data_4AC9 # _model_server_result.job_id h8t_FXtHa4Wz-87YsVc40g _model_server_result.datetime_utc '2024-11-23 02:45:36' _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 4ac9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1474}' # _entry.id 4AC9 # _exptl.entry_id 4AC9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.221 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-MONOPHOSPHATE" _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 4AC9 _cell.length_a 146.92 _cell.length_b 146.92 _cell.length_c 297.48 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4AC9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 151 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 1 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,Z 1 1 B,G,H,I,J,K,L,AA 2 1 C,M,N,O,P,Q,R,S,T,U,V,W,X,Y,BA 3 1 D 4 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 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id L _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 C GLY 277 A GLY 263 1_555 A N CMH 278 A CMH 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C CMH 278 A CMH 264 1_555 A N ILE 279 A ILE 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C GLU 351 A GLU 337 1_555 A N CMH 352 A CMH 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C CMH 352 A CMH 338 1_555 A N TYR 353 A TYR 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 A C TYR 353 A TYR 339 1_555 A N CMH 354 A CMH 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale6 A C CMH 354 A CMH 340 1_555 A N ALA 355 A ALA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 A C ILE 384 A ILE 370 1_555 A N CMH 385 A CMH 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale8 A C CMH 385 A CMH 371 1_555 A N GLY 386 A GLY 372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale9 B C GLY 277 B GLY 263 1_555 B N CMH 278 B CMH 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 B C CMH 278 B CMH 264 1_555 B N ILE 279 B ILE 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale11 B C GLU 351 B GLU 337 1_555 B N CMH 352 B CMH 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale12 B C CMH 352 B CMH 338 1_555 B N TYR 353 B TYR 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale13 B C TYR 353 B TYR 339 1_555 B N CMH 354 B CMH 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale14 B C CMH 354 B CMH 340 1_555 B N ALA 355 B ALA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale15 B C ILE 384 B ILE 370 1_555 B N CMH 385 B CMH 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale16 B C CMH 385 B CMH 371 1_555 B N GLY 386 B GLY 372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale17 C C GLY 277 C GLY 263 1_555 C N CMH 278 C CMH 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale18 C C CMH 278 C CMH 264 1_555 C N ILE 279 C ILE 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale19 C C GLU 351 C GLU 337 1_555 C N CMH 352 C CMH 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale20 C C CMH 352 C CMH 338 1_555 C N TYR 353 C TYR 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale21 C C TYR 353 C TYR 339 1_555 C N CMH 354 C CMH 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale22 C C CMH 354 C CMH 340 1_555 C N ALA 355 C ALA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale23 C C ILE 384 C ILE 370 1_555 C N CMH 385 C CMH 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale24 C C CMH 385 C CMH 371 1_555 C N GLY 386 C GLY 372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale25 D C GLY 277 D GLY 263 1_555 D N CMH 278 D CMH 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale26 D C CMH 278 D CMH 264 1_555 D N ILE 279 D ILE 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale27 D C GLU 351 D GLU 337 1_555 D N CMH 352 D CMH 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale28 D C CMH 352 D CMH 338 1_555 D N TYR 353 D TYR 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale29 D C TYR 353 D TYR 339 1_555 D N CMH 354 D CMH 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale30 D C CMH 354 D CMH 340 1_555 D N ALA 355 D ALA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale31 D C ILE 384 D ILE 370 1_555 D N CMH 385 D CMH 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale32 D C CMH 385 D CMH 371 1_555 D N GLY 386 D GLY 372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 A OG1 THR 33 A THR 19 1_555 F MG MG . A MG 1470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc2 E O2B GDP . A GDP 1469 1_555 F MG MG . A MG 1470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc3 F MG MG . A MG 1470 1_555 Z O HOH . A HOH 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc4 F MG MG . A MG 1470 1_555 Z O HOH . A HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc5 F MG MG . A MG 1470 1_555 Z O HOH . A HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc6 F MG MG . A MG 1470 1_555 Z O HOH . A HOH 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc7 B OG1 THR 33 B THR 19 1_555 H MG MG . B MG 1470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc8 B O GLU 351 B GLU 337 1_555 B HG CMH 352 B CMH 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.073 ? metalc ? metalc9 G O2B GDP . B GDP 1469 1_555 H MG MG . B MG 1470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc10 H MG MG . B MG 1470 1_555 AA O HOH . B HOH 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc11 H MG MG . B MG 1470 1_555 AA O HOH . B HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc12 H MG MG . B MG 1470 1_555 AA O HOH . B HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc13 H MG MG . B MG 1470 1_555 AA O HOH . B HOH 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc14 C OG1 THR 33 C THR 19 1_555 N MG MG . C MG 1470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc15 C O GLU 351 C GLU 337 1_555 C HG CMH 352 C CMH 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.983 ? metalc ? metalc16 M O2B GDP . C GDP 1469 1_555 N MG MG . C MG 1470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc17 N MG MG . C MG 1470 1_555 BA O HOH . C HOH 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc18 N MG MG . C MG 1470 1_555 BA O HOH . C HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc19 N MG MG . C MG 1470 1_555 BA O HOH . C HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc20 N MG MG . C MG 1470 1_555 BA O HOH . C HOH 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? # _chem_comp.formula 'C10 H14 N5 O8 P' _chem_comp.formula_weight 363.221 _chem_comp.id 5GP _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5'-MONOPHOSPHATE" _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 P O1P 5GP doub 1 n n P O2P 5GP sing 2 n n P O3P 5GP sing 3 n n P O5' 5GP sing 4 n n O2P HOP2 5GP sing 5 n n O3P HOP3 5GP sing 6 n n O5' C5' 5GP sing 7 n n C5' C4' 5GP sing 8 n n C5' "H5'1" 5GP sing 9 n n C5' "H5'2" 5GP sing 10 n n C4' O4' 5GP sing 11 n n C4' C3' 5GP sing 12 n n C4' H4' 5GP sing 13 n n O4' C1' 5GP sing 14 n n C3' O3' 5GP sing 15 n n C3' C2' 5GP sing 16 n n C3' H3' 5GP sing 17 n n O3' HO3' 5GP sing 18 n n C2' O2' 5GP sing 19 n n C2' C1' 5GP sing 20 n n C2' H2' 5GP sing 21 n n O2' HO2' 5GP sing 22 n n C1' N9 5GP sing 23 n n C1' H1' 5GP sing 24 n n N9 C8 5GP sing 25 n y N9 C4 5GP sing 26 n y C8 N7 5GP doub 27 n y C8 H8 5GP sing 28 n n N7 C5 5GP sing 29 n y C5 C6 5GP sing 30 n n C5 C4 5GP doub 31 n y C6 O6 5GP doub 32 n n C6 N1 5GP sing 33 n n N1 C2 5GP sing 34 n n N1 HN1 5GP sing 35 n n C2 N2 5GP sing 36 n n C2 N3 5GP doub 37 n n N2 HN21 5GP sing 38 n n N2 HN22 5GP sing 39 n n N3 C4 5GP sing 40 n n # _atom_sites.entry_id 4AC9 _atom_sites.fract_transf_matrix[1][1] 0.006806 _atom_sites.fract_transf_matrix[1][2] 0.00393 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007859 _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] 0.003362 _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 E 2 GDP A 1 1469 1469 GDP GDP . F 3 MG A 1 1470 1470 MG MG . G 2 GDP B 1 1469 1469 GDP GDP . H 3 MG B 1 1470 1470 MG MG . I 4 SO4 B 1 1471 1471 SO4 SO4 . J 4 SO4 B 1 1472 1472 SO4 SO4 . K 5 DXC B 1 1473 1473 DXC DXC . L 6 5GP B 1 1474 1474 5GP 5GP . M 2 GDP C 1 1469 1469 GDP GDP . N 3 MG C 1 1470 1470 MG MG . O 4 SO4 C 1 1471 1471 SO4 SO4 . P 4 SO4 C 1 1472 1472 SO4 SO4 . Q 4 SO4 C 1 1473 1473 SO4 SO4 . R 4 SO4 C 1 1474 1474 SO4 SO4 . S 5 DXC C 1 1475 1475 DXC DXC . T 5 DXC C 1 1476 1476 DXC DXC . U 5 DXC C 1 1477 1477 DXC DXC . V 5 DXC C 1 1478 1478 DXC DXC . W 5 DXC C 1 1479 1479 DXC DXC . X 5 DXC C 1 1480 1480 DXC DXC . Y 4 SO4 C 1 1481 1481 SO4 SO4 . Z 7 HOH A 1 2001 2001 HOH HOH . Z 7 HOH A 2 2002 2002 HOH HOH . Z 7 HOH A 3 2003 2003 HOH HOH . Z 7 HOH A 4 2004 2004 HOH HOH . AA 7 HOH B 1 2001 2001 HOH HOH . AA 7 HOH B 2 2002 2002 HOH HOH . AA 7 HOH B 3 2003 2003 HOH HOH . AA 7 HOH B 4 2004 2004 HOH HOH . BA 7 HOH C 1 2001 2001 HOH HOH . BA 7 HOH C 2 2002 2002 HOH HOH . BA 7 HOH C 3 2003 2003 HOH HOH . BA 7 HOH C 4 2004 2004 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 P P 5GP . . . L 6 32.127 -21.745 -19.223 1 241.18 ? P 5GP 1474 B 1 HETATM 2 O O1P 5GP . . . L 6 31.235 -21.457 -20.407 1 240.53 ? O1P 5GP 1474 B 1 HETATM 3 O O2P 5GP . . . L 6 32.911 -20.605 -18.628 1 220.54 ? O2P 5GP 1474 B 1 HETATM 4 O O3P 5GP . . . L 6 33.074 -22.869 -19.572 1 251.19 ? O3P 5GP 1474 B 1 HETATM 5 O O5' 5GP . . . L 6 31.28 -22.46 -18.079 1 217.38 ? O5' 5GP 1474 B 1 HETATM 6 C C5' 5GP . . . L 6 30.365 -21.72 -17.278 1 207.37 ? C5' 5GP 1474 B 1 HETATM 7 C C4' 5GP . . . L 6 29.469 -22.628 -16.473 1 200.13 ? C4' 5GP 1474 B 1 HETATM 8 O O4' 5GP . . . L 6 29.964 -22.698 -15.105 1 207.2 ? O4' 5GP 1474 B 1 HETATM 9 C C3' 5GP . . . L 6 28.011 -22.183 -16.375 1 188.83 ? C3' 5GP 1474 B 1 HETATM 10 O O3' 5GP . . . L 6 27.166 -23.332 -16.344 1 191.12 ? O3' 5GP 1474 B 1 HETATM 11 C C2' 5GP . . . L 6 27.965 -21.48 -15.023 1 201.41 ? C2' 5GP 1474 B 1 HETATM 12 O O2' 5GP . . . L 6 26.685 -21.432 -14.429 1 198.69 ? O2' 5GP 1474 B 1 HETATM 13 C C1' 5GP . . . L 6 28.936 -22.325 -14.207 1 210.12 ? C1' 5GP 1474 B 1 HETATM 14 N N9 5GP . . . L 6 29.547 -21.608 -13.084 1 224.79 ? N9 5GP 1474 B 1 HETATM 15 C C8 5GP . . . L 6 30.409 -20.587 -13.188 1 232.47 ? C8 5GP 1474 B 1 HETATM 16 N N7 5GP . . . L 6 30.763 -20.179 -11.95 1 242.89 ? N7 5GP 1474 B 1 HETATM 17 C C5 5GP . . . L 6 30.114 -20.958 -11.063 1 242.9 ? C5 5GP 1474 B 1 HETATM 18 C C6 5GP . . . L 6 30.089 -21.001 -9.676 1 246 ? C6 5GP 1474 B 1 HETATM 19 O O6 5GP . . . L 6 30.769 -20.198 -9.003 1 253.73 ? O6 5GP 1474 B 1 HETATM 20 N N1 5GP . . . L 6 29.329 -21.908 -9.06 1 246.78 ? N1 5GP 1474 B 1 HETATM 21 C C2 5GP . . . L 6 28.593 -22.778 -9.761 1 245.78 ? C2 5GP 1474 B 1 HETATM 22 N N2 5GP . . . L 6 27.841 -23.683 -9.092 1 245.52 ? N2 5GP 1474 B 1 HETATM 23 N N3 5GP . . . L 6 28.594 -22.764 -11.115 1 237.3 ? N3 5GP 1474 B 1 HETATM 24 C C4 5GP . . . L 6 29.353 -21.862 -11.784 1 235.88 ? C4 5GP 1474 B 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #