data_4GVL # _model_server_result.job_id 9esBv1mNU-zXor1eXpeGug _model_server_result.datetime_utc '2025-01-05 08:00:07' _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 4gvl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":601}' # _entry.id 4GVL # _exptl.entry_id 4GVL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 2 _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 4GVL _cell.length_a 110.648 _cell.length_b 161.693 _cell.length_c 310.127 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GVL _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA octameric 8 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 2 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' 2_645 -x+1,-y-1,z -1 0 0 0 -1 0 0 0 1 110.648 -161.693 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 I N N ? 2 L N N ? 2 O 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 metalc ? metalc1 A O THR 77 A THR 183 1_555 H CA CA . A CA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.643 ? metalc ? metalc2 A OD1 ASN 104 A ASN 210 1_555 H CA CA . A CA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.975 ? metalc ? metalc3 A OG1 THR 108 A THR 214 1_555 H CA CA . A CA 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.887 ? metalc ? metalc4 A NE2 HIS 253 A HIS 359 1_555 E ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc5 A SG CYS 258 A CYS 364 1_555 E ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc6 A SG CYS 282 A CYS 388 1_555 E ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc7 A ND1 HIS 285 A HIS 391 1_555 E ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? metalc ? metalc8 A O GLU 343 A GLU 449 1_555 G CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.928 ? metalc ? metalc9 A OD1 ASN 344 A ASN 450 1_555 G CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc10 A OE1 GLN 347 A GLN 453 1_555 G CA CA . A CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.969 ? metalc ? metalc11 G CA CA . A CA 603 1_555 B O THR 77 B THR 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc12 G CA CA . A CA 603 1_555 B OD1 ASN 104 B ASN 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.983 ? metalc ? metalc13 G CA CA . A CA 603 1_555 B OG1 THR 108 B THR 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? metalc ? metalc14 H CA CA . A CA 604 1_555 D O GLU 343 D GLU 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.677 ? metalc ? metalc15 H CA CA . A CA 604 1_555 D OE1 GLN 347 D GLN 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.061 ? metalc ? metalc16 B NE2 HIS 253 B HIS 359 1_555 I ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc17 B SG CYS 258 B CYS 364 1_555 I ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc18 B SG CYS 282 B CYS 388 1_555 I ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc19 B ND1 HIS 285 B HIS 391 1_555 I ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc20 B O GLU 343 B GLU 449 1_555 K CA CA . B CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.983 ? metalc ? metalc21 B OD1 ASN 344 B ASN 450 1_555 K CA CA . B CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc22 K CA CA . B CA 603 1_555 C O THR 77 C THR 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.664 ? metalc ? metalc23 K CA CA . B CA 603 1_555 C OD1 ASN 104 C ASN 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.759 ? metalc ? metalc24 K CA CA . B CA 603 1_555 C OG1 THR 108 C THR 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.807 ? metalc ? metalc25 C NE2 HIS 253 C HIS 359 1_555 L ZN ZN . C ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc26 C SG CYS 258 C CYS 364 1_555 L ZN ZN . C ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc27 C SG CYS 282 C CYS 388 1_555 L ZN ZN . C ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc28 C ND1 HIS 285 C HIS 391 1_555 L ZN ZN . C ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc29 C O GLU 343 C GLU 449 1_555 N CA CA . C CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? metalc ? metalc30 C OD1 ASN 344 C ASN 450 1_555 N CA CA . C CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.684 ? metalc ? metalc31 C OE1 GLN 347 C GLN 453 1_555 N CA CA . C CA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.816 ? metalc ? metalc32 N CA CA . C CA 603 1_555 D O THR 77 D THR 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? metalc ? metalc33 N CA CA . C CA 603 1_555 D OD1 ASN 104 D ASN 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.098 ? metalc ? metalc34 N CA CA . C CA 603 1_555 D OG1 THR 108 D THR 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.955 ? metalc ? metalc35 D NE2 HIS 253 D HIS 359 1_555 O ZN ZN . D ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc36 D SG CYS 258 D CYS 364 1_555 O ZN ZN . D ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc37 D SG CYS 282 D CYS 388 1_555 O ZN ZN . D ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc38 D ND1 HIS 285 D HIS 391 1_555 O ZN ZN . D ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? # _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 4GVL _atom_sites.fract_transf_matrix[1][1] 0.009038 _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] 0.006185 _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] 0.003224 _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 ZN A 1 601 601 ZN ZN . F 3 AMP A 1 602 602 AMP AMP . G 4 CA A 1 603 603 CA CA . H 4 CA A 1 604 603 CA CA . I 2 ZN B 1 601 601 ZN ZN . J 3 AMP B 1 602 602 AMP AMP . K 4 CA B 1 603 603 CA CA . L 2 ZN C 1 601 601 ZN ZN . M 3 AMP C 1 602 602 AMP AMP . N 4 CA C 1 603 603 CA CA . O 2 ZN D 1 601 601 ZN ZN . P 3 AMP D 1 602 602 AMP AMP . # _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 2 _atom_site.Cartn_x 57.485 _atom_site.Cartn_y -35.607 _atom_site.Cartn_z -42.734 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 112.56 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 601 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 39 _model_server_stats.create_model_time_ms 60 _model_server_stats.query_time_ms 848 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 1 #