data_4Q5O # _model_server_result.job_id hEUKMwr06hmw1SDPJnKKig _model_server_result.datetime_utc '2024-10-19 10:26:33' _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 4q5o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":403}' # _entry.id 4Q5O # _exptl.entry_id 4Q5O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 158.155 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4S,5S)-5-HYDROXY-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID' _entity.pdbx_number_of_molecules 2 _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 4Q5O _cell.length_a 81.004 _cell.length_b 87.076 _cell.length_c 94.879 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Q5O _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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 ? 4 E 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 metalc ? metalc1 A NE2 HIS 152 A HIS 144 1_555 C FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc2 A OD1 ASP 154 A ASP 146 1_555 C FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc3 A NE2 HIS 253 A HIS 245 1_555 C FE FE . A FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc4 C FE FE . A FE 401 1_555 D O5 AKG . A AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc5 C FE FE . A FE 401 1_555 E OG1 6CS . A 6CS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc6 B NE2 HIS 152 B HIS 144 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc7 B OD1 ASP 154 B ASP 146 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc8 B OD2 ASP 154 B ASP 146 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc9 B NE2 HIS 253 B HIS 245 1_555 F FE FE . B FE 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc10 F FE FE . B FE 401 1_555 G O5 AKG . B AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc11 F FE FE . B FE 401 1_555 G O2 AKG . B AKG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? # _chem_comp.formula 'C6 H10 N2 O3' _chem_comp.formula_weight 158.155 _chem_comp.id 6CS _chem_comp.mon_nstd_flag . _chem_comp.name '(4S,5S)-5-HYDROXY-2-METHYL-1,4,5,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID' _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 O C 6CS doub 1 n n C OXT 6CS sing 2 n n C CA 6CS sing 3 n n OXT HXT 6CS sing 4 n n CA N 6CS sing 5 n n CA CB 6CS sing 6 n n CA HA 6CS sing 7 n n N CAI 6CS doub 8 n n CAI CAA 6CS sing 9 n n CAI NAG 6CS sing 10 n n CAA HAA1 6CS sing 11 n n CAA HAA2 6CS sing 12 n n CAA HAA3 6CS sing 13 n n NAG CG2 6CS sing 14 n n NAG HN 6CS sing 15 n n CG2 CB 6CS sing 16 n n CG2 HG21 6CS sing 17 n n CG2 HG22 6CS sing 18 n n CB OG1 6CS sing 19 n n CB HB 6CS sing 20 n n OG1 HOG1 6CS sing 21 n n # _atom_sites.entry_id 4Q5O _atom_sites.fract_transf_matrix[1][1] 0.012345 _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] 0.011484 _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] 0.01054 _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 FE A 1 401 1 FE FE . D 3 AKG A 1 402 1 AKG AKG . E 4 6CS A 1 403 1 6CS 6CS . F 2 FE B 1 401 2 FE FE . G 3 AKG B 1 402 1 AKG AKG . H 4 6CS B 1 403 1 6CS 6CS . I 5 HOH A 1 501 1 HOH HOH . I 5 HOH A 2 502 2 HOH HOH . I 5 HOH A 3 503 4 HOH HOH . I 5 HOH A 4 504 5 HOH HOH . I 5 HOH A 5 505 8 HOH HOH . I 5 HOH A 6 506 11 HOH HOH . I 5 HOH A 7 507 12 HOH HOH . I 5 HOH A 8 508 16 HOH HOH . I 5 HOH A 9 509 17 HOH HOH . I 5 HOH A 10 510 18 HOH HOH . I 5 HOH A 11 511 22 HOH HOH . I 5 HOH A 12 512 24 HOH HOH . I 5 HOH A 13 513 25 HOH HOH . I 5 HOH A 14 514 28 HOH HOH . J 5 HOH B 1 501 3 HOH HOH . J 5 HOH B 2 502 6 HOH HOH . J 5 HOH B 3 503 7 HOH HOH . J 5 HOH B 4 504 9 HOH HOH . J 5 HOH B 5 505 10 HOH HOH . J 5 HOH B 6 506 13 HOH HOH . J 5 HOH B 7 507 14 HOH HOH . J 5 HOH B 8 508 15 HOH HOH . J 5 HOH B 9 509 19 HOH HOH . J 5 HOH B 10 510 20 HOH HOH . J 5 HOH B 11 511 21 HOH HOH . J 5 HOH B 12 512 23 HOH HOH . J 5 HOH B 13 513 26 HOH HOH . J 5 HOH B 14 514 27 HOH HOH . J 5 HOH B 15 515 29 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 O O 6CS . . . H 4 -0.309 17.428 -33.571 1 76.72 ? O 6CS 403 B 1 HETATM 2 C C 6CS . . . H 4 -0.865 16.293 -33.725 1 73.72 ? C 6CS 403 B 1 HETATM 3 O OXT 6CS . . . H 4 -2.121 16.2 -33.8 1 66.73 ? OXT 6CS 403 B 1 HETATM 4 C CA 6CS . . . H 4 -0.042 15.057 -33.825 1 71.54 ? CA 6CS 403 B 1 HETATM 5 N N 6CS . . . H 4 1.291 15.412 -33.509 1 69.58 ? N 6CS 403 B 1 HETATM 6 C CAI 6CS . . . H 4 2.05 14.841 -32.597 1 68.21 ? CAI 6CS 403 B 1 HETATM 7 C CAA 6CS . . . H 4 3.44 15.39 -32.431 1 71.92 ? CAA 6CS 403 B 1 HETATM 8 N NAG 6CS . . . H 4 1.647 13.751 -31.767 1 77.03 ? NAG 6CS 403 B 1 HETATM 9 C CG2 6CS . . . H 4 0.356 13.256 -31.938 1 68.18 ? CG2 6CS 403 B 1 HETATM 10 C CB 6CS . . . H 4 -0.582 13.998 -32.888 1 73.46 ? CB 6CS 403 B 1 HETATM 11 O OG1 6CS . . . H 4 -1.302 13 -33.655 1 70.91 ? OG1 6CS 403 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 11 #