data_3T28 # _model_server_result.job_id BHPg2W5mh7dUVgN5ivHNBQ _model_server_result.datetime_utc '2024-11-08 11:58:42' _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 3t28 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":263}' # _entry.id 3T28 # _exptl.entry_id 3T28 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 75.11 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'trimethylamine oxide' _entity.pdbx_number_of_molecules 5 _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 3T28 _cell.length_a 53.927 _cell.length_b 53.927 _cell.length_c 181.905 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3T28 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 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 disulf ? disulf1 A SG CYS 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc1 A OE1 GLU 52 A GLU 70 1_555 B CA CA . A CA 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc2 A O ASN 54 A ASN 72 1_555 B CA CA . A CA 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc3 A O VAL 57 A VAL 75 1_555 B CA CA . A CA 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc4 A OE2 GLU 62 A GLU 80 1_555 B CA CA . A CA 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc5 B CA CA . A CA 252 1_555 I O HOH . A HOH 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc6 B CA CA . A CA 252 1_555 I O HOH . A HOH 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.964 ? # _chem_comp.formula 'C3 H9 N O' _chem_comp.formula_weight 75.11 _chem_comp.id TMO _chem_comp.mon_nstd_flag . _chem_comp.name 'trimethylamine oxide' _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 CAA NAC TMO sing 323 n n CAA HAA TMO sing 324 n n CAA HAAA TMO sing 325 n n CAA HAAB TMO sing 326 n n NAC CAD TMO sing 327 n n NAC CAB TMO sing 328 n n NAC OAE TMO sing 329 n n CAD HAD TMO sing 330 n n CAD HADA TMO sing 331 n n CAD HADB TMO sing 332 n n CAB HAB TMO sing 333 n n CAB HABA TMO sing 334 n n CAB HABB TMO sing 335 n n # _atom_sites.entry_id 3T28 _atom_sites.fract_transf_matrix[1][1] 0.018544 _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] 0.018544 _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] 0.005497 _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 CA A 1 252 252 CA CA . C 3 BEN A 1 253 253 BEN BDN . D 4 TMO A 1 261 261 TMO TMO . E 4 TMO A 1 262 262 TMO TMO . F 4 TMO A 1 263 263 TMO TMO . G 4 TMO A 1 264 264 TMO TMO . H 4 TMO A 1 265 265 TMO TMO . I 5 HOH A 1 301 301 HOH HOH . I 5 HOH A 2 302 302 HOH HOH . I 5 HOH A 3 303 303 HOH HOH . I 5 HOH A 4 304 304 HOH HOH . I 5 HOH A 5 305 305 HOH HOH . I 5 HOH A 6 306 306 HOH HOH . I 5 HOH A 7 307 307 HOH HOH . I 5 HOH A 8 308 308 HOH HOH . I 5 HOH A 9 309 309 HOH HOH . I 5 HOH A 10 310 310 HOH HOH . I 5 HOH A 11 311 311 HOH HOH . I 5 HOH A 12 312 312 HOH HOH . I 5 HOH A 13 313 313 HOH HOH . I 5 HOH A 14 314 314 HOH HOH . I 5 HOH A 15 315 315 HOH HOH . I 5 HOH A 16 316 316 HOH HOH . I 5 HOH A 17 317 317 HOH HOH . I 5 HOH A 18 318 318 HOH HOH . I 5 HOH A 19 319 319 HOH HOH . I 5 HOH A 20 320 320 HOH HOH . I 5 HOH A 21 321 321 HOH HOH . I 5 HOH A 22 322 322 HOH HOH . I 5 HOH A 23 323 323 HOH HOH . I 5 HOH A 24 324 324 HOH HOH . I 5 HOH A 25 325 325 HOH HOH . I 5 HOH A 26 326 326 HOH HOH . I 5 HOH A 27 327 327 HOH HOH . I 5 HOH A 28 328 328 HOH HOH . I 5 HOH A 29 329 329 HOH HOH . I 5 HOH A 30 330 330 HOH HOH . I 5 HOH A 31 331 331 HOH HOH . I 5 HOH A 32 332 332 HOH HOH . I 5 HOH A 33 333 333 HOH HOH . I 5 HOH A 34 334 334 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 CAA TMO . . . F 4 0.076 37.261 13.303 1 29.82 ? CAA TMO 263 A 1 HETATM 2 N NAC TMO . . . F 4 1.095 37.815 12.396 1 29.9 ? NAC TMO 263 A 1 HETATM 3 C CAD TMO . . . F 4 2.264 38.326 13.135 1 30.74 ? CAD TMO 263 A 1 HETATM 4 C CAB TMO . . . F 4 1.541 36.811 11.429 1 29.51 ? CAB TMO 263 A 1 HETATM 5 O OAE TMO . . . F 4 0.466 38.887 11.669 1 27.81 ? OAE TMO 263 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 5 #