data_5VDH # _model_server_result.job_id '_SQgM_GmNyVbfhWKZjlJcg' _model_server_result.datetime_utc '2024-12-17 09:45:53' _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 5vdh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":405}' # _entry.id 5VDH # _exptl.entry_id 5VDH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 35.453 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CHLORIDE ION' _entity.pdbx_number_of_molecules 1 _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 5VDH _cell.length_a 119.065 _cell.length_b 119.065 _cell.length_c 429.934 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VDH _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id J _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 138 A CYS 138 1_555 A SG CYS 152 A CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf2 A SG CYS 198 A CYS 198 1_555 A SG CYS 209 A CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf3 B SG CYS 138 B CYS 138 1_555 B SG CYS 152 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf4 B SG CYS 198 B CYS 198 1_555 B SG CYS 209 B CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf5 C SG CYS 138 C CYS 138 1_555 C SG CYS 152 C CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf6 C SG CYS 198 C CYS 198 1_555 C SG CYS 209 C CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf7 D SG CYS 138 D CYS 138 1_555 D SG CYS 152 D CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf8 D SG CYS 198 D CYS 198 1_555 D SG CYS 209 D CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf9 E SG CYS 138 E CYS 138 1_555 E SG CYS 152 E CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf10 E SG CYS 198 E CYS 198 1_555 E SG CYS 209 E CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? covale ? covale1 C ND2 ASN 38 C ASN 38 1_555 S C1 NAG . C NAG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A OD1 ASP 194 A ASP 194 1_555 I ZN ZN . A ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? metalc ? metalc2 A OD2 ASP 194 A ASP 194 1_555 I ZN ZN . A ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? metalc ? metalc3 B OE2 GLU 192 B GLU 192 1_555 N ZN ZN . B ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc4 B OD1 ASP 194 B ASP 194 1_555 N ZN ZN . B ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc5 D OE2 GLU 192 D GLU 192 1_555 W ZN ZN . D ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? metalc ? metalc6 E OE2 GLU 192 E GLU 192 1_555 AA ZN ZN . E ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? # _chem_comp.formula 'Cl -1' _chem_comp.formula_weight 35.453 _chem_comp.id CL _chem_comp.mon_nstd_flag . _chem_comp.name 'CHLORIDE ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5VDH _atom_sites.fract_transf_matrix[1][1] 0.008399 _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] 0.008399 _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] 0.002326 _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 F 2 7C6 A 1 401 401 7C6 7C6 . G 3 GLY A 1 402 402 GLY GLY . H 4 IVM A 1 403 403 IVM IVM . I 5 ZN A 1 404 404 ZN ZN . J 6 CL A 1 405 405 CL CL . K 2 7C6 B 1 401 401 7C6 7C6 . L 3 GLY B 1 402 402 GLY GLY . M 4 IVM B 1 403 403 IVM IVM . N 5 ZN B 1 404 404 ZN ZN . O 2 7C6 C 1 401 401 7C6 7C6 . P 3 GLY C 1 402 402 GLY GLY . Q 4 IVM C 1 403 403 IVM IVM . R 5 ZN C 1 404 404 ZN ZN . S 7 NAG C 1 405 405 NAG NAG . T 2 7C6 D 1 401 401 7C6 7C6 . U 3 GLY D 1 402 402 GLY GLY . V 4 IVM D 1 403 403 IVM IVM . W 5 ZN D 1 404 404 ZN ZN . X 2 7C6 E 1 401 401 7C6 7C6 . Y 3 GLY E 1 402 402 GLY GLY . Z 4 IVM E 1 403 403 IVM IVM . AA 5 ZN E 1 404 404 ZN ZN . BA 8 HOH A 1 501 501 HOH HOH . BA 8 HOH A 2 502 502 HOH HOH . BA 8 HOH A 3 503 503 HOH HOH . BA 8 HOH A 4 504 504 HOH HOH . BA 8 HOH A 5 505 505 HOH HOH . BA 8 HOH A 6 506 506 HOH HOH . BA 8 HOH A 7 507 507 HOH HOH . BA 8 HOH A 8 508 508 HOH HOH . BA 8 HOH A 9 509 509 HOH HOH . BA 8 HOH A 10 510 510 HOH HOH . BA 8 HOH A 11 511 511 HOH HOH . BA 8 HOH A 12 512 512 HOH HOH . BA 8 HOH A 13 513 513 HOH HOH . BA 8 HOH A 14 514 514 HOH HOH . BA 8 HOH A 15 515 515 HOH HOH . BA 8 HOH A 16 516 516 HOH HOH . BA 8 HOH A 17 517 517 HOH HOH . BA 8 HOH A 18 518 518 HOH HOH . CA 8 HOH B 1 501 501 HOH HOH . CA 8 HOH B 2 502 502 HOH HOH . CA 8 HOH B 3 503 503 HOH HOH . CA 8 HOH B 4 504 504 HOH HOH . CA 8 HOH B 5 505 505 HOH HOH . CA 8 HOH B 6 506 506 HOH HOH . CA 8 HOH B 7 507 507 HOH HOH . CA 8 HOH B 8 508 508 HOH HOH . CA 8 HOH B 9 509 509 HOH HOH . CA 8 HOH B 10 510 510 HOH HOH . CA 8 HOH B 11 511 511 HOH HOH . DA 8 HOH C 1 501 501 HOH HOH . DA 8 HOH C 2 502 502 HOH HOH . DA 8 HOH C 3 503 503 HOH HOH . DA 8 HOH C 4 504 504 HOH HOH . DA 8 HOH C 5 505 505 HOH HOH . DA 8 HOH C 6 506 506 HOH HOH . DA 8 HOH C 7 507 507 HOH HOH . DA 8 HOH C 8 508 508 HOH HOH . DA 8 HOH C 9 509 509 HOH HOH . DA 8 HOH C 10 510 510 HOH HOH . EA 8 HOH D 1 501 501 HOH HOH . EA 8 HOH D 2 502 502 HOH HOH . EA 8 HOH D 3 503 503 HOH HOH . EA 8 HOH D 4 504 504 HOH HOH . EA 8 HOH D 5 505 505 HOH HOH . EA 8 HOH D 6 506 506 HOH HOH . EA 8 HOH D 7 507 507 HOH HOH . EA 8 HOH D 8 508 508 HOH HOH . FA 8 HOH E 1 501 501 HOH HOH . FA 8 HOH E 2 502 502 HOH HOH . FA 8 HOH E 3 503 503 HOH HOH . FA 8 HOH E 4 504 504 HOH HOH . FA 8 HOH E 5 505 505 HOH HOH . FA 8 HOH E 6 506 506 HOH HOH . FA 8 HOH E 7 507 507 HOH HOH . FA 8 HOH E 8 508 508 HOH HOH . FA 8 HOH E 9 509 509 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CL _atom_site.label_atom_id CL _atom_site.label_comp_id CL _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id J _atom_site.label_entity_id 6 _atom_site.Cartn_x 502.06 _atom_site.Cartn_y 71.779 _atom_site.Cartn_z 448.361 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 102.19 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CL _atom_site.auth_comp_id CL _atom_site.auth_seq_id 405 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 31 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #