data_5CEH # _model_server_result.job_id YtB_EG6KfEqpyQuGNW5dng _model_server_result.datetime_utc '2024-11-24 17:54:36' _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 5ceh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":901}' # _entry.id 5CEH # _exptl.entry_id 5CEH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) 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 120 _cell.entry_id 5CEH _cell.length_a 159.306 _cell.length_b 159.306 _cell.length_c 92.462 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CEH _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 3 _struct_asym.id C _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 682 A CYS 692 1_555 A SG CYS 697 A CYS 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf2 A SG CYS 682 A CYS 692 1_555 A SG CYS 699 A CYS 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? covale ? covale1 B C UNK 1 B UNK 905 1_555 B N UNK 2 B UNK 906 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C UNK 2 B UNK 906 1_555 B N UNK 3 B UNK 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale3 B C UNK 3 B UNK 907 1_555 B N UNK 4 B UNK 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale4 B C UNK 4 B UNK 908 1_555 B N UNK 5 B UNK 909 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale5 B C UNK 5 B UNK 909 1_555 B N UNK 6 B UNK 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale6 B C UNK 6 B UNK 910 1_555 B N UNK 7 B UNK 911 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale7 B C UNK 7 B UNK 911 1_555 B N UNK 8 B UNK 912 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale8 B C UNK 8 B UNK 912 1_555 B N UNK 9 B UNK 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale9 B C UNK 9 B UNK 913 1_555 B N UNK 10 B UNK 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A NE2 HIS 473 A HIS 483 1_555 C NI NI . A NI 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? metalc ? metalc2 A OE2 GLU 475 A GLU 485 1_555 C NI NI . A NI 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? metalc ? metalc3 A NE2 HIS 561 A HIS 571 1_555 C NI NI . A NI 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc4 A SG CYS 666 A CYS 676 1_555 D ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc5 A SG CYS 669 A CYS 679 1_555 D ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc6 A SG CYS 680 A CYS 690 1_555 E ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc7 A SG CYS 682 A CYS 692 1_555 E ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc8 A SG CYS 689 A CYS 699 1_555 D ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc9 A ND1 HIS 692 A HIS 702 1_555 D ZN ZN . A ZN 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc10 A SG CYS 697 A CYS 707 1_555 E ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc11 A SG CYS 699 A CYS 709 1_555 E ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? metalc ? metalc12 C NI NI . A NI 901 1_555 F N16 50P . A 50P 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc13 C NI NI . A NI 901 1_555 G O HOH . A HOH 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.86 ? # _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 5CEH _atom_sites.fract_transf_matrix[1][1] 0.006277 _atom_sites.fract_transf_matrix[1][2] 0.003624 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007248 _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] 0.010815 _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 C 3 NI A 1 901 901 NI NI . D 4 ZN A 1 902 902 ZN ZN . E 4 ZN A 1 903 903 ZN ZN . F 5 50P A 1 904 904 50P 50P . G 6 HOH A 1 1001 1001 HOH HOH . G 6 HOH A 2 1002 1002 HOH HOH . G 6 HOH A 3 1003 1003 HOH HOH . G 6 HOH A 4 1004 1004 HOH HOH . G 6 HOH A 5 1005 1005 HOH HOH . G 6 HOH A 6 1006 1006 HOH HOH . G 6 HOH A 7 1007 1007 HOH HOH . # _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 C _atom_site.label_entity_id 3 _atom_site.Cartn_x 132.497 _atom_site.Cartn_y 367.969 _atom_site.Cartn_z 108.486 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 61.76 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 901 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 445 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #