data_1U80 # _model_server_result.job_id sCPXa7zPlY38PGGR2kok5A _model_server_result.datetime_utc '2024-10-12 00:15:14' _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 1u80 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":2500}' # _entry.id 1U80 # _exptl.entry_id 1U80 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 323.197 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-5'-MONOPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 1U80 _cell.length_a 45.795 _cell.length_b 144.289 _cell.length_c 245.041 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1U80 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # 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 dimeric 2 author_and_software_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,J,K 1 1 C,H,I,L 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_655 -x+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 45.795 0 122.5205 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 G N N ? 3 I N N # _chem_comp.formula 'C9 H14 N3 O8 P' _chem_comp.formula_weight 323.197 _chem_comp.id C5P _chem_comp.mon_nstd_flag . _chem_comp.name "CYTIDINE-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 O3P P C5P sing 70 n n O3P HOP3 C5P sing 71 n n P O1P C5P doub 72 n n P O2P C5P sing 73 n n P O5' C5P sing 74 n n O2P HOP2 C5P sing 75 n n O5' C5' C5P sing 76 n n C5' C4' C5P sing 77 n n C5' "H5'1" C5P sing 78 n n C5' "H5'2" C5P sing 79 n n C4' O4' C5P sing 80 n n C4' C3' C5P sing 81 n n C4' H4' C5P sing 82 n n O4' C1' C5P sing 83 n n C3' O3' C5P sing 84 n n C3' C2' C5P sing 85 n n C3' H3' C5P sing 86 n n O3' HO3' C5P sing 87 n n C2' O2' C5P sing 88 n n C2' C1' C5P sing 89 n n C2' "H2'1" C5P sing 90 n n O2' HO2' C5P sing 91 n n C1' N1 C5P sing 92 n n C1' H1' C5P sing 93 n n N1 C2 C5P sing 94 n n N1 C6 C5P sing 95 n n C2 N3 C5P sing 96 n n C2 O2 C5P doub 97 n n N3 C4 C5P doub 98 n n C4 C5 C5P sing 99 n n C4 N4 C5P sing 100 n n C5 C6 C5P doub 101 n n C5 H5 C5P sing 102 n n C6 H6 C5P sing 103 n n N4 HN41 C5P sing 104 n n N4 HN42 C5P sing 105 n n # _atom_sites.entry_id 1U80 _atom_sites.fract_transf_matrix[1][1] 0.021836 _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] 0.006931 _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] 0.004081 _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 D 2 PO4 A 1 501 501 PO4 PO4 . E 3 C5P A 1 500 500 C5P CMP . F 2 PO4 B 1 1501 501 PO4 PO4 . G 3 C5P B 1 1500 500 C5P CMP . H 2 PO4 C 1 2501 501 PO4 PO4 . I 3 C5P C 1 2500 500 C5P CMP . J 4 HOH A 1 2 2 HOH TIP . J 4 HOH A 2 4 4 HOH TIP . J 4 HOH A 3 5 5 HOH TIP . J 4 HOH A 4 9 9 HOH TIP . J 4 HOH A 5 10 10 HOH TIP . J 4 HOH A 6 19 19 HOH TIP . J 4 HOH A 7 21 21 HOH TIP . J 4 HOH A 8 24 24 HOH TIP . J 4 HOH A 9 28 28 HOH TIP . J 4 HOH A 10 32 32 HOH TIP . J 4 HOH A 11 35 35 HOH TIP . J 4 HOH A 12 38 38 HOH TIP . J 4 HOH A 13 39 39 HOH TIP . J 4 HOH A 14 40 40 HOH TIP . J 4 HOH A 15 46 46 HOH TIP . J 4 HOH A 16 47 47 HOH TIP . J 4 HOH A 17 51 51 HOH TIP . J 4 HOH A 18 53 53 HOH TIP . J 4 HOH A 19 54 54 HOH TIP . J 4 HOH A 20 57 57 HOH TIP . J 4 HOH A 21 65 65 HOH TIP . J 4 HOH A 22 69 69 HOH TIP . J 4 HOH A 23 73 73 HOH TIP . J 4 HOH A 24 77 77 HOH TIP . J 4 HOH A 25 79 79 HOH TIP . J 4 HOH A 26 80 80 HOH TIP . J 4 HOH A 27 89 89 HOH TIP . J 4 HOH A 28 98 98 HOH TIP . J 4 HOH A 29 99 99 HOH TIP . J 4 HOH A 30 103 103 HOH TIP . K 4 HOH B 1 1 1 HOH TIP . K 4 HOH B 2 3 3 HOH TIP . K 4 HOH B 3 7 7 HOH TIP . K 4 HOH B 4 8 8 HOH TIP . K 4 HOH B 5 12 12 HOH TIP . K 4 HOH B 6 13 13 HOH TIP . K 4 HOH B 7 14 14 HOH TIP . K 4 HOH B 8 15 15 HOH TIP . K 4 HOH B 9 16 16 HOH TIP . K 4 HOH B 10 17 17 HOH TIP . K 4 HOH B 11 18 18 HOH TIP . K 4 HOH B 12 25 25 HOH TIP . K 4 HOH B 13 26 26 HOH TIP . K 4 HOH B 14 27 27 HOH TIP . K 4 HOH B 15 29 29 HOH TIP . K 4 HOH B 16 30 30 HOH TIP . K 4 HOH B 17 31 31 HOH TIP . K 4 HOH B 18 41 41 HOH TIP . K 4 HOH B 19 42 42 HOH TIP . K 4 HOH B 20 45 45 HOH TIP . K 4 HOH B 21 49 49 HOH TIP . K 4 HOH B 22 52 52 HOH TIP . K 4 HOH B 23 55 55 HOH TIP . K 4 HOH B 24 56 56 HOH TIP . K 4 HOH B 25 58 58 HOH TIP . K 4 HOH B 26 61 61 HOH TIP . K 4 HOH B 27 66 66 HOH TIP . K 4 HOH B 28 71 71 HOH TIP . K 4 HOH B 29 74 74 HOH TIP . K 4 HOH B 30 75 75 HOH TIP . K 4 HOH B 31 76 76 HOH TIP . K 4 HOH B 32 81 81 HOH TIP . K 4 HOH B 33 82 82 HOH TIP . K 4 HOH B 34 83 83 HOH TIP . K 4 HOH B 35 84 84 HOH TIP . K 4 HOH B 36 85 85 HOH TIP . K 4 HOH B 37 86 86 HOH TIP . K 4 HOH B 38 87 87 HOH TIP . K 4 HOH B 39 91 91 HOH TIP . K 4 HOH B 40 92 92 HOH TIP . K 4 HOH B 41 93 93 HOH TIP . K 4 HOH B 42 96 96 HOH TIP . K 4 HOH B 43 100 100 HOH TIP . K 4 HOH B 44 101 101 HOH TIP . K 4 HOH B 45 102 102 HOH TIP . K 4 HOH B 46 106 106 HOH TIP . L 4 HOH C 1 6 6 HOH TIP . L 4 HOH C 2 11 11 HOH TIP . L 4 HOH C 3 20 20 HOH TIP . L 4 HOH C 4 22 22 HOH TIP . L 4 HOH C 5 23 23 HOH TIP . L 4 HOH C 6 33 33 HOH TIP . L 4 HOH C 7 34 34 HOH TIP . L 4 HOH C 8 36 36 HOH TIP . L 4 HOH C 9 37 37 HOH TIP . L 4 HOH C 10 43 43 HOH TIP . L 4 HOH C 11 44 44 HOH TIP . L 4 HOH C 12 48 48 HOH TIP . L 4 HOH C 13 50 50 HOH TIP . L 4 HOH C 14 59 59 HOH TIP . L 4 HOH C 15 60 60 HOH TIP . L 4 HOH C 16 62 62 HOH TIP . L 4 HOH C 17 63 63 HOH TIP . L 4 HOH C 18 64 64 HOH TIP . L 4 HOH C 19 67 67 HOH TIP . L 4 HOH C 20 68 68 HOH TIP . L 4 HOH C 21 70 70 HOH TIP . L 4 HOH C 22 72 72 HOH TIP . L 4 HOH C 23 78 78 HOH TIP . L 4 HOH C 24 88 88 HOH TIP . L 4 HOH C 25 90 90 HOH TIP . L 4 HOH C 26 94 94 HOH TIP . L 4 HOH C 27 95 95 HOH TIP . L 4 HOH C 28 97 97 HOH TIP . L 4 HOH C 29 104 104 HOH TIP . L 4 HOH C 30 105 105 HOH TIP . # 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 O3P C5P . . . I 3 28.275 73.525 76.296 1 85.76 ? O3P C5P 2500 C 1 HETATM 2 P P C5P . . . I 3 28.974 73.639 77.744 1 82.61 ? P C5P 2500 C 1 HETATM 3 O O1P C5P . . . I 3 30.506 73.182 77.545 1 84.96 ? O1P C5P 2500 C 1 HETATM 4 O O2P C5P . . . I 3 28.854 75 78.314 1 79.55 ? O2P C5P 2500 C 1 HETATM 5 O O5' C5P . . . I 3 28.289 72.507 78.666 1 78.24 ? O5' C5P 2500 C 1 HETATM 6 C C5' C5P . . . I 3 28.204 71.133 78.269 1 68.14 ? C5' C5P 2500 C 1 HETATM 7 C C4' C5P . . . I 3 27.573 70.319 79.402 1 66.51 ? C4' C5P 2500 C 1 HETATM 8 O O4' C5P . . . I 3 26.324 70.938 79.755 1 65.66 ? O4' C5P 2500 C 1 HETATM 9 C C3' C5P . . . I 3 27.23 68.866 79.06 1 62.68 ? C3' C5P 2500 C 1 HETATM 10 O O3' C5P . . . I 3 27.086 68.104 80.263 1 48.55 ? O3' C5P 2500 C 1 HETATM 11 C C2' C5P . . . I 3 25.881 69.045 78.361 1 63.29 ? C2' C5P 2500 C 1 HETATM 12 O O2' C5P . . . I 3 25.076 67.869 78.487 1 51.72 ? O2' C5P 2500 C 1 HETATM 13 C C1' C5P . . . I 3 25.252 70.136 79.227 1 65.25 ? C1' C5P 2500 C 1 HETATM 14 N N1 C5P . . . I 3 24.324 70.972 78.434 1 67.58 ? N1 C5P 2500 C 1 HETATM 15 C C2 C5P . . . I 3 22.965 71.028 78.773 1 68.62 ? C2 C5P 2500 C 1 HETATM 16 N N3 C5P . . . I 3 22.169 71.923 78.178 1 70.32 ? N3 C5P 2500 C 1 HETATM 17 C C4 C5P . . . I 3 22.632 72.777 77.248 1 73.48 ? C4 C5P 2500 C 1 HETATM 18 C C5 C5P . . . I 3 23.964 72.744 76.85 1 77.04 ? C5 C5P 2500 C 1 HETATM 19 C C6 C5P . . . I 3 24.826 71.832 77.449 1 71.27 ? C6 C5P 2500 C 1 HETATM 20 O O2 C5P . . . I 3 22.497 70.234 79.592 1 71.09 ? O2 C5P 2500 C 1 HETATM 21 N N4 C5P . . . I 3 21.832 73.726 76.772 1 76.44 ? N4 C5P 2500 C 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #