data_1FRV # _model_server_result.job_id vA-DitD6JrjaZVZikY7EPg _model_server_result.datetime_utc '2024-11-24 21:29:02' _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 1frv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":538}' # _entry.id 1FRV # _exptl.entry_id 1FRV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) ION' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 89.8 _cell.angle_beta 102.9 _cell.angle_gamma 90.8 _cell.entry_id 1FRV _cell.length_a 63.6 _cell.length_b 93.9 _cell.length_c 69.2 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1FRV _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_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,E,F,G,H,I 1 1 C,D,J,K,L,M,N 2 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 ? 5 H N N ? 5 M 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 disulf ? disulf1 D SG CYS 65 D CYS 65 1_555 D SG CYS 530 D CYS 530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.918 ? disulf ? disulf2 D SG CYS 68 D CYS 68 1_555 D SG CYS 533 D CYS 533 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.948 ? metalc ? metalc1 A SG CYS 17 A CYS 17 1_555 G FE1 SF4 . A SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc2 A SG CYS 20 A CYS 20 1_555 G FE2 SF4 . A SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc3 A SG CYS 112 A CYS 112 1_555 G FE4 SF4 . A SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc4 A SG CYS 148 A CYS 148 1_555 G FE3 SF4 . A SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc5 A ND1 HIS 185 A HIS 185 1_555 E FE4 SF4 . A SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc6 A SG CYS 188 A CYS 188 1_555 E FE2 SF4 . A SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc7 A SG CYS 213 A CYS 213 1_555 E FE3 SF4 . A SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc8 A SG CYS 219 A CYS 219 1_555 E FE1 SF4 . A SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc9 A SG CYS 228 A CYS 228 1_555 F FE4 F3S . A F3S 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc10 A SG CYS 246 A CYS 246 1_555 F FE1 F3S . A F3S 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc11 A SG CYS 249 A CYS 249 1_555 F FE3 F3S . A F3S 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc12 B SG CYS 65 B CYS 65 1_555 H NI NI . B NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc13 B SG CYS 68 B CYS 68 1_555 H NI NI . B NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc14 B SG CYS 530 B CYS 530 1_555 H NI NI . B NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc15 B SG CYS 533 B CYS 533 1_555 I FE FEL . B FEL 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc16 B SG CYS 533 B CYS 533 1_555 H NI NI . B NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.605 ? metalc ? metalc17 C SG CYS 17 C CYS 17 1_555 L FE1 SF4 . C SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc18 C SG CYS 20 C CYS 20 1_555 L FE2 SF4 . C SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc19 C SG CYS 112 C CYS 112 1_555 L FE4 SF4 . C SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc20 C SG CYS 148 C CYS 148 1_555 L FE3 SF4 . C SF4 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc21 C ND1 HIS 185 C HIS 185 1_555 J FE4 SF4 . C SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc22 C SG CYS 188 C CYS 188 1_555 J FE2 SF4 . C SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc23 C SG CYS 213 C CYS 213 1_555 J FE3 SF4 . C SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc24 C SG CYS 219 C CYS 219 1_555 J FE1 SF4 . C SF4 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc25 C SG CYS 228 C CYS 228 1_555 K FE4 F3S . C F3S 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc26 C SG CYS 246 C CYS 246 1_555 K FE3 F3S . C F3S 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc27 C SG CYS 249 C CYS 249 1_555 K FE1 F3S . C F3S 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc28 D SG CYS 65 D CYS 65 1_555 M NI NI . D NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.51 ? metalc ? metalc29 D SG CYS 68 D CYS 68 1_555 N FE FEL . D FEL 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc30 D SG CYS 68 D CYS 68 1_555 M NI NI . D NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc31 D SG CYS 530 D CYS 530 1_555 M NI NI . D NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc32 D SG CYS 533 D CYS 533 1_555 N FE FEL . D FEL 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc33 D SG CYS 533 D CYS 533 1_555 M NI NI . D NI 538 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? # _chem_comp.formula 'Ni 2' _chem_comp.formula_weight 58.693 _chem_comp.id NI _chem_comp.mon_nstd_flag . _chem_comp.name 'NICKEL (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1FRV _atom_sites.fract_transf_matrix[1][1] 0.015723 _atom_sites.fract_transf_matrix[1][2] 0.00022 _atom_sites.fract_transf_matrix[1][3] 0.003601 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010651 _atom_sites.fract_transf_matrix[2][3] -0.000004 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.014825 _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 3 SF4 A 1 265 265 SF4 FS4 . F 4 F3S A 1 266 266 F3S FS3 . G 3 SF4 A 1 267 267 SF4 FS4 . H 5 NI B 1 538 538 NI NI . I 6 FEL B 1 537 537 FEL FEL . J 3 SF4 C 1 265 265 SF4 FS4 . K 4 F3S C 1 266 266 F3S FS3 . L 3 SF4 C 1 267 267 SF4 FS4 . M 5 NI D 1 538 538 NI NI . N 6 FEL D 1 537 537 FEL FEL . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NI _atom_site.label_atom_id NI _atom_site.label_comp_id NI _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id H _atom_site.label_entity_id 5 _atom_site.Cartn_x 26.337 _atom_site.Cartn_y 92.757 _atom_site.Cartn_z 50.284 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 25.28 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 538 _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 7 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 219 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #