data_6XHS # _model_server_result.job_id eyY3zLkOiSl4NqHYacrz3Q _model_server_result.datetime_utc '2025-07-07 06:42:48' _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 6xhs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":301}' # _entry.id 6XHS # _exptl.entry_id 6XHS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 483.156 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-5'-TRIPHOSPHATE" _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 96.46 _cell.angle_gamma 90 _cell.entry_id 6XHS _cell.length_a 49.357 _cell.length_b 138.521 _cell.length_c 109.564 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XHS _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,L,M 1 1 C,D,H,N,O 2 1 E,F,I,J,K,P 3 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 ? 2 G N N ? 2 I 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 I O2A CTP . E CTP 301 1_555 J MG MG . E MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? metalc ? metalc2 I O2B CTP . E CTP 301 1_555 J MG MG . E MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc3 I O1G CTP . E CTP 301 1_555 J MG MG . E MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc4 J MG MG . E MG 302 1_555 P O HOH . E HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.912 ? metalc ? metalc5 J MG MG . E MG 302 1_555 P O HOH . E HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc6 J MG MG . E MG 302 1_555 P O HOH . E HOH 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.829 ? # _chem_comp.formula 'C9 H16 N3 O14 P3' _chem_comp.formula_weight 483.156 _chem_comp.id CTP _chem_comp.mon_nstd_flag . _chem_comp.name "CYTIDINE-5'-TRIPHOSPHATE" _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 N1 C2 CTP sing 70 n n N1 C6 CTP sing 71 n n N1 C1' CTP sing 72 n n C2 N3 CTP sing 73 n n C2 O2 CTP doub 74 n n N3 C4 CTP doub 75 n n C4 C5 CTP sing 76 n n C4 N4 CTP sing 77 n n C5 C6 CTP doub 78 n n C5 H5 CTP sing 79 n n C6 H6 CTP sing 80 n n N4 HN41 CTP sing 81 n n N4 HN42 CTP sing 82 n n C1' C2' CTP sing 83 n n C1' O4' CTP sing 84 n n C1' H1' CTP sing 85 n n C2' O2' CTP sing 86 n n C2' C3' CTP sing 87 n n C2' H2' CTP sing 88 n n O2' HO2' CTP sing 89 n n C3' C4' CTP sing 90 n n C3' O3' CTP sing 91 n n C3' H3' CTP sing 92 n n C4' O4' CTP sing 93 n n C4' C5' CTP sing 94 n n C4' H4' CTP sing 95 n n O3' HO3' CTP sing 96 n n C5' O5' CTP sing 97 n n C5' "H5'1" CTP sing 98 n n C5' "H5'2" CTP sing 99 n n O5' PA CTP sing 100 n n PA O1A CTP doub 101 n n PA O2A CTP sing 102 n n PA O3A CTP sing 103 n n O2A HOA2 CTP sing 104 n n O3A PB CTP sing 105 n n PB O1B CTP doub 106 n n PB O2B CTP sing 107 n n PB O3B CTP sing 108 n n O2B HOB2 CTP sing 109 n n O3B PG CTP sing 110 n n PG O1G CTP doub 111 n n PG O2G CTP sing 112 n n PG O3G CTP sing 113 n n O2G HOG2 CTP sing 114 n n O3G HOG3 CTP sing 115 n n # _atom_sites.entry_id 6XHS _atom_sites.fract_transf_matrix[1][1] 0.020261 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002294 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007219 _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] 0.009185 _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 G 2 CTP B 1 301 1 CTP CTP . H 3 SCN C 1 301 1 SCN SCN . I 2 CTP E 1 301 2 CTP CTP . J 4 MG E 1 302 1 MG MG . K 3 SCN F 1 301 3 SCN SCN . L 5 HOH A 1 301 13 HOH HOH . L 5 HOH A 2 302 14 HOH HOH . M 5 HOH B 1 401 2 HOH HOH . M 5 HOH B 2 402 12 HOH HOH . N 5 HOH C 1 401 11 HOH HOH . O 5 HOH D 1 301 6 HOH HOH . O 5 HOH D 2 302 9 HOH HOH . P 5 HOH E 1 401 5 HOH HOH . P 5 HOH E 2 402 4 HOH HOH . P 5 HOH E 3 403 3 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 N N1 CTP . A . G 2 16.405 -34.577 20.755 0.52 52.15 ? N1 CTP 301 B 1 HETATM 2 N N1 CTP . B . G 2 16.541 -34.464 20.867 0.48 50.28 ? N1 CTP 301 B 1 HETATM 3 C C2 CTP . A . G 2 16.772 -36.025 20.793 0.52 55.27 ? C2 CTP 301 B 1 HETATM 4 C C2 CTP . B . G 2 16.847 -35.922 20.831 0.48 55.27 ? C2 CTP 301 B 1 HETATM 5 N N3 CTP . A . G 2 16.452 -36.91 19.642 0.52 53.85 ? N3 CTP 301 B 1 HETATM 6 N N3 CTP . B . G 2 16.426 -36.746 19.668 0.48 53.85 ? N3 CTP 301 B 1 HETATM 7 C C4 CTP . A . G 2 15.788 -36.366 18.478 0.52 54.85 ? C4 CTP 301 B 1 HETATM 8 C C4 CTP . B . G 2 15.723 -36.125 18.567 0.48 54.85 ? C4 CTP 301 B 1 HETATM 9 C C5 CTP . A . G 2 15.42 -34.925 18.418 0.52 53.5 ? C5 CTP 301 B 1 HETATM 10 C C5 CTP . B . G 2 15.413 -34.67 18.583 0.48 53.51 ? C5 CTP 301 B 1 HETATM 11 C C6 CTP . A . G 2 15.744 -34.034 19.573 0.52 54.19 ? C6 CTP 301 B 1 HETATM 12 C C6 CTP . B . G 2 15.839 -33.842 19.751 0.48 54.19 ? C6 CTP 301 B 1 HETATM 13 O O2 CTP . A . G 2 17.319 -36.483 21.74 0.52 54.11 ? O2 CTP 301 B 1 HETATM 14 O O2 CTP . B . G 2 17.426 -36.431 21.732 0.48 54.11 ? O2 CTP 301 B 1 HETATM 15 N N4 CTP . A . G 2 15.495 -37.249 17.375 0.52 54.73 ? N4 CTP 301 B 1 HETATM 16 N N4 CTP . B . G 2 15.33 -36.942 17.446 0.48 54.73 ? N4 CTP 301 B 1 HETATM 17 C C1' CTP . A . G 2 16.751 -33.717 21.865 0.52 53.6 ? C1' CTP 301 B 1 HETATM 18 C C1' CTP . B . G 2 16.99 -33.684 21.996 0.48 53.66 ? C1' CTP 301 B 1 HETATM 19 C C2' CTP . A . G 2 17.525 -32.787 21.39 0.52 52.42 ? C2' CTP 301 B 1 HETATM 20 C C2' CTP . B . G 2 17.755 -32.733 21.547 0.48 49.44 ? C2' CTP 301 B 1 HETATM 21 O O2' CTP . A . G 2 18.984 -33.188 21.366 0.52 51.02 ? O2' CTP 301 B 1 HETATM 22 O O2' CTP . B . G 2 19.184 -33.168 21.317 0.48 50.61 ? O2' CTP 301 B 1 HETATM 23 C C3' CTP . A . G 2 17.379 -31.627 22.336 0.52 54.35 ? C3' CTP 301 B 1 HETATM 24 C C3' CTP . B . G 2 17.749 -31.729 22.662 0.48 53.37 ? C3' CTP 301 B 1 HETATM 25 C C4' CTP . A . G 2 15.956 -31.818 22.971 0.52 51.14 ? C4' CTP 301 B 1 HETATM 26 C C4' CTP . B . G 2 16.282 -31.822 23.211 0.48 52.36 ? C4' CTP 301 B 1 HETATM 27 O O4' CTP . A . G 2 15.49 -32.918 22.506 0.52 53.54 ? O4' CTP 301 B 1 HETATM 28 O O4' CTP . B . G 2 15.793 -32.93 22.796 0.48 52.7 ? O4' CTP 301 B 1 HETATM 29 O O3' CTP . A . G 2 18.388 -31.719 23.244 0.52 53.07 ? O3' CTP 301 B 1 HETATM 30 O O3' CTP . B . G 2 18.688 -32.104 23.57 0.48 52.87 ? O3' CTP 301 B 1 HETATM 31 C C5' CTP . A . G 2 15.025 -30.619 22.593 0.52 53.85 ? C5' CTP 301 B 1 HETATM 32 C C5' CTP . B . G 2 15.46 -30.645 22.612 0.48 53.34 ? C5' CTP 301 B 1 HETATM 33 O O5' CTP . A . G 2 15.551 -29.84 21.548 0.52 53.15 ? O5' CTP 301 B 1 HETATM 34 O O5' CTP . B . G 2 15.13 -30.999 21.304 0.48 53.5 ? O5' CTP 301 B 1 HETATM 35 P PA CTP . A . G 2 14.462 -29.32 20.418 0.52 53.79 ? PA CTP 301 B 1 HETATM 36 P PA CTP . B . G 2 15.587 -30.039 20.044 0.48 53.2 ? PA CTP 301 B 1 HETATM 37 O O1A CTP . A . G 2 13.254 -30.244 20.484 0.52 53.6 ? O1A CTP 301 B 1 HETATM 38 O O1A CTP . B . G 2 15.64 -28.591 20.508 0.48 53.47 ? O1A CTP 301 B 1 HETATM 39 O O2A CTP . A . G 2 13.975 -27.938 20.789 0.52 53.8 ? O2A CTP 301 B 1 HETATM 40 O O2A CTP . B . G 2 16.96 -30.396 19.513 0.48 53.82 ? O2A CTP 301 B 1 HETATM 41 O O3A CTP . A . G 2 15.134 -29.248 18.878 0.52 53.25 ? O3A CTP 301 B 1 HETATM 42 O O3A CTP . B . G 2 14.459 -30.311 18.843 0.48 53.62 ? O3A CTP 301 B 1 HETATM 43 P PB CTP . A . G 2 16.062 -30.325 17.996 0.52 53.81 ? PB CTP 301 B 1 HETATM 44 P PB CTP . B . G 2 12.807 -30.508 18.988 0.48 53.85 ? PB CTP 301 B 1 HETATM 45 O O1B CTP . A . G 2 15.203 -31.445 17.442 0.52 54.05 ? O1B CTP 301 B 1 HETATM 46 O O1B CTP . B . G 2 12.329 -30.191 20.399 0.48 53.95 ? O1B CTP 301 B 1 HETATM 47 O O2B CTP . A . G 2 17.212 -30.864 18.802 0.52 54 ? O2B CTP 301 B 1 HETATM 48 O O2B CTP . B . G 2 12.438 -31.945 18.68 0.48 53.81 ? O2B CTP 301 B 1 HETATM 49 O O3B CTP . A . G 2 16.755 -29.514 16.745 0.52 53.45 ? O3B CTP 301 B 1 HETATM 50 O O3B CTP . B . G 2 12.122 -29.443 17.9 0.48 53.92 ? O3B CTP 301 B 1 HETATM 51 P PG CTP . A . G 2 16.061 -28.191 16.064 0.52 52.95 ? PG CTP 301 B 1 HETATM 52 P PG CTP . B . G 2 10.673 -29.633 17.121 0.48 53.7 ? PG CTP 301 B 1 HETATM 53 O O1G CTP . A . G 2 16.359 -28.18 14.58 0.52 52.64 ? O1G CTP 301 B 1 HETATM 54 O O1G CTP . B . G 2 10.906 -29.746 15.632 0.48 53.46 ? O1G CTP 301 B 1 HETATM 55 O O2G CTP . A . G 2 16.661 -26.975 16.734 0.52 53.13 ? O2G CTP 301 B 1 HETATM 56 O O2G CTP . B . G 2 9.993 -30.908 17.587 0.48 53.69 ? O2G CTP 301 B 1 HETATM 57 O O3G CTP . A . G 2 14.561 -28.206 16.29 0.52 52.67 ? O3G CTP 301 B 1 HETATM 58 O O3G CTP . B . G 2 9.788 -28.442 17.417 0.48 53.63 ? O3G CTP 301 B 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 367 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 58 #