 n H NAG 2 C 2 NAG B 4 NAG 5 n I NAG 1 D 1 NAG C 1 NAG 5 n I NAG 2 D 2 NAG C 2 NAG 5 n I BMA 3 D 3 BMA C 3 BMA 6 n J NAG 1 F 1 NAG D 1 NAG 6 n J NAG 2 F 2 NAG D 2 NAG 6 n J BMA 3 F 3 BMA D 3 BMA 6 n J MAN 4 F 4 MAN D 4 MAN 6 n J MAN 5 F 5 MAN D 5 MAN 5 n K NAG 1 G 1 NAG F 1 NAG 5 n K NAG 2 G 2 NAG F 2 NAG 5 n K BMA 3 G 3 BMA F 3 BMA 6 n L NAG 1 I 1 NAG G 1 NAG 6 n L NAG 2 I 2 NAG G 2 NAG 6 n L BMA 3 I 3 BMA G 3 BMA 6 n L MAN 4 I 4 MAN G 4 MAN 6 n L MAN 5 I 5 MAN G 5 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 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 C SG CYS 101 H CYS 101 1_555 C SG CYS 104 H CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 D SG CYS 22 Q CYS 22 1_555 D SG CYS 96 Q CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 D SG CYS 101 Q CYS 101 1_555 D SG CYS 104 Q CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 F SG CYS 21 M CYS 22 1_555 F SG CYS 95 M CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 G O4 NAG . B NAG 1 1_555 G C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 H O4 NAG . C NAG 1 1_555 H C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 I O4 NAG . D NAG 1 1_555 I C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 I O4 NAG . D NAG 2 1_555 I C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale5 J O4 NAG . F NAG 1 1_555 J C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale6 J O4 NAG . F NAG 2 1_555 J C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale7 J O3 BMA . F BMA 3 1_555 J C1 MAN . F MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale8 J O6 BMA . F BMA 3 1_555 J C1 MAN . F MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 K O4 NAG . G NAG 1 1_555 K C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale10 K O4 NAG . G NAG 2 1_555 K C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale11 L O4 NAG . I NAG 1 1_555 L C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale12 L O4 NAG . I NAG 2 1_555 L C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 L O3 BMA . I BMA 3 1_555 L C1 MAN . I MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale14 L O6 BMA . I BMA 3 1_555 L C1 MAN . I MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? metalc ? metalc1 A O ARG 200 A ARG 255 1_555 Q ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc2 A O THR 214 A THR 269 1_555 S CA CA . A CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc3 A OG1 THR 214 A THR 269 1_555 S CA CA . A CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? metalc ? metalc4 A O TYR 217 A TYR 272 1_555 S CA CA . A CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? metalc ? metalc5 A NE2 HIS 322 A HIS 377 1_555 R ZN ZN . A ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc6 A OD1 ASP 332 A ASP 387 1_555 R ZN ZN . A ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc7 A OE1 GLU 378 A GLU 433 1_555 S CA CA . A CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc8 A OE2 GLU 378 A GLU 433 1_555 S CA CA . A CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc9 A OE1 GLU 381 A GLU 436 1_555 S CA CA . A CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc10 A OD2 ASP 398 A ASP 453 1_555 R ZN ZN . A ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc11 A ND1 HIS 498 A HIS 553 1_555 Q ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc12 B O ARG 200 E ARG 255 1_555 X ZN ZN . E ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc13 B O THR 214 E THR 269 1_555 Z CA CA . E CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc14 B OG1 THR 214 E THR 269 1_555 Z CA CA . E CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc15 B O TYR 217 E TYR 272 1_555 Z CA CA . E CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.752 ? metalc ? metalc16 B NE2 HIS 322 E HIS 377 1_555 Y ZN ZN . E ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc17 B OE1 GLU 378 E GLU 433 1_555 Z CA CA . E CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc18 B OE2 GLU 378 E GLU 433 1_555 Z CA CA . E CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? metalc ? metalc19 B OE1 GLU 381 E GLU 436 1_555 Z CA CA . E CA 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? metalc ? metalc20 B OD2 ASP 398 E ASP 453 1_555 Y ZN ZN . E ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc21 B ND1 HIS 498 E HIS 553 1_555 X ZN ZN . E ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? # _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 9HVK _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 M 7 NAG A 1 801 803 NAG NAG . N 7 NAG A 1 802 804 NAG NAG . O 7 NAG A 1 803 805 NAG NAG . P 7 NAG A 1 804 806 NAG NAG . Q 8 ZN A 1 805 815 ZN ZN . R 8 ZN A 1 806 816 ZN ZN . S 9 CA A 1 807 817 CA CA . T 7 NAG E 1 801 803 NAG NAG . U 7 NAG E 1 802 804 NAG NAG . V 7 NAG E 1 803 805 NAG NAG . W 7 NAG E 1 804 806 NAG NAG . X 8 ZN E 1 805 815 ZN ZN . Y 8 ZN E 1 806 816 ZN ZN . Z 9 CA E 1 807 817 CA CA . AA 10 CL E 1 808 818 CL CL . # _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 Q _atom_site.label_entity_id 8 _atom_site.Cartn_x 144.005 _atom_site.Cartn_y 111.197 _atom_site.Cartn_z 110.588 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 249.83 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 805 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #