data_3VHB # _model_server_result.job_id ceXTVV6lpOa20mivVU549g _model_server_result.datetime_utc '2025-07-04 21:03:38' _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 3vhb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":160}' # _entry.id 3VHB # _exptl.entry_id 3VHB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 69.085 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description IMIDAZOLE _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 105.71 _cell.angle_gamma 90 _cell.entry_id 3VHB _cell.length_a 61.64 _cell.length_b 41.73 _cell.length_c 61.56 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VHB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F 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 85 A HIS 85 1_555 C FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc2 C FE HEM . A HEM 150 1_555 D N1 IMD . A IMD 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc3 B NE2 HIS 85 B HIS 85 1_555 E FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc4 E FE HEM . B HEM 150 1_555 F N3 IMD . B IMD 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? # _chem_comp.formula 'C3 H5 N2 1' _chem_comp.formula_weight 69.085 _chem_comp.id IMD _chem_comp.mon_nstd_flag . _chem_comp.name IMIDAZOLE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N1 C2 IMD sing 255 n y N1 C5 IMD sing 256 n y N1 HN1 IMD sing 257 n n C2 N3 IMD doub 258 n y C2 H2 IMD sing 259 n n N3 C4 IMD sing 260 n y N3 HN3 IMD sing 261 n n C4 C5 IMD doub 262 n y C4 H4 IMD sing 263 n n C5 H5 IMD sing 264 n n # _atom_sites.entry_id 3VHB _atom_sites.fract_transf_matrix[1][1] 0.016223 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004563 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023963 _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] 0.016875 _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 2 HEM A 1 150 150 HEM HEM . D 3 IMD A 1 160 160 IMD IMI . E 2 HEM B 1 150 150 HEM HEM . F 3 IMD B 1 170 170 IMD IMI . G 4 HOH A 1 201 201 HOH HOH . G 4 HOH A 2 205 205 HOH HOH . G 4 HOH A 3 206 206 HOH HOH . G 4 HOH A 4 207 207 HOH HOH . G 4 HOH A 5 208 208 HOH HOH . G 4 HOH A 6 211 211 HOH HOH . G 4 HOH A 7 212 212 HOH HOH . G 4 HOH A 8 214 214 HOH HOH . G 4 HOH A 9 215 215 HOH HOH . G 4 HOH A 10 216 216 HOH HOH . G 4 HOH A 11 217 217 HOH HOH . G 4 HOH A 12 219 219 HOH HOH . G 4 HOH A 13 220 220 HOH HOH . G 4 HOH A 14 223 223 HOH HOH . G 4 HOH A 15 224 224 HOH HOH . G 4 HOH A 16 230 230 HOH HOH . G 4 HOH A 17 231 231 HOH HOH . G 4 HOH A 18 232 232 HOH HOH . G 4 HOH A 19 233 233 HOH HOH . G 4 HOH A 20 234 234 HOH HOH . G 4 HOH A 21 235 235 HOH HOH . G 4 HOH A 22 236 236 HOH HOH . G 4 HOH A 23 237 237 HOH HOH . G 4 HOH A 24 239 239 HOH HOH . G 4 HOH A 25 240 240 HOH HOH . G 4 HOH A 26 241 241 HOH HOH . G 4 HOH A 27 242 242 HOH HOH . G 4 HOH A 28 244 244 HOH HOH . G 4 HOH A 29 249 249 HOH HOH . G 4 HOH A 30 251 251 HOH HOH . G 4 HOH A 31 256 256 HOH HOH . G 4 HOH A 32 258 258 HOH HOH . G 4 HOH A 33 259 259 HOH HOH . G 4 HOH A 34 260 260 HOH HOH . G 4 HOH A 35 261 261 HOH HOH . G 4 HOH A 36 262 262 HOH HOH . G 4 HOH A 37 263 263 HOH HOH . G 4 HOH A 38 266 266 HOH HOH . G 4 HOH A 39 271 271 HOH HOH . G 4 HOH A 40 272 272 HOH HOH . G 4 HOH A 41 274 274 HOH HOH . G 4 HOH A 42 276 276 HOH HOH . G 4 HOH A 43 277 277 HOH HOH . G 4 HOH A 44 279 279 HOH HOH . G 4 HOH A 45 280 280 HOH HOH . G 4 HOH A 46 284 284 HOH HOH . G 4 HOH A 47 289 289 HOH HOH . H 4 HOH B 1 200 200 HOH HOH . H 4 HOH B 2 202 202 HOH HOH . H 4 HOH B 3 203 203 HOH HOH . H 4 HOH B 4 204 204 HOH HOH . H 4 HOH B 5 209 209 HOH HOH . H 4 HOH B 6 210 210 HOH HOH . H 4 HOH B 7 213 213 HOH HOH . H 4 HOH B 8 218 218 HOH HOH . H 4 HOH B 9 221 221 HOH HOH . H 4 HOH B 10 222 222 HOH HOH . H 4 HOH B 11 225 225 HOH HOH . H 4 HOH B 12 226 226 HOH HOH . H 4 HOH B 13 227 227 HOH HOH . H 4 HOH B 14 228 228 HOH HOH . H 4 HOH B 15 229 229 HOH HOH . H 4 HOH B 16 238 238 HOH HOH . H 4 HOH B 17 243 243 HOH HOH . H 4 HOH B 18 245 245 HOH HOH . H 4 HOH B 19 246 246 HOH HOH . H 4 HOH B 20 247 247 HOH HOH . H 4 HOH B 21 248 248 HOH HOH . H 4 HOH B 22 250 250 HOH HOH . H 4 HOH B 23 252 252 HOH HOH . H 4 HOH B 24 253 253 HOH HOH . H 4 HOH B 25 254 254 HOH HOH . H 4 HOH B 26 255 255 HOH HOH . H 4 HOH B 27 257 257 HOH HOH . H 4 HOH B 28 264 264 HOH HOH . H 4 HOH B 29 265 265 HOH HOH . H 4 HOH B 30 267 267 HOH HOH . H 4 HOH B 31 270 270 HOH HOH . H 4 HOH B 32 273 273 HOH HOH . H 4 HOH B 33 275 275 HOH HOH . H 4 HOH B 34 278 278 HOH HOH . H 4 HOH B 35 281 281 HOH HOH . H 4 HOH B 36 282 282 HOH HOH . H 4 HOH B 37 283 283 HOH HOH . H 4 HOH B 38 285 285 HOH HOH . H 4 HOH B 39 287 287 HOH HOH . H 4 HOH B 40 288 288 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N1 IMD . . . D 3 42.816 8.333 60.823 1 28.86 ? N1 IMD 160 A 1 HETATM 2 C C2 IMD . . . D 3 43.725 9.222 61.184 1 21 ? C2 IMD 160 A 1 HETATM 3 N N3 IMD . . . D 3 43.594 9.418 62.483 1 36.45 ? N3 IMD 160 A 1 HETATM 4 C C4 IMD . . . D 3 42.83 8.396 62.997 1 31.41 ? C4 IMD 160 A 1 HETATM 5 C C5 IMD . . . D 3 42.201 7.821 61.948 1 19.61 ? C5 IMD 160 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 585 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 5 #