data_3TNF # _model_server_result.job_id G-Rbq37BG9jRQPCv7cF0pQ _model_server_result.datetime_utc '2024-11-29 08:07:08' _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 3tnf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":3}' # _entry.id 3TNF # _exptl.entry_id 3TNF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 4 _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 3TNF _cell.length_a 103.82 _cell.length_b 103.82 _cell.length_c 150.61 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TNF _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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 _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 ? 5 E N N ? 5 F N N ? 5 G N N ? 5 H 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 OG1 THR 20 A THR 22 1_555 C MG MG . A MG 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc2 A OG1 THR 38 A THR 40 1_555 C MG MG . A MG 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.613 ? metalc ? metalc3 A O THR 62 A THR 64 1_555 C MG MG . A MG 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.957 ? metalc ? metalc4 C MG MG . A MG 199 1_555 D O2B GNP . A GNP 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc5 C MG MG . A MG 199 1_555 D O2G GNP . A GNP 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C1 C2 MPD sing 288 n n C1 H11 MPD sing 289 n n C1 H12 MPD sing 290 n n C1 H13 MPD sing 291 n n C2 O2 MPD sing 292 n n C2 CM MPD sing 293 n n C2 C3 MPD sing 294 n n O2 HO2 MPD sing 295 n n CM HM1 MPD sing 296 n n CM HM2 MPD sing 297 n n CM HM3 MPD sing 298 n n C3 C4 MPD sing 299 n n C3 H31 MPD sing 300 n n C3 H32 MPD sing 301 n n C4 O4 MPD sing 302 n n C4 C5 MPD sing 303 n n C4 H4 MPD sing 304 n n O4 HO4 MPD sing 305 n n C5 H51 MPD sing 306 n n C5 H52 MPD sing 307 n n C5 H53 MPD sing 308 n n # _atom_sites.entry_id 3TNF _atom_sites.fract_transf_matrix[1][1] 0.009632 _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] 0.009632 _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] 0.00664 _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 3 MG A 1 199 199 MG MG . D 4 GNP A 1 200 200 GNP GNP . E 5 MPD A 1 1 1 MPD MPD . F 5 MPD A 1 177 4 MPD MPD . G 5 MPD B 1 2 2 MPD MPD . H 5 MPD B 1 3 3 MPD MPD . I 6 HOH A 1 2 2 HOH HOH . I 6 HOH A 2 178 1 HOH HOH . I 6 HOH A 3 179 3 HOH HOH . I 6 HOH A 4 180 4 HOH HOH . I 6 HOH A 5 181 5 HOH HOH . I 6 HOH A 6 182 6 HOH HOH . I 6 HOH A 7 183 7 HOH HOH . I 6 HOH A 8 184 8 HOH HOH . I 6 HOH A 9 185 9 HOH HOH . I 6 HOH A 10 186 10 HOH HOH . I 6 HOH A 11 187 11 HOH HOH . I 6 HOH A 12 188 12 HOH HOH . I 6 HOH A 13 189 13 HOH HOH . I 6 HOH A 14 190 14 HOH HOH . I 6 HOH A 15 191 15 HOH HOH . I 6 HOH A 16 192 16 HOH HOH . I 6 HOH A 17 193 17 HOH HOH . I 6 HOH A 18 194 18 HOH HOH . I 6 HOH A 19 195 19 HOH HOH . I 6 HOH A 20 196 20 HOH HOH . I 6 HOH A 21 197 21 HOH HOH . I 6 HOH A 22 198 22 HOH HOH . I 6 HOH A 23 201 23 HOH HOH . I 6 HOH A 24 202 24 HOH HOH . I 6 HOH A 25 203 25 HOH HOH . I 6 HOH A 26 204 26 HOH HOH . J 6 HOH B 1 27 27 HOH HOH . J 6 HOH B 2 28 28 HOH HOH . J 6 HOH B 3 29 29 HOH HOH . J 6 HOH B 4 30 30 HOH HOH . J 6 HOH B 5 31 31 HOH HOH . J 6 HOH B 6 32 32 HOH HOH . J 6 HOH B 7 33 33 HOH HOH . J 6 HOH B 8 34 34 HOH HOH . J 6 HOH B 9 35 35 HOH HOH . J 6 HOH B 10 36 36 HOH HOH . J 6 HOH B 11 37 37 HOH HOH . J 6 HOH B 12 38 38 HOH HOH . J 6 HOH B 13 39 39 HOH HOH . J 6 HOH B 14 40 40 HOH HOH . J 6 HOH B 15 41 41 HOH HOH . J 6 HOH B 16 42 42 HOH HOH . J 6 HOH B 17 43 43 HOH HOH . J 6 HOH B 18 44 44 HOH HOH . J 6 HOH B 19 45 45 HOH HOH . J 6 HOH B 20 46 46 HOH HOH . J 6 HOH B 21 47 47 HOH HOH . J 6 HOH B 22 48 48 HOH HOH . J 6 HOH B 23 49 49 HOH HOH . J 6 HOH B 24 50 50 HOH HOH . J 6 HOH B 25 51 51 HOH HOH . J 6 HOH B 26 52 52 HOH HOH . J 6 HOH B 27 53 53 HOH HOH . J 6 HOH B 28 54 54 HOH HOH . J 6 HOH B 29 55 55 HOH HOH . J 6 HOH B 30 56 56 HOH HOH . J 6 HOH B 31 57 57 HOH HOH . J 6 HOH B 32 58 58 HOH HOH . J 6 HOH B 33 59 59 HOH HOH . J 6 HOH B 34 60 60 HOH HOH . J 6 HOH B 35 61 61 HOH HOH . J 6 HOH B 36 62 62 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 C1 MPD . . . H 5 47.586 -12.378 30.7 1 89.87 ? C1 MPD 3 B 1 HETATM 2 C C2 MPD . . . H 5 48.443 -11.198 31.132 1 89.15 ? C2 MPD 3 B 1 HETATM 3 O O2 MPD . . . H 5 47.843 -9.984 30.604 1 84.92 ? O2 MPD 3 B 1 HETATM 4 C CM MPD . . . H 5 48.445 -11.143 32.661 1 89.49 ? CM MPD 3 B 1 HETATM 5 C C3 MPD . . . H 5 49.884 -11.343 30.626 1 86.52 ? C3 MPD 3 B 1 HETATM 6 C C4 MPD . . . H 5 49.98 -11.77 29.162 1 90.3 ? C4 MPD 3 B 1 HETATM 7 O O4 MPD . . . H 5 50.35 -10.679 28.341 1 85.37 ? O4 MPD 3 B 1 HETATM 8 C C5 MPD . . . H 5 51.005 -12.888 29.001 1 91.85 ? C5 MPD 3 B 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 8 #