data_5ODM # _model_server_result.job_id 6e8p2A0wxBdmD1NjxouH-Q _model_server_result.datetime_utc '2024-10-19 11:38:24' _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 5odm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":104}' # _entry.id 5ODM # _exptl.entry_id 5ODM _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 103.12 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'GAMMA-AMINO-BUTANOIC ACID' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _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,E,F,G,H,I,J,K,L _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 ? _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 4 _struct_asym.id G _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 A O3' DCZ 1 A DCZ 1 1_555 A P DG 2 A DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? covale ? covale2 C C81 9U2 . A 9U2 100 1_555 D N PYB . A PYB 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? covale ? covale3 D C PYB . A PYB 101 1_555 E N PYB . A PYB 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale4 E C PYB . A PYB 102 1_555 F N PYB . A PYB 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? covale ? covale5 F C PYB . A PYB 103 1_555 G N ABU . A ABU 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? covale ? covale6 G C ABU . A ABU 104 1_555 H N IMT . A IMT 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale7 H C IMT . A IMT 105 1_555 I N PYB . A PYB 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.394 ? covale ? covale8 I C PYB . A PYB 106 1_555 J N PYB . A PYB 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale9 J C PYB . A PYB 107 1_555 K N PYB . A PYB 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale10 K C PYB . A PYB 108 1_555 L N03 9T8 . A 9T8 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 ? covale ? covale11 B O3' DCZ 1 B DCZ 13 1_555 B P DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? hydrog WATSON-CRICK hydrog1 A N1 DG 2 A DG 2 1_555 B N3 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 2 A DG 2 1_555 B O2 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 2 A DG 2 1_555 B N4 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DA 3 A DA 3 1_555 B N3 DT 10 B DT 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N6 DA 3 A DA 3 1_555 B O4 DT 10 B DT 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N3 DT 4 A DT 4 1_555 B N1 DA 9 B DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A O4 DT 4 A DT 4 1_555 B N6 DA 9 B DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 DG 5 A DG 5 1_555 B N3 DC 8 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N2 DG 5 A DG 5 1_555 B O2 DC 8 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O6 DG 5 A DG 5 1_555 B N4 DC 8 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 DT 6 A DT 6 1_555 B N1 DA 7 B DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O4 DT 6 A DT 6 1_555 B N6 DA 7 B DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 7 A DA 7 1_555 B N3 DT 6 B DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 7 A DA 7 1_555 B O4 DT 6 B DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DC 8 A DC 8 1_555 B N1 DG 5 B DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N4 DC 8 A DC 8 1_555 B O6 DG 5 B DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O2 DC 8 A DC 8 1_555 B N2 DG 5 B DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N1 DA 9 A DA 9 1_555 B N3 DT 4 B DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N6 DA 9 A DA 9 1_555 B O4 DT 4 B DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N3 DT 10 A DT 10 1_555 B N1 DA 3 B DA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A O4 DT 10 A DT 10 1_555 B N6 DA 3 B DA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C4 H9 N O2' _chem_comp.formula_weight 103.12 _chem_comp.id ABU _chem_comp.mon_nstd_flag . _chem_comp.name 'GAMMA-AMINO-BUTANOIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'GAMMA(AMINO)-BUTYRIC 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 N CD ABU sing 52 n n N H ABU sing 53 n n N H2 ABU sing 54 n n CD CB ABU sing 55 n n CD HA1 ABU sing 56 n n CD HA2 ABU sing 57 n n CB CG ABU sing 58 n n CB HB1 ABU sing 59 n n CB HB2 ABU sing 60 n n CG C ABU sing 61 n n CG HG1 ABU sing 62 n n CG HG2 ABU sing 63 n n C O ABU doub 64 n n C OXT ABU sing 65 n n OXT HXT ABU sing 66 n n # _atom_sites.entry_id 5ODM _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 # 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 9U2 A 1 100 25 9U2 PA7 . D 3 PYB A 1 101 25 PYB PA7 . E 3 PYB A 1 102 25 PYB PA7 . F 3 PYB A 1 103 25 PYB PA7 . G 4 ABU A 1 104 25 ABU PA7 . H 5 IMT A 1 105 25 IMT PA7 . I 3 PYB A 1 106 25 PYB PA7 . J 3 PYB A 1 107 25 PYB PA7 . K 3 PYB A 1 108 25 PYB PA7 . L 6 9T8 A 1 109 25 9T8 PA7 . # 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 ABU . . . G 4 27.069 33.287 30.881 1 0 ? N ABU 104 A 1 HETATM 2 C CD ABU . . . G 4 26.854 33.727 29.501 1 0 ? CD ABU 104 A 1 HETATM 3 C CB ABU . . . G 4 26.212 32.606 28.662 1 0 ? CB ABU 104 A 1 HETATM 4 C CG ABU . . . G 4 27.199 31.644 27.955 1 0 ? CG ABU 104 A 1 HETATM 5 C C ABU . . . G 4 28.293 30.989 28.813 1 0 ? C ABU 104 A 1 HETATM 6 O O ABU . . . G 4 29.472 31.15 28.543 1 0 ? O ABU 104 A 1 HETATM 7 H H ABU . . . G 4 26.268 33.152 31.486 1 0 ? H ABU 104 A 1 HETATM 8 H HA1 ABU . . . G 4 26.163 34.58 29.525 1 0 ? HA1 ABU 104 A 1 HETATM 9 H HA2 ABU . . . G 4 27.791 34.068 29.038 1 0 ? HA2 ABU 104 A 1 HETATM 10 H HB1 ABU . . . G 4 25.616 33.079 27.873 1 0 ? HB1 ABU 104 A 1 HETATM 11 H HB2 ABU . . . G 4 25.5 32.042 29.275 1 0 ? HB2 ABU 104 A 1 HETATM 12 H HG1 ABU . . . G 4 27.695 32.178 27.135 1 0 ? HG1 ABU 104 A 1 HETATM 13 H HG2 ABU . . . G 4 26.601 30.861 27.491 1 0 ? HG2 ABU 104 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 3062 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 13 #