data_1KOD # _model_server_result.job_id 6Rw2MsX1MYooIW9bU95orQ _model_server_result.datetime_utc '2025-03-05 02:31:15' _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 1kod # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1}' # _entry.id 1KOD # _exptl.entry_id 1KOD _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 175.186 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CITRULLINE _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 1KOD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KOD _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 hydrog WATSON-CRICK hydrog1 A N1 A 1 A A 5 1_555 B N3 U 14 B U 40 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N6 A 1 A A 5 1_555 B O4 U 14 B U 40 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A N1 G 2 A G 6 1_555 B N3 C 13 B C 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N2 G 2 A G 6 1_555 B O2 C 13 B C 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O6 G 2 A G 6 1_555 B N4 C 13 B C 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-U MISPAIR' hydrog6 A N1 G 2 A G 6 1_555 B O2 U 14 B U 40 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_8_PAIR hydrog7 A N1 A 3 A A 7 1_555 B N1 G 12 B G 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_8_PAIR hydrog8 A N6 A 3 A A 7 1_555 B O6 G 12 B G 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-C MISPAIR' hydrog9 A N6 A 3 A A 7 1_555 B N3 C 13 B C 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-G MISPAIR' hydrog10 A N1 G 5 A G 9 1_555 A N7 G 8 A G 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog11 A N1 G 6 A G 10 1_555 B O2 C 11 B C 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-G MISPAIR' hydrog12 A N6 A 7 A A 11 1_555 B O6 G 4 B G 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-U PAIR' hydrog13 A N1 A 7 A A 11 1_555 B N3 U 10 B U 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_6_PAIR hydrog14 A N1 G 8 A G 12 1_555 B O6 G 9 B G 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_6_PAIR hydrog15 A N2 G 8 A G 12 1_555 B N7 G 9 B G 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-G MISPAIR' hydrog16 A O4 U 9 A U 13 1_555 B N1 G 3 B G 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N1 G 10 A G 14 1_555 B N3 C 2 B C 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N2 G 10 A G 14 1_555 B O2 C 2 B C 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O6 G 10 A G 14 1_555 B N4 C 2 B C 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N3 U 11 A U 15 1_555 B N1 A 1 B A 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A O4 U 11 A U 15 1_555 B N6 A 1 B A 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-G MISPAIR' hydrog22 B N3 A 7 B A 33 1_555 B N1 G 9 B G 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog23 B O6 G 8 B G 34 1_555 B N4 C 11 B C 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-G MISPAIR' hydrog24 B N1 G 8 B G 34 1_555 B O6 G 12 B G 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C6 H13 N3 O3' _chem_comp.formula_weight 175.186 _chem_comp.id CIR _chem_comp.mon_nstd_flag n _chem_comp.name CITRULLINE _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 C O CIR doub 76 n n C OXT CIR sing 77 n n C CA CIR sing 78 n n OXT HXT CIR sing 79 n n CA N CIR sing 80 n n CA C3 CIR sing 81 n n CA HA CIR sing 82 n n N H2 CIR sing 83 n n N H CIR sing 84 n n C3 C4 CIR sing 85 n n C3 H31 CIR sing 86 n n C3 H32 CIR sing 87 n n C4 C5 CIR sing 88 n n C4 H41 CIR sing 89 n n C4 H42 CIR sing 90 n n C5 N6 CIR sing 91 n n C5 H51 CIR sing 92 n n C5 H52 CIR sing 93 n n N6 C7 CIR sing 94 n n N6 HN6 CIR sing 95 n n C7 O7 CIR doub 96 n n C7 N8 CIR sing 97 n n N8 HN81 CIR sing 98 n n N8 HN82 CIR sing 99 n n # _atom_sites.entry_id 1KOD _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id CIR _pdbx_nonpoly_scheme.pdb_strand_id B _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id CIR _pdbx_nonpoly_scheme.auth_mon_id CIR _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C C CIR . . . C 3 1.787 4.103 36.211 1 1 ? C CIR 1 B 1 HETATM 2 O O CIR . . . C 3 1.108 3.115 36.448 1 1 ? O CIR 1 B 1 HETATM 3 O OXT CIR . . . C 3 2.914 4.278 36.657 1 1 ? OXT CIR 1 B 1 HETATM 4 C CA CIR . . . C 3 1.187 5.188 35.295 1 1 ? CA CIR 1 B 1 HETATM 5 N N CIR . . . C 3 1.457 6.536 35.882 1 1 ? N CIR 1 B 1 HETATM 6 C C3 CIR . . . C 3 1.802 5.11 33.878 1 1 ? C3 CIR 1 B 1 HETATM 7 C C4 CIR . . . C 3 2.366 3.72 33.614 1 1 ? C4 CIR 1 B 1 HETATM 8 C C5 CIR . . . C 3 1.224 2.732 33.387 1 1 ? C5 CIR 1 B 1 HETATM 9 N N6 CIR . . . C 3 1.736 1.341 33.591 1 1 ? N6 CIR 1 B 1 HETATM 10 C C7 CIR . . . C 3 0.948 0.312 33.429 1 1 ? C7 CIR 1 B 1 HETATM 11 O O7 CIR . . . C 3 0.826 -0.531 34.315 1 1 ? O7 CIR 1 B 1 HETATM 12 N N8 CIR . . . C 3 0.295 0.166 32.313 1 1 ? N8 CIR 1 B 1 # _model_server_stats.io_time_ms 4 _model_server_stats.parse_time_ms 4 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 12 #