data_1Z7N # _model_server_result.job_id q9eH5wwZJoUsPM3Yp7qRLA _model_server_result.datetime_utc '2024-12-26 19:13:20' _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 1z7n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":4008}' # _entry.id 1Z7N # _exptl.entry_id 1Z7N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 390.07 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose _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 1Z7N _cell.length_a 151.684 _cell.length_b 222.936 _cell.length_c 86.38 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Z7N _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,M,N _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 ? 3 I N N ? 3 K N N ? 3 M N N ? 3 N N N # _chem_comp.formula 'C5 H13 O14 P3' _chem_comp.formula_weight 390.07 _chem_comp.id PRP _chem_comp.mon_nstd_flag n _chem_comp.name 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'ALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID;1-O-pyrophosphono-5-O-phosphono-alpha-D-ribose;1-O-pyrophosphono-5-O-phosphono-D-ribose;1-O-pyrophosphono-5-O-phosphono-ribose' # 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 PRP sing 279 n n C1 O1 PRP sing 280 n n C1 O4 PRP sing 281 n n C1 H1 PRP sing 282 n n C2 C3 PRP sing 283 n n C2 O2 PRP sing 284 n n C2 H2 PRP sing 285 n n C3 C4 PRP sing 286 n n C3 O3 PRP sing 287 n n C3 H3 PRP sing 288 n n C4 C5 PRP sing 289 n n C4 O4 PRP sing 290 n n C4 H4 PRP sing 291 n n C5 O5 PRP sing 292 n n C5 H51 PRP sing 293 n n C5 H52 PRP sing 294 n n O1 PA PRP sing 295 n n O2 HO2 PRP sing 296 n n O3 HO3 PRP sing 297 n n O5 P PRP sing 298 n n P O1P PRP doub 299 n n P O2P PRP sing 300 n n P O3P PRP sing 301 n n O2P HOP2 PRP sing 302 n n O3P HOP3 PRP sing 303 n n PA O1A PRP doub 304 n n PA O2A PRP sing 305 n n PA O3A PRP sing 306 n n O2A HOA2 PRP sing 307 n n O3A PB PRP sing 308 n n PB O1B PRP doub 309 n n PB O2B PRP sing 310 n n PB O3B PRP sing 311 n n O2B HOB2 PRP sing 312 n n O3B HOB3 PRP sing 313 n n # _pdbx_chem_comp_identifier.comp_id PRP _pdbx_chem_comp_identifier.identifier a-D-Ribf1PO35PO3 _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 1Z7N _atom_sites.fract_transf_matrix[1][1] 0.006593 _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] 0.004486 _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] 0.011577 _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 I 3 PRP E 1 4007 4007 PRP PRP . J 4 PO4 F 1 1002 2 PO4 PO4 . K 3 PRP F 1 4008 4007 PRP PRP . L 4 PO4 G 1 1001 1 PO4 PO4 . M 3 PRP G 1 4009 4007 PRP PRP . N 3 PRP H 1 4010 4007 PRP PRP . # 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 PRP . . . K 3 102.053 4.657 6 1 117.96 ? C1 PRP 4008 F 1 HETATM 2 C C2 PRP . . . K 3 101.849 6.137 6.409 1 117.96 ? C2 PRP 4008 F 1 HETATM 3 C C3 PRP . . . K 3 101.186 6.031 7.771 1 117.96 ? C3 PRP 4008 F 1 HETATM 4 C C4 PRP . . . K 3 100.372 4.755 7.693 1 117.96 ? C4 PRP 4008 F 1 HETATM 5 C C5 PRP . . . K 3 98.918 4.98 7.519 1 117.96 ? C5 PRP 4008 F 1 HETATM 6 O O1 PRP . . . K 3 103.319 4.196 6.579 1 117.96 ? O1 PRP 4008 F 1 HETATM 7 O O2 PRP . . . K 3 103.12 6.801 6.424 1 117.96 ? O2 PRP 4008 F 1 HETATM 8 O O3 PRP . . . K 3 102.238 5.948 8.764 1 117.96 ? O3 PRP 4008 F 1 HETATM 9 O O4 PRP . . . K 3 100.97 3.966 6.563 1 117.96 ? O4 PRP 4008 F 1 HETATM 10 O O5 PRP . . . K 3 98.127 3.804 7.731 1 117.96 ? O5 PRP 4008 F 1 HETATM 11 P P PRP . . . K 3 97.032 3.653 8.909 1 117.96 ? P PRP 4008 F 1 HETATM 12 O O1P PRP . . . K 3 97.72 3.181 10.17 1 117.96 ? O1P PRP 4008 F 1 HETATM 13 O O2P PRP . . . K 3 96.328 4.994 9.086 1 117.96 ? O2P PRP 4008 F 1 HETATM 14 O O3P PRP . . . K 3 96.122 2.582 8.33 1 117.96 ? O3P PRP 4008 F 1 HETATM 15 P PA PRP . . . K 3 104.567 3.822 5.624 1 117.96 ? PA PRP 4008 F 1 HETATM 16 O O1A PRP . . . K 3 104.094 2.976 4.502 1 117.96 ? O1A PRP 4008 F 1 HETATM 17 O O2A PRP . . . K 3 105.266 5.092 5.23 1 117.96 ? O2A PRP 4008 F 1 HETATM 18 O O3A PRP . . . K 3 105.415 2.932 6.661 1 117.96 ? O3A PRP 4008 F 1 HETATM 19 P PB PRP . . . K 3 106.143 3.427 8.071 1 117.96 ? PB PRP 4008 F 1 HETATM 20 O O1B PRP . . . K 3 105.004 4.032 8.912 1 117.96 ? O1B PRP 4008 F 1 HETATM 21 O O2B PRP . . . K 3 107.21 4.429 7.662 1 117.96 ? O2B PRP 4008 F 1 HETATM 22 O O3B PRP . . . K 3 106.706 2.164 8.679 1 117.96 ? O3B PRP 4008 F 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 29 _model_server_stats.query_time_ms 347 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 22 #