data_3KBC # _model_server_result.job_id 2-xXhByASCu7s63z31FJVw _model_server_result.datetime_utc '2024-12-04 12:03:35' _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 3kbc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":500}' # _entry.id 3KBC # _exptl.entry_id 3KBC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 133.103 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ASPARTIC ACID' _entity.pdbx_number_of_molecules 3 _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 3KBC _cell.length_a 113.142 _cell.length_b 206.78 _cell.length_c 205.971 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KBC _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,H,I,J,K,L,M,N,O _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 ? 2 D N N ? 2 H N N ? 2 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 O GLY 306 A GLY 306 1_555 F NA NA . A NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? metalc ? metalc2 A O THR 308 A THR 308 1_555 G NA NA . A NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc3 A O ASN 310 A ASN 310 1_555 F NA NA . A NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc4 A O SER 349 A SER 349 1_555 G NA NA . A NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc5 A O ILE 350 A ILE 350 1_555 G NA NA . A NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? metalc ? metalc6 A N GLY 351 A GLY 351 1_555 G NA NA . A NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.952 ? metalc ? metalc7 A O THR 352 A THR 352 1_555 G NA NA . A NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc8 A O ASN 401 A ASN 401 1_555 F NA NA . A NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.997 ? metalc ? metalc9 A OD1 ASP 405 A ASP 405 1_555 F NA NA . A NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.661 ? metalc ? metalc10 B O GLY 306 B GLY 306 1_555 J NA NA . B NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc11 B O THR 308 B THR 308 1_555 K NA NA . B NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? metalc ? metalc12 B O ASN 310 B ASN 310 1_555 J NA NA . B NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.508 ? metalc ? metalc13 B O SER 349 B SER 349 1_555 K NA NA . B NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc14 B O ILE 350 B ILE 350 1_555 K NA NA . B NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? metalc ? metalc15 B N GLY 351 B GLY 351 1_555 K NA NA . B NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? metalc ? metalc16 B N THR 352 B THR 352 1_555 K NA NA . B NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.98 ? metalc ? metalc17 B O THR 352 B THR 352 1_555 K NA NA . B NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? metalc ? metalc18 B OD1 ASP 405 B ASP 405 1_555 J NA NA . B NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc19 C O GLY 306 C GLY 306 1_555 N NA NA . C NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc20 C O THR 308 C THR 308 1_555 O NA NA . C NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? metalc ? metalc21 C O ASN 310 C ASN 310 1_555 N NA NA . C NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? metalc ? metalc22 C O SER 349 C SER 349 1_555 O NA NA . C NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc23 C O ILE 350 C ILE 350 1_555 O NA NA . C NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? metalc ? metalc24 C N GLY 351 C GLY 351 1_555 O NA NA . C NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.899 ? metalc ? metalc25 C O THR 352 C THR 352 1_555 O NA NA . C NA 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.647 ? metalc ? metalc26 C OD1 ASP 405 C ASP 405 1_555 N NA NA . C NA 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? # _chem_comp.formula 'C4 H7 N O4' _chem_comp.formula_weight 133.103 _chem_comp.id ASP _chem_comp.mon_nstd_flag y _chem_comp.name 'ASPARTIC ACID' _chem_comp.type 'l-peptide linking' _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 N CA ASP sing 55 n n N H ASP sing 56 n n N H2 ASP sing 57 n n CA C ASP sing 58 n n CA CB ASP sing 59 n n CA HA ASP sing 60 n n C O ASP doub 61 n n C OXT ASP sing 62 n n CB CG ASP sing 63 n n CB HB2 ASP sing 64 n n CB HB3 ASP sing 65 n n CG OD1 ASP doub 66 n n CG OD2 ASP sing 67 n n OD2 HD2 ASP sing 68 n n OXT HXT ASP sing 69 n n # _atom_sites.entry_id 3KBC _atom_sites.fract_transf_matrix[1][1] 0.008838 _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] 0.004836 _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] 0.004855 _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 D 2 ASP A 1 500 500 ASP ASP . E 3 HG A 1 501 501 HG HG . F 4 NA A 1 454 454 NA NA . G 4 NA A 1 453 453 NA NA . H 2 ASP B 1 500 500 ASP ASP . I 3 HG B 1 501 501 HG HG . J 4 NA B 1 454 454 NA NA . K 4 NA B 1 453 453 NA NA . L 2 ASP C 1 500 500 ASP ASP . M 3 HG C 1 501 501 HG HG . N 4 NA C 1 454 454 NA NA . O 4 NA C 1 453 453 NA NA . # 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 N ASP . . . H 2 -34.541 -0.017 -24.504 1 107.76 ? N ASP 500 B 1 HETATM 2 C CA ASP . . . H 2 -35.325 1.138 -23.976 1 107.82 ? CA ASP 500 B 1 HETATM 3 C C ASP . . . H 2 -35.2 1.247 -22.458 1 107.87 ? C ASP 500 B 1 HETATM 4 O O ASP . . . H 2 -36.173 1.549 -21.757 1 107.87 ? O ASP 500 B 1 HETATM 5 C CB ASP . . . H 2 -36.798 1.021 -24.37 1 107.77 ? CB ASP 500 B 1 HETATM 6 C CG ASP . . . H 2 -37.001 0.989 -25.88 1 107.67 ? CG ASP 500 B 1 HETATM 7 O OD1 ASP . . . H 2 -35.995 1.011 -26.626 1 107.37 ? OD1 ASP 500 B 1 HETATM 8 O OD2 ASP . . . H 2 -38.168 0.923 -26.319 1 107.51 ? OD2 ASP 500 B 1 HETATM 9 O OXT ASP . . . H 2 -34.124 1.037 -21.896 1 107.98 ? OXT ASP 500 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #