data_2DRJ # _model_server_result.job_id lBK7uGHLG_C8sXkIVadm4g _model_server_result.datetime_utc '2024-11-14 20:49:22' _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 2drj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1001}' # _entry.id 2DRJ # _exptl.entry_id 2DRJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 632.442 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-5'-MONOPHOSPHATE-3-FLUORO-N-ACETYL-NEURAMINIC ACID" _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 90 _cell.entry_id 2DRJ _cell.length_a 116.653 _cell.length_b 116.653 _cell.length_c 44.086 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2DRJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id ND2 _struct_conn.ptnr1_label_comp_id ASN _struct_conn.ptnr1_label_seq_id 34 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id ASN _struct_conn.ptnr1_auth_seq_id 31 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id O3A _struct_conn.ptnr2_label_comp_id CSF _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CSF _struct_conn.ptnr2_auth_seq_id 1001 _struct_conn.ptnr2_symmetry 1_555 _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 2.006 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C20 H30 F N4 O16 P' _chem_comp.formula_weight 632.442 _chem_comp.id CSF _chem_comp.mon_nstd_flag n _chem_comp.name "CYTIDINE-5'-MONOPHOSPHATE-3-FLUORO-N-ACETYL-NEURAMINIC ACID" _chem_comp.type 'rna linking' _chem_comp.pdbx_synonyms CMP-3FNEUAC # 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 C5A C4A CSF sing 70 n n C5A C6A CSF sing 71 n n C5A N5A CSF sing 72 n n C5A H5A CSF sing 73 n n C4A C3A CSF sing 74 n n C4A O4A CSF sing 75 n n C4A H4A CSF sing 76 n n C2A O6A CSF sing 77 n n C2A C3A CSF sing 78 n n C2A C1A CSF sing 79 n n C2A O1A CSF sing 80 n n O6A C6A CSF sing 81 n n C6A C7A CSF sing 82 n n C6A H6A CSF sing 83 n n C3A F3A CSF sing 84 n n C3A H3A CSF sing 85 n n O4A H4 CSF sing 86 n n N5A C10 CSF sing 87 n n N5A H3 CSF sing 88 n n C7A C8A CSF sing 89 n n C7A O7A CSF sing 90 n n C7A H7A CSF sing 91 n n C8A C9A CSF sing 92 n n C8A O8A CSF sing 93 n n C8A H8A CSF sing 94 n n C9A O9A CSF sing 95 n n C9A H9A1 CSF sing 96 n n C9A H9A2 CSF sing 97 n n O9A H9A CSF sing 98 n n O8A H2 CSF sing 99 n n O7A H1 CSF sing 100 n n C1A OBA CSF sing 101 n n C1A OAA CSF doub 102 n n OBA HBA CSF sing 103 n n O1A PA CSF sing 104 n n O2A PA CSF doub 105 n n N1 C2 CSF sing 106 n n N1 C6 CSF sing 107 n n N1 C1' CSF sing 108 n n C2 N3 CSF sing 109 n n C2 O2 CSF doub 110 n n N3 C4 CSF doub 111 n n C4 C5 CSF sing 112 n n C4 N4 CSF sing 113 n n C5 C6 CSF doub 114 n n C5 H7 CSF sing 115 n n C6 H6 CSF sing 116 n n C3' C2' CSF sing 117 n n C3' C4' CSF sing 118 n n C3' O3' CSF sing 119 n n C3' H3' CSF sing 120 n n C2' C1' CSF sing 121 n n C2' O2' CSF sing 122 n n C2' H2' CSF sing 123 n n C1' O4' CSF sing 124 n n C1' H1' CSF sing 125 n n O4' C4' CSF sing 126 n n C4' C5' CSF sing 127 n n C4' H4' CSF sing 128 n n PA O5' CSF sing 129 n n PA O3A CSF sing 130 n n O5' C5' CSF sing 131 n n C5' H5' CSF sing 132 n n C5' "H5''" CSF sing 133 n n O3' HO3' CSF sing 134 n n O2' H8 CSF sing 135 n n N4 H41 CSF sing 136 n n N4 H42 CSF sing 137 n n O3A H5 CSF sing 138 n n C10 O10 CSF doub 139 n n C10 C11 CSF sing 140 n n C11 H111 CSF sing 141 n n C11 H112 CSF sing 142 n n C11 H113 CSF sing 143 n n # _atom_sites.entry_id 2DRJ _atom_sites.fract_transf_matrix[1][1] 0.008572 _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] 0.008572 _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] 0.022683 _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 B 2 CSF A 1 1001 1001 CSF CSF . C 3 IPA A 1 2001 2001 IPA IPA . D 3 IPA A 1 2002 2002 IPA IPA . E 4 HOH A 1 2003 1 HOH HOH . E 4 HOH A 2 2004 2 HOH HOH . E 4 HOH A 3 2005 3 HOH HOH . E 4 HOH A 4 2006 4 HOH HOH . E 4 HOH A 5 2007 5 HOH HOH . E 4 HOH A 6 2008 6 HOH HOH . E 4 HOH A 7 2009 7 HOH HOH . E 4 HOH A 8 2010 8 HOH HOH . E 4 HOH A 9 2011 9 HOH HOH . E 4 HOH A 10 2012 10 HOH HOH . E 4 HOH A 11 2013 11 HOH HOH . E 4 HOH A 12 2014 12 HOH HOH . E 4 HOH A 13 2015 13 HOH HOH . E 4 HOH A 14 2016 14 HOH HOH . E 4 HOH A 15 2017 15 HOH HOH . E 4 HOH A 16 2018 16 HOH HOH . E 4 HOH A 17 2019 17 HOH HOH . E 4 HOH A 18 2020 18 HOH HOH . E 4 HOH A 19 2021 19 HOH HOH . E 4 HOH A 20 2022 20 HOH HOH . E 4 HOH A 21 2023 21 HOH HOH . E 4 HOH A 22 2024 22 HOH HOH . E 4 HOH A 23 2025 23 HOH HOH . E 4 HOH A 24 2026 24 HOH HOH . E 4 HOH A 25 2027 25 HOH HOH . E 4 HOH A 26 2028 26 HOH HOH . E 4 HOH A 27 2029 27 HOH HOH . E 4 HOH A 28 2030 28 HOH HOH . E 4 HOH A 29 2031 29 HOH HOH . E 4 HOH A 30 2032 30 HOH HOH . E 4 HOH A 31 2033 31 HOH HOH . E 4 HOH A 32 2034 32 HOH HOH . E 4 HOH A 33 2035 33 HOH HOH . E 4 HOH A 34 2036 34 HOH HOH . E 4 HOH A 35 2037 35 HOH HOH . E 4 HOH A 36 2038 36 HOH HOH . E 4 HOH A 37 2039 37 HOH HOH . E 4 HOH A 38 2040 38 HOH HOH . E 4 HOH A 39 2041 39 HOH HOH . E 4 HOH A 40 2042 40 HOH HOH . E 4 HOH A 41 2043 41 HOH HOH . E 4 HOH A 42 2044 42 HOH HOH . E 4 HOH A 43 2045 43 HOH HOH . E 4 HOH A 44 2046 44 HOH HOH . E 4 HOH A 45 2047 45 HOH HOH . E 4 HOH A 46 2048 46 HOH HOH . E 4 HOH A 47 2049 47 HOH HOH . E 4 HOH A 48 2050 48 HOH HOH . E 4 HOH A 49 2051 50 HOH HOH . E 4 HOH A 50 2052 51 HOH HOH . E 4 HOH A 51 2053 52 HOH HOH . E 4 HOH A 52 2054 53 HOH HOH . E 4 HOH A 53 2055 54 HOH HOH . E 4 HOH A 54 2056 55 HOH HOH . E 4 HOH A 55 2057 56 HOH HOH . E 4 HOH A 56 2058 57 HOH HOH . E 4 HOH A 57 2059 58 HOH HOH . E 4 HOH A 58 2060 59 HOH HOH . E 4 HOH A 59 2061 60 HOH HOH . E 4 HOH A 60 2062 61 HOH HOH . E 4 HOH A 61 2063 62 HOH HOH . E 4 HOH A 62 2064 63 HOH HOH . E 4 HOH A 63 2065 64 HOH HOH . E 4 HOH A 64 2066 65 HOH HOH . E 4 HOH A 65 2067 66 HOH HOH . E 4 HOH A 66 2068 67 HOH HOH . E 4 HOH A 67 2069 68 HOH HOH . E 4 HOH A 68 2070 69 HOH HOH . E 4 HOH A 69 2071 70 HOH HOH . E 4 HOH A 70 2072 71 HOH HOH . E 4 HOH A 71 2073 72 HOH HOH . E 4 HOH A 72 2074 73 HOH HOH . E 4 HOH A 73 2075 74 HOH HOH . E 4 HOH A 74 2076 75 HOH HOH . E 4 HOH A 75 2077 76 HOH HOH . E 4 HOH A 76 2078 78 HOH HOH . E 4 HOH A 77 2079 79 HOH HOH . E 4 HOH A 78 2080 80 HOH HOH . E 4 HOH A 79 2081 84 HOH HOH . E 4 HOH A 80 2082 85 HOH HOH . E 4 HOH A 81 2083 87 HOH HOH . E 4 HOH A 82 2084 90 HOH HOH . E 4 HOH A 83 2085 92 HOH HOH . E 4 HOH A 84 2086 93 HOH HOH . E 4 HOH A 85 2087 94 HOH HOH . E 4 HOH A 86 2088 96 HOH HOH . E 4 HOH A 87 2089 101 HOH HOH . E 4 HOH A 88 2090 102 HOH HOH . E 4 HOH A 89 2091 106 HOH HOH . E 4 HOH A 90 2092 109 HOH HOH . E 4 HOH A 91 2093 113 HOH HOH . E 4 HOH A 92 2094 115 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 C C5A CSF . . . B 2 -8.005 -30.687 -10.549 1 54.39 ? C5A CSF 1001 A 1 HETATM 2 C C4A CSF . . . B 2 -7.188 -31.828 -9.863 1 52.54 ? C4A CSF 1001 A 1 HETATM 3 C C2A CSF . . . B 2 -7.962 -30.961 -7.608 1 50.14 ? C2A CSF 1001 A 1 HETATM 4 O O6A CSF . . . B 2 -8.744 -29.962 -8.356 1 50.82 ? O6A CSF 1001 A 1 HETATM 5 C C6A CSF . . . B 2 -9.19 -30.355 -9.669 1 51.48 ? C6A CSF 1001 A 1 HETATM 6 C C3A CSF . . . B 2 -6.725 -31.332 -8.463 1 51.51 ? C3A CSF 1001 A 1 HETATM 7 O O4A CSF . . . B 2 -6.024 -32.296 -10.571 1 53.89 ? O4A CSF 1001 A 1 HETATM 8 N N5A CSF . . . B 2 -8.63 -30.946 -11.858 1 59.06 ? N5A CSF 1001 A 1 HETATM 9 C C7A CSF . . . B 2 -9.955 -29.222 -10.333 1 49.81 ? C7A CSF 1001 A 1 HETATM 10 C C8A CSF . . . B 2 -11.093 -28.685 -9.44 1 47.43 ? C8A CSF 1001 A 1 HETATM 11 C C9A CSF . . . B 2 -11.835 -27.538 -10.101 1 46.19 ? C9A CSF 1001 A 1 HETATM 12 O O9A CSF . . . B 2 -12.909 -27.186 -9.245 1 44.17 ? O9A CSF 1001 A 1 HETATM 13 O O8A CSF . . . B 2 -12.049 -29.713 -9.21 1 44.9 ? O8A CSF 1001 A 1 HETATM 14 O O7A CSF . . . B 2 -9.016 -28.197 -10.669 1 50.05 ? O7A CSF 1001 A 1 HETATM 15 C C1A CSF . . . B 2 -7.432 -30.202 -6.406 1 48.53 ? C1A CSF 1001 A 1 HETATM 16 O OBA CSF . . . B 2 -6.816 -30.826 -5.545 1 50.12 ? OBA CSF 1001 A 1 HETATM 17 O OAA CSF . . . B 2 -7.655 -28.988 -6.39 1 48.82 ? OAA CSF 1001 A 1 HETATM 18 O O1A CSF . . . B 2 -8.812 -32.144 -7.254 1 51.78 ? O1A CSF 1001 A 1 HETATM 19 O O2A CSF . . . B 2 -11.143 -32.094 -8.041 1 53.86 ? O2A CSF 1001 A 1 HETATM 20 N N1 CSF . . . B 2 -9.882 -37.125 -5.677 1 61.4 ? N1 CSF 1001 A 1 HETATM 21 C C2 CSF . . . B 2 -9.191 -38.348 -6.019 1 62.94 ? C2 CSF 1001 A 1 HETATM 22 N N3 CSF . . . B 2 -9.663 -39.114 -7.119 1 63.09 ? N3 CSF 1001 A 1 HETATM 23 C C4 CSF . . . B 2 -10.8 -38.698 -7.855 1 61.95 ? C4 CSF 1001 A 1 HETATM 24 C C5 CSF . . . B 2 -11.458 -37.513 -7.509 1 63.03 ? C5 CSF 1001 A 1 HETATM 25 C C6 CSF . . . B 2 -11.015 -36.736 -6.439 1 62.01 ? C6 CSF 1001 A 1 HETATM 26 C C3' CSF . . . B 2 -8.044 -34.238 -4.407 1 56.62 ? C3' CSF 1001 A 1 HETATM 27 C C2' CSF . . . B 2 -7.998 -35.761 -4.73 1 57.38 ? C2' CSF 1001 A 1 HETATM 28 C C1' CSF . . . B 2 -9.439 -36.27 -4.51 1 60.37 ? C1' CSF 1001 A 1 HETATM 29 O O4' CSF . . . B 2 -10.327 -35.094 -4.134 1 58.6 ? O4' CSF 1001 A 1 HETATM 30 C C4' CSF . . . B 2 -9.46 -33.968 -3.813 1 56.96 ? C4' CSF 1001 A 1 HETATM 31 P PA CSF . . . B 2 -10.4 -31.952 -6.786 1 51.92 ? PA CSF 1001 A 1 HETATM 32 O O5' CSF . . . B 2 -10.729 -33.057 -5.686 1 52.46 ? O5' CSF 1001 A 1 HETATM 33 C C5' CSF . . . B 2 -10.22 -32.777 -4.362 1 52.8 ? C5' CSF 1001 A 1 HETATM 34 O O3' CSF . . . B 2 -7.059 -33.836 -3.425 1 59.58 ? O3' CSF 1001 A 1 HETATM 35 O O2' CSF . . . B 2 -7.088 -36.602 -3.935 1 51.07 ? O2' CSF 1001 A 1 HETATM 36 N N4 CSF . . . B 2 -11.237 -39.427 -8.874 1 60.49 ? N4 CSF 1001 A 1 HETATM 37 O O2 CSF . . . B 2 -8.205 -38.754 -5.383 1 61.61 ? O2 CSF 1001 A 1 HETATM 38 O O3A CSF . . . B 2 -10.54 -30.706 -5.995 1 53.19 ? O3A CSF 1001 A 1 HETATM 39 C C10 CSF . . . B 2 -7.987 -30.945 -13.024 1 63.27 ? C10 CSF 1001 A 1 HETATM 40 O O10 CSF . . . B 2 -6.767 -30.761 -13.203 1 62.89 ? O10 CSF 1001 A 1 HETATM 41 C C11 CSF . . . B 2 -8.945 -31.242 -14.179 1 64.88 ? C11 CSF 1001 A 1 HETATM 42 F F3A CSF . . . B 2 -5.795 -30.25 -8.528 1 44.69 ? F3A CSF 1001 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 224 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 42 #