data_3LEO # _model_server_result.job_id gHQjUgwe54mD8wVzf4a-yg _model_server_result.datetime_utc '2024-11-27 21:20:03' _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 3leo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":211}' # _entry.id 3LEO # _exptl.entry_id 3LEO _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3LEO _cell.length_a 169.54 _cell.length_b 169.54 _cell.length_c 169.54 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LEO _symmetry.cell_setting ? _symmetry.Int_Tables_number 196 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'F 2 3' # 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 dodecameric 12 software_defined_assembly 1 PISA trimeric 3 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,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q 1 1,2,3,4,5,6,7,8,9,10,11,12 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q 2 1,5,9 # 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 0 0 169.54 4 'crystal symmetry operation' 4_556 x,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 169.54 5 'crystal symmetry operation' 21_545 y,z-1/2,x+1/2 0 1 0 0 0 1 1 0 0 0 -84.77 84.77 6 'crystal symmetry operation' 22_545 -y,z-1/2,-x+1/2 0 -1 0 0 0 1 -1 0 0 0 -84.77 84.77 7 'crystal symmetry operation' 23_555 y,-z+1/2,-x+1/2 0 1 0 0 0 -1 -1 0 0 0 84.77 84.77 8 'crystal symmetry operation' 24_555 -y,-z+1/2,x+1/2 0 -1 0 0 0 -1 1 0 0 0 84.77 84.77 9 'crystal symmetry operation' 29_455 z-1/2,x,y+1/2 0 0 1 1 0 0 0 1 0 -84.77 0 84.77 10 'crystal symmetry operation' 30_455 z-1/2,-x,-y+1/2 0 0 1 -1 0 0 0 -1 0 -84.77 0 84.77 11 'crystal symmetry operation' 31_555 -z+1/2,-x,y+1/2 0 0 -1 -1 0 0 0 1 0 84.77 0 84.77 12 'crystal symmetry operation' 32_555 -z+1/2,x,-y+1/2 0 0 -1 1 0 0 0 -1 0 84.77 0 84.77 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 K N N ? 5 L 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 NE2 HIS 1 A HIS -4 1_555 L NI NI . A NI 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc2 A NE2 HIS 3 A HIS -2 1_555 L NI NI . A NI 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc3 A NE2 HIS 4 A HIS -1 1_555 K NI NI . A NI 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc4 A NE2 HIS 6 A HIS 1 1_555 K NI NI . A NI 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? # _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 3LEO _atom_sites.fract_transf_matrix[1][1] 0.005898 _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] 0.005898 _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] 0.005898 _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 B 2 PAM A 1 201 1151 PAM PAM . C 3 PLM A 1 202 1152 PLM PLM . D 3 PLM A 1 203 1153 PLM PLM . E 3 PLM A 1 204 1154 PLM PLM . F 4 SO4 A 1 205 1155 SO4 SO4 . G 3 PLM A 1 206 1157 PLM PLM . H 3 PLM A 1 207 1160 PLM PLM . I 3 PLM A 1 208 1158 PLM PLM . J 4 SO4 A 1 209 151 SO4 SO4 . K 5 NI A 1 210 152 NI NI . L 5 NI A 1 211 153 NI NI . M 6 GSH A 1 212 1150 GSH GSW . N 7 LMT A 1 213 154 LMT LMT . O 8 GOL A 1 214 221 GOL GOL . P 2 PAM A 1 215 473 PAM PAM . Q 9 HOH A 1 301 2022 HOH HOH . Q 9 HOH A 2 302 2023 HOH HOH . Q 9 HOH A 3 303 2024 HOH HOH . Q 9 HOH A 4 304 2025 HOH HOH . Q 9 HOH A 5 305 2026 HOH HOH . Q 9 HOH A 6 306 2027 HOH HOH . Q 9 HOH A 7 307 2028 HOH HOH . Q 9 HOH A 8 308 2029 HOH HOH . Q 9 HOH A 9 309 2030 HOH HOH . Q 9 HOH A 10 310 2031 HOH HOH . Q 9 HOH A 11 311 2032 HOH HOH . Q 9 HOH A 12 312 2033 HOH HOH . Q 9 HOH A 13 313 2034 HOH HOH . Q 9 HOH A 14 314 2035 HOH HOH . Q 9 HOH A 15 315 2036 HOH HOH . Q 9 HOH A 16 316 2037 HOH HOH . Q 9 HOH A 17 317 2038 HOH HOH . Q 9 HOH A 18 318 2039 HOH HOH . Q 9 HOH A 19 319 2040 HOH HOH . Q 9 HOH A 20 320 2041 HOH HOH . Q 9 HOH A 21 321 2042 HOH HOH . Q 9 HOH A 22 322 2043 HOH HOH . Q 9 HOH A 23 323 2044 HOH HOH . Q 9 HOH A 24 324 2045 HOH HOH . Q 9 HOH A 25 325 2046 HOH HOH . Q 9 HOH A 26 326 2047 HOH HOH . Q 9 HOH A 27 327 2048 HOH HOH . Q 9 HOH A 28 328 2049 HOH HOH . Q 9 HOH A 29 329 2050 HOH HOH . Q 9 HOH A 30 330 2051 HOH HOH . Q 9 HOH A 31 331 2052 HOH HOH . Q 9 HOH A 32 332 2053 HOH HOH . Q 9 HOH A 33 333 2054 HOH HOH . Q 9 HOH A 34 334 2055 HOH HOH . Q 9 HOH A 35 335 2056 HOH HOH . Q 9 HOH A 36 336 2057 HOH HOH . Q 9 HOH A 37 337 2058 HOH HOH . Q 9 HOH A 38 338 2059 HOH HOH . Q 9 HOH A 39 339 2060 HOH HOH . Q 9 HOH A 40 340 2061 HOH HOH . Q 9 HOH A 41 341 2062 HOH HOH . Q 9 HOH A 42 342 2063 HOH HOH . Q 9 HOH A 43 343 2064 HOH HOH . Q 9 HOH A 44 344 2065 HOH HOH . Q 9 HOH A 45 345 2066 HOH HOH . Q 9 HOH A 46 346 2067 HOH HOH . Q 9 HOH A 47 347 2068 HOH HOH . Q 9 HOH A 48 348 2069 HOH HOH . Q 9 HOH A 49 349 2070 HOH HOH . Q 9 HOH A 50 350 2071 HOH HOH . Q 9 HOH A 51 351 2072 HOH HOH . Q 9 HOH A 52 352 2073 HOH HOH . Q 9 HOH A 53 353 2074 HOH HOH . Q 9 HOH A 54 354 2075 HOH HOH . Q 9 HOH A 55 355 2076 HOH HOH . Q 9 HOH A 56 356 2077 HOH HOH . Q 9 HOH A 57 357 2078 HOH HOH . Q 9 HOH A 58 358 2079 HOH HOH . Q 9 HOH A 59 359 2080 HOH HOH . Q 9 HOH A 60 360 2081 HOH HOH . Q 9 HOH A 61 361 2082 HOH HOH . Q 9 HOH A 62 362 2083 HOH HOH . Q 9 HOH A 63 363 2084 HOH HOH . Q 9 HOH A 64 364 2085 HOH HOH . Q 9 HOH A 65 365 2086 HOH HOH . Q 9 HOH A 66 366 2087 HOH HOH . Q 9 HOH A 67 367 2088 HOH HOH . Q 9 HOH A 68 368 2089 HOH HOH . Q 9 HOH A 69 369 2092 HOH HOH . Q 9 HOH A 70 370 2093 HOH HOH . Q 9 HOH A 71 371 2098 HOH HOH . Q 9 HOH A 72 372 2102 HOH HOH . Q 9 HOH A 73 373 2104 HOH HOH . Q 9 HOH A 74 374 2105 HOH HOH . Q 9 HOH A 75 375 2106 HOH HOH . Q 9 HOH A 76 376 2121 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 L _atom_site.label_entity_id 5 _atom_site.Cartn_x -35.422 _atom_site.Cartn_y -49.229 _atom_site.Cartn_z 49.565 _atom_site.occupancy 0.33 _atom_site.B_iso_or_equiv 168 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 211 _atom_site.auth_asym_id A _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 8 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #