data_3LEK # _model_server_result.job_id MzHs4Ak_rTDCHlJw5T-rJg _model_server_result.datetime_utc '2024-10-10 07:24:19' _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 3lek # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":191}' # _entry.id 3LEK # _exptl.entry_id 3LEK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 4 _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 90 _cell.entry_id 3LEK _cell.length_a 67.01 _cell.length_b 67.01 _cell.length_c 97.65 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LEK _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 GAL NDG C1 O1 . O3 HO3 . sing 2 ? 2 3 2 FUC GAL C1 O1 . O2 HO2 . sing 3 ? 2 4 1 FUC NDG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NDG 1 B 1 NDG A 1185 BCW 2 n B GAL 2 B 2 GAL A 1185 BCW 2 n B FUC 3 B 3 FUC A 1185 BCW 2 n B FUC 4 B 4 FUC A 1185 BCW # 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 covale ? covale1 B O3 NDG . B NDG 1 1_555 B C1 GAL . B GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 sing covale ? covale2 B O4 NDG . B NDG 1 1_555 B C1 FUC . B FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 sing covale ? covale3 B O2 GAL . B GAL 2 1_555 B C1 FUC . B FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 sing metalc ? metalc1 C CA CA . A CA 1 1_555 A O ARG 31 A ARG 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc2 C CA CA . A CA 1 1_555 A OD1 ASP 34 A ASP 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc3 C CA CA . A CA 1 1_555 A O ASN 36 A ASN 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc4 C CA CA . A CA 1 1_555 A OG SER 45 A SER 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc5 C CA CA . A CA 1 1_555 A O SER 45 A SER 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc6 C CA CA . A CA 1 1_555 A O ALA 139 A ALA 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc7 C CA CA . A CA 1 1_555 A OE1 GLU 140 A GLU 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc8 A NE2 HIS 43 A HIS 80 1_555 D NI NI . A NI 191 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc9 D NI NI . A NI 191 1_555 E O HOH . A HOH 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc10 D NI NI . A NI 191 1_555 E O HOH . A HOH 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc11 D NI NI . A NI 191 1_555 E O HOH . A HOH 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc12 D NI NI . A NI 191 1_555 E O HOH . A HOH 284 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? metalc ? metalc13 D NI NI . A NI 191 1_555 E O HOH . A HOH 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? # _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 3LEK _atom_sites.fract_transf_matrix[1][1] 0.014923 _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] 0.014923 _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] 0.010241 _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 CA A 1 1 1 CA CA . D 4 NI A 1 191 191 NI NI . E 5 HOH A 1 2 2 HOH HOH . E 5 HOH A 2 3 3 HOH HOH . E 5 HOH A 3 4 4 HOH HOH . E 5 HOH A 4 5 5 HOH HOH . E 5 HOH A 5 6 6 HOH HOH . E 5 HOH A 6 7 7 HOH HOH . E 5 HOH A 7 8 8 HOH HOH . E 5 HOH A 8 9 9 HOH HOH . E 5 HOH A 9 10 10 HOH HOH . E 5 HOH A 10 11 11 HOH HOH . E 5 HOH A 11 12 12 HOH HOH . E 5 HOH A 12 13 13 HOH HOH . E 5 HOH A 13 14 14 HOH HOH . E 5 HOH A 14 15 15 HOH HOH . E 5 HOH A 15 16 16 HOH HOH . E 5 HOH A 16 17 17 HOH HOH . E 5 HOH A 17 18 18 HOH HOH . E 5 HOH A 18 19 19 HOH HOH . E 5 HOH A 19 20 20 HOH HOH . E 5 HOH A 20 21 21 HOH HOH . E 5 HOH A 21 22 22 HOH HOH . E 5 HOH A 22 23 23 HOH HOH . E 5 HOH A 23 24 24 HOH HOH . E 5 HOH A 24 25 25 HOH HOH . E 5 HOH A 25 26 26 HOH HOH . E 5 HOH A 26 27 27 HOH HOH . E 5 HOH A 27 28 28 HOH HOH . E 5 HOH A 28 29 29 HOH HOH . E 5 HOH A 29 30 30 HOH HOH . E 5 HOH A 30 31 31 HOH HOH . E 5 HOH A 31 32 32 HOH HOH . E 5 HOH A 32 33 33 HOH HOH . E 5 HOH A 33 34 34 HOH HOH . E 5 HOH A 34 35 35 HOH HOH . E 5 HOH A 35 36 36 HOH HOH . E 5 HOH A 36 37 37 HOH HOH . E 5 HOH A 37 192 192 HOH HOH . E 5 HOH A 38 193 193 HOH HOH . E 5 HOH A 39 194 194 HOH HOH . E 5 HOH A 40 195 195 HOH HOH . E 5 HOH A 41 196 196 HOH HOH . E 5 HOH A 42 197 197 HOH HOH . E 5 HOH A 43 198 198 HOH HOH . E 5 HOH A 44 199 199 HOH HOH . E 5 HOH A 45 200 200 HOH HOH . E 5 HOH A 46 201 201 HOH HOH . E 5 HOH A 47 202 202 HOH HOH . E 5 HOH A 48 203 203 HOH HOH . E 5 HOH A 49 204 204 HOH HOH . E 5 HOH A 50 205 205 HOH HOH . E 5 HOH A 51 206 206 HOH HOH . E 5 HOH A 52 207 207 HOH HOH . E 5 HOH A 53 208 208 HOH HOH . E 5 HOH A 54 209 209 HOH HOH . E 5 HOH A 55 210 210 HOH HOH . E 5 HOH A 56 211 211 HOH HOH . E 5 HOH A 57 212 212 HOH HOH . E 5 HOH A 58 213 213 HOH HOH . E 5 HOH A 59 214 214 HOH HOH . E 5 HOH A 60 215 215 HOH HOH . E 5 HOH A 61 216 216 HOH HOH . E 5 HOH A 62 217 217 HOH HOH . E 5 HOH A 63 218 218 HOH HOH . E 5 HOH A 64 219 219 HOH HOH . E 5 HOH A 65 220 220 HOH HOH . E 5 HOH A 66 221 221 HOH HOH . E 5 HOH A 67 222 222 HOH HOH . E 5 HOH A 68 223 223 HOH HOH . E 5 HOH A 69 224 224 HOH HOH . E 5 HOH A 70 225 225 HOH HOH . E 5 HOH A 71 226 226 HOH HOH . E 5 HOH A 72 227 227 HOH HOH . E 5 HOH A 73 228 228 HOH HOH . E 5 HOH A 74 229 229 HOH HOH . E 5 HOH A 75 230 230 HOH HOH . E 5 HOH A 76 231 231 HOH HOH . E 5 HOH A 77 232 232 HOH HOH . E 5 HOH A 78 233 233 HOH HOH . E 5 HOH A 79 234 234 HOH HOH . E 5 HOH A 80 235 235 HOH HOH . E 5 HOH A 81 236 236 HOH HOH . E 5 HOH A 82 237 237 HOH HOH . E 5 HOH A 83 238 238 HOH HOH . E 5 HOH A 84 239 239 HOH HOH . E 5 HOH A 85 240 240 HOH HOH . E 5 HOH A 86 241 241 HOH HOH . E 5 HOH A 87 242 242 HOH HOH . E 5 HOH A 88 243 243 HOH HOH . E 5 HOH A 89 244 244 HOH HOH . E 5 HOH A 90 245 245 HOH HOH . E 5 HOH A 91 246 246 HOH HOH . E 5 HOH A 92 247 247 HOH HOH . E 5 HOH A 93 248 248 HOH HOH . E 5 HOH A 94 249 249 HOH HOH . E 5 HOH A 95 250 250 HOH HOH . E 5 HOH A 96 251 251 HOH HOH . E 5 HOH A 97 252 252 HOH HOH . E 5 HOH A 98 253 253 HOH HOH . E 5 HOH A 99 254 254 HOH HOH . E 5 HOH A 100 255 255 HOH HOH . E 5 HOH A 101 256 256 HOH HOH . E 5 HOH A 102 257 257 HOH HOH . E 5 HOH A 103 258 258 HOH HOH . E 5 HOH A 104 259 259 HOH HOH . E 5 HOH A 105 260 260 HOH HOH . E 5 HOH A 106 261 261 HOH HOH . E 5 HOH A 107 262 262 HOH HOH . E 5 HOH A 108 263 263 HOH HOH . E 5 HOH A 109 264 264 HOH HOH . E 5 HOH A 110 265 265 HOH HOH . E 5 HOH A 111 266 266 HOH HOH . E 5 HOH A 112 267 267 HOH HOH . E 5 HOH A 113 268 268 HOH HOH . E 5 HOH A 114 269 269 HOH HOH . E 5 HOH A 115 270 270 HOH HOH . E 5 HOH A 116 271 271 HOH HOH . E 5 HOH A 117 272 272 HOH HOH . E 5 HOH A 118 273 273 HOH HOH . E 5 HOH A 119 274 274 HOH HOH . E 5 HOH A 120 275 275 HOH HOH . E 5 HOH A 121 276 276 HOH HOH . E 5 HOH A 122 277 277 HOH HOH . E 5 HOH A 123 278 278 HOH HOH . E 5 HOH A 124 279 279 HOH HOH . E 5 HOH A 125 280 280 HOH HOH . E 5 HOH A 126 281 281 HOH HOH . E 5 HOH A 127 282 282 HOH HOH . E 5 HOH A 128 283 283 HOH HOH . E 5 HOH A 129 284 284 HOH HOH . E 5 HOH A 130 285 285 HOH HOH . E 5 HOH A 131 286 286 HOH HOH . E 5 HOH A 132 287 287 HOH HOH . E 5 HOH A 133 288 288 HOH HOH . E 5 HOH A 134 289 289 HOH HOH . E 5 HOH A 135 290 290 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 D _atom_site.label_entity_id 4 _atom_site.Cartn_x -4.254 _atom_site.Cartn_y -4.455 _atom_site.Cartn_z 14.433 _atom_site.occupancy 0.3 _atom_site.B_iso_or_equiv 14.22 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 191 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #