data_5XNK # _model_server_result.job_id SwtjIuTxsh54-dkCBWLbnw _model_server_result.datetime_utc '2024-11-28 13:34:27' _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 5xnk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 5XNK # _exptl.entry_id 5XNK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 147.129 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-METHYL-BETA-D-ASPARTIC ACID' _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 120 _cell.entry_id 5XNK _cell.length_a 129.046 _cell.length_b 129.046 _cell.length_c 43.898 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XNK _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 29.265333 # _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 covale ? covale1 B C 2AS . A 2AS 301 1_555 C OXT ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.282 ? covale ? covale2 B C 2AS . A 2AS 301 1_555 C CA ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.287 ? covale ? covale3 B CA 2AS . A 2AS 301 1_555 C C ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.574 ? covale ? covale4 B CA 2AS . A 2AS 301 1_555 C CA ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale5 B CA 2AS . A 2AS 301 1_555 C CB ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.497 ? covale ? covale6 B CB 2AS . A 2AS 301 1_555 C CG ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.631 ? covale ? covale7 B CG 2AS . A 2AS 301 1_555 C CB ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? covale ? covale8 B C4 2AS . A 2AS 301 1_555 C CB ACB . A ACB 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.488 ? # _chem_comp.formula 'C5 H9 N O4' _chem_comp.formula_weight 147.129 _chem_comp.id ACB _chem_comp.mon_nstd_flag . _chem_comp.name '3-METHYL-BETA-D-ASPARTIC ACID' _chem_comp.type 'd-beta-peptide, c-gamma linking' _chem_comp.pdbx_synonyms '(3S)-3-methyl-D-aspartic acid;D-METHYL ASPARTIC ACID' # 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 ACB doub 19 n n C OXT ACB sing 20 n n C CA ACB sing 21 n n OXT HXT ACB sing 22 n n CA N ACB sing 23 n n CA CB ACB sing 24 n n CA HA ACB sing 25 n n N H ACB sing 26 n n N H2 ACB sing 27 n n CB CG ACB sing 28 n n CB C4 ACB sing 29 n n CB HB3 ACB sing 30 n n CG OD1 ACB doub 31 n n CG OD2 ACB sing 32 n n C4 H41 ACB sing 33 n n C4 H42 ACB sing 34 n n C4 H43 ACB sing 35 n n OD2 HD2 ACB sing 36 n n # _atom_sites.entry_id 5XNK _atom_sites.fract_transf_matrix[1][1] 0.007749 _atom_sites.fract_transf_matrix[1][2] 0.004474 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008948 _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] 0.02278 _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 B 2 2AS A 1 301 1 2AS 2AS . C 3 ACB A 1 302 1 ACB ACB . D 4 HOH A 1 401 4 HOH HOH . D 4 HOH A 2 402 1 HOH HOH . D 4 HOH A 3 403 2 HOH HOH . D 4 HOH A 4 404 3 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 C C ACB . . . C 3 44.676 -43.66 9.955 0.5 69.98 ? C ACB 302 A 1 HETATM 2 O O ACB . . . C 3 45.608 -44.463 10.039 0.5 69.44 ? O ACB 302 A 1 HETATM 3 O OXT ACB . . . C 3 44.631 -42.612 10.613 0.5 67.6 ? OXT ACB 302 A 1 HETATM 4 C CA ACB . . . C 3 43.567 -43.978 9.019 0.5 71.74 ? CA ACB 302 A 1 HETATM 5 N N ACB . . . C 3 43.259 -45.383 9.063 0.5 72.58 ? N ACB 302 A 1 HETATM 6 C CB ACB . . . C 3 44.016 -43.701 7.611 0.5 73.4 ? CB ACB 302 A 1 HETATM 7 C CG ACB . . . C 3 42.766 -43.775 6.782 0.5 76.24 ? CG ACB 302 A 1 HETATM 8 O OD1 ACB . . . C 3 42.422 -42.598 6.311 0.5 79.68 ? OD1 ACB 302 A 1 HETATM 9 C C4 ACB . . . C 3 44.775 -42.38 7.581 0.5 72.83 ? C4 ACB 302 A 1 HETATM 10 O OD2 ACB . . . C 3 42.405 -45.03 6.824 0.5 76.45 ? OD2 ACB 302 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 10 #