data_3NC7 # _model_server_result.job_id Lm0CGuFp2usO5TjrEDwP5Q _model_server_result.datetime_utc '2025-06-27 01:23:43' _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 3nc7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":407}' # _entry.id 3NC7 # _exptl.entry_id 3NC7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 144.173 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-phenyl-1H-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 90 _cell.angle_gamma 90 _cell.entry_id 3NC7 _cell.length_a 64.36 _cell.length_b 106.79 _cell.length_c 142.09 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NC7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,I 1 1 B,F,G,H,J 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 ? 3 D N N ? 3 G 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 O ALA 172 A ALA 136 1_555 E MG MG . A MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.807 ? metalc ? metalc2 A SG CYS 389 A CYS 353 1_555 C FE HEM . A HEM 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc3 A OE1 GLU 398 A GLU 362 1_555 E MG MG . A MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.734 ? metalc ? metalc4 B O ALA 172 B ALA 136 1_555 H MG MG . B MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.864 ? metalc ? metalc5 B SG CYS 389 B CYS 353 1_555 F FE HEM . B HEM 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc6 B OE1 GLU 398 B GLU 362 1_555 H MG MG . B MG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? # _chem_comp.formula 'C9 H8 N2' _chem_comp.formula_weight 144.173 _chem_comp.id PIY _chem_comp.mon_nstd_flag . _chem_comp.name 2-phenyl-1H-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 C2 N1 PIY sing 342 n y N1 C4 PIY sing 343 n y C6 C2 PIY sing 344 n y C2 N3 PIY doub 345 n y N3 C5 PIY sing 346 n y C4 C5 PIY doub 347 n y C4 H4 PIY sing 348 n n C5 H5 PIY sing 349 n n C7 C6 PIY doub 350 n y C11 C6 PIY sing 351 n y C8 C7 PIY sing 352 n y C7 H7 PIY sing 353 n n C9 C8 PIY doub 354 n y C8 H8 PIY sing 355 n n C9 C10 PIY sing 356 n y C9 H9 PIY sing 357 n n C10 C11 PIY doub 358 n y C10 H10 PIY sing 359 n n C11 H11 PIY sing 360 n n N1 HN1 PIY sing 361 n n # _atom_sites.entry_id 3NC7 _atom_sites.fract_transf_matrix[1][1] 0.015538 _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] 0.009364 _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] 0.007038 _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 1 406 1 HEM HEM . D 3 PIY A 1 407 2 PIY PIY . E 4 MG A 1 408 2 MG MG . F 2 HEM B 1 406 1 HEM HEM . G 3 PIY B 1 407 1 PIY PIY . H 4 MG B 1 408 1 MG MG . I 5 HOH A 1 409 1 HOH HOH . J 5 HOH B 1 409 2 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 PIY . . . D 3 28.553 -17.966 -14.777 1 73.53 ? N1 PIY 407 A 1 HETATM 2 C C2 PIY . . . D 3 27.376 -18.03 -15.444 1 73.95 ? C2 PIY 407 A 1 HETATM 3 N N3 PIY . . . D 3 26.526 -18.829 -14.767 1 73.02 ? N3 PIY 407 A 1 HETATM 4 C C4 PIY . . . D 3 28.443 -18.726 -13.673 1 73.42 ? C4 PIY 407 A 1 HETATM 5 C C5 PIY . . . D 3 27.173 -19.268 -13.671 1 73.36 ? C5 PIY 407 A 1 HETATM 6 C C6 PIY . . . D 3 27.066 -17.332 -16.723 1 74.76 ? C6 PIY 407 A 1 HETATM 7 C C7 PIY . . . D 3 28.107 -16.872 -17.538 1 75.13 ? C7 PIY 407 A 1 HETATM 8 C C8 PIY . . . D 3 27.807 -16.223 -18.737 1 75.15 ? C8 PIY 407 A 1 HETATM 9 C C9 PIY . . . D 3 26.475 -16.032 -19.119 1 75 ? C9 PIY 407 A 1 HETATM 10 C C10 PIY . . . D 3 25.437 -16.49 -18.308 1 74.73 ? C10 PIY 407 A 1 HETATM 11 C C11 PIY . . . D 3 25.736 -17.141 -17.11 1 74.72 ? C11 PIY 407 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 11 #