data_8V15 # _model_server_result.job_id dgvv_QqeFzDxNFS6vZMNsw _model_server_result.datetime_utc '2024-11-20 05:20:13' _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 8v15 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 8V15 # _exptl.entry_id 8V15 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 662.46 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CARBA-NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 90.61 _cell.angle_gamma 90 _cell.entry_id 8V15 _cell.length_a 34.683 _cell.length_b 159.432 _cell.length_c 53.047 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8V15 _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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,J,K 1 1 C,D,G,H,I,L 2 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 ? 4 F N N ? 4 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 covale ? covale1 B C LYS 3 B LYS 3 1_555 B N FDL 4 B FDL 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale2 D C LYS 3 D LYS 3 1_555 D N FDL 4 D FDL 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? metalc ? metalc1 A SG CYS 139 A CYS 256 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.578 ? metalc ? metalc2 A SG CYS 142 A CYS 259 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc3 A SG CYS 163 A CYS 280 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc4 A SG CYS 166 A CYS 283 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc5 C SG CYS 139 C CYS 256 1_555 G ZN ZN . C ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc6 C SG CYS 142 C CYS 259 1_555 G ZN ZN . C ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc7 C SG CYS 163 C CYS 280 1_555 G ZN ZN . C ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc8 C SG CYS 166 C CYS 283 1_555 G ZN ZN . C ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? # _chem_comp.formula 'C22 H30 N7 O13 P2 1' _chem_comp.formula_weight 662.46 _chem_comp.id CNA _chem_comp.mon_nstd_flag . _chem_comp.name CARBA-NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 O3B C3B CNA sing 70 n n O2B C2B CNA sing 71 n n C3B C2B CNA sing 72 n n C3B C4B CNA sing 73 n n C2B C1B CNA sing 74 n n N3A C2A CNA doub 75 n y N3A C4A CNA sing 76 n y C2A N1A CNA sing 77 n y C1B N9A CNA sing 78 n n C1B O4B CNA sing 79 n n C4B O4B CNA sing 80 n n C4B C5B CNA sing 81 n n C4A N9A CNA sing 82 n y C4A C5A CNA doub 83 n y N9A C8A CNA sing 84 n y N1A C6A CNA doub 85 n y O2A PA CNA doub 86 n n O5B C5B CNA sing 87 n n O5B PA CNA sing 88 n n C5A C6A CNA sing 89 n y C5A N7A CNA sing 90 n y C6A N6A CNA sing 91 n n C8A N7A CNA doub 92 n y PA O3 CNA sing 93 n n PA O1A CNA sing 94 n n O3 PN CNA sing 95 n n O1N PN CNA doub 96 n n PN O2N CNA sing 97 n n PN O5D CNA sing 98 n n C5D O5D CNA sing 99 n n C5D C4D CNA sing 100 n n C3D O3D CNA sing 101 n n C3D C4D CNA sing 102 n n C3D C2D CNA sing 103 n n C4D C4' CNA sing 104 n n O2D C2D CNA sing 105 n n C2D C1D CNA sing 106 n n C4' C1D CNA sing 107 n n C1D N1N CNA sing 108 n n N1N C6N CNA doub 109 n y N1N C2N CNA sing 110 n y C6N C5N CNA sing 111 n y C2N C3N CNA doub 112 n y C5N C4N CNA doub 113 n y C3N C4N CNA sing 114 n y C3N C7N CNA sing 115 n n N7N C7N CNA sing 116 n n C7N O7N CNA doub 117 n n O1A H1 CNA sing 118 n n C5B H2 CNA sing 119 n n C5B H3 CNA sing 120 n n C4B H4 CNA sing 121 n n C3B H5 CNA sing 122 n n O3B H6 CNA sing 123 n n C2B H7 CNA sing 124 n n O2B H8 CNA sing 125 n n C1B H9 CNA sing 126 n n C8A H10 CNA sing 127 n n N6A H11 CNA sing 128 n n N6A H12 CNA sing 129 n n C2A H13 CNA sing 130 n n O2N H14 CNA sing 131 n n C5D H15 CNA sing 132 n n C5D H16 CNA sing 133 n n C4D H17 CNA sing 134 n n C4' H18 CNA sing 135 n n C4' H19 CNA sing 136 n n C3D H20 CNA sing 137 n n O3D H21 CNA sing 138 n n C2D H22 CNA sing 139 n n O2D H23 CNA sing 140 n n C1D H24 CNA sing 141 n n C2N H25 CNA sing 142 n n N7N H26 CNA sing 143 n n N7N H27 CNA sing 144 n n C4N H28 CNA sing 145 n n C5N H29 CNA sing 146 n n C6N H30 CNA sing 147 n n # _atom_sites.entry_id 8V15 _atom_sites.fract_transf_matrix[1][1] 0.028833 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000305 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006272 _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] 0.018852 _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 3 ZN A 1 401 5 ZN ZN . F 4 CNA A 1 402 6 CNA CNA . G 3 ZN C 1 401 5 ZN ZN . H 5 Y4T C 1 402 0 Y4T HON . I 4 CNA C 1 403 6 CNA CNA . J 6 HOH A 1 501 21 HOH HOH . J 6 HOH A 2 502 19 HOH HOH . J 6 HOH A 3 503 11 HOH HOH . J 6 HOH A 4 504 5 HOH HOH . J 6 HOH A 5 505 23 HOH HOH . J 6 HOH A 6 506 24 HOH HOH . J 6 HOH A 7 507 6 HOH HOH . J 6 HOH A 8 508 17 HOH HOH . J 6 HOH A 9 509 22 HOH HOH . J 6 HOH A 10 510 10 HOH HOH . J 6 HOH A 11 511 30 HOH HOH . J 6 HOH A 12 512 9 HOH HOH . J 6 HOH A 13 513 14 HOH HOH . J 6 HOH A 14 514 27 HOH HOH . J 6 HOH A 15 515 15 HOH HOH . J 6 HOH A 16 516 31 HOH HOH . K 6 HOH B 1 101 25 HOH HOH . L 6 HOH C 1 501 13 HOH HOH . L 6 HOH C 2 502 29 HOH HOH . L 6 HOH C 3 503 1 HOH HOH . L 6 HOH C 4 504 4 HOH HOH . L 6 HOH C 5 505 16 HOH HOH . L 6 HOH C 6 506 2 HOH HOH . L 6 HOH C 7 507 26 HOH HOH . L 6 HOH C 8 508 12 HOH HOH . L 6 HOH C 9 509 18 HOH HOH . L 6 HOH C 10 510 3 HOH HOH . L 6 HOH C 11 511 8 HOH HOH . L 6 HOH C 12 512 7 HOH HOH . L 6 HOH C 13 513 28 HOH HOH . L 6 HOH C 14 514 20 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 PA CNA . . . F 4 9.317 25.507 10.791 0.8 233.27 ? PA CNA 402 A 1 HETATM 2 O O1A CNA . . . F 4 10.085 26.62 11.428 0.8 280.33 ? O1A CNA 402 A 1 HETATM 3 O O2A CNA . . . F 4 8.116 24.993 11.527 0.8 219.89 ? O2A CNA 402 A 1 HETATM 4 O O5B CNA . . . F 4 8.84 25.992 9.335 0.8 198.22 ? O5B CNA 402 A 1 HETATM 5 C C5B CNA . . . F 4 8.351 24.964 8.441 0.8 157.07 ? C5B CNA 402 A 1 HETATM 6 C C4B CNA . . . F 4 9.503 24.118 7.938 0.8 123.88 ? C4B CNA 402 A 1 HETATM 7 O O4B CNA . . . F 4 9.102 22.73 7.906 0.8 84.72 ? O4B CNA 402 A 1 HETATM 8 C C3B CNA . . . F 4 9.973 24.378 6.505 0.8 103.94 ? C3B CNA 402 A 1 HETATM 9 O O3B CNA . . . F 4 11.303 23.877 6.329 0.8 69.5 ? O3B CNA 402 A 1 HETATM 10 C C2B CNA . . . F 4 8.83 23.7 5.737 0.8 103.18 ? C2B CNA 402 A 1 HETATM 11 O O2B CNA . . . F 4 9.297 23.531 4.408 0.8 85.4 ? O2B CNA 402 A 1 HETATM 12 C C1B CNA . . . F 4 8.502 22.487 6.648 0.8 106.54 ? C1B CNA 402 A 1 HETATM 13 N N9A CNA . . . F 4 7.082 22.249 6.935 0.8 105.59 ? N9A CNA 402 A 1 HETATM 14 C C8A CNA . . . F 4 6.413 22.658 8.069 0.8 107.81 ? C8A CNA 402 A 1 HETATM 15 N N7A CNA . . . F 4 5.148 22.336 8.088 0.8 114.85 ? N7A CNA 402 A 1 HETATM 16 C C5A CNA . . . F 4 4.964 21.644 6.897 0.8 131.53 ? C5A CNA 402 A 1 HETATM 17 C C6A CNA . . . F 4 3.824 21.011 6.347 0.8 146.64 ? C6A CNA 402 A 1 HETATM 18 N N6A CNA . . . F 4 2.637 20.995 6.956 0.8 126.19 ? N6A CNA 402 A 1 HETATM 19 N N1A CNA . . . F 4 3.967 20.396 5.138 0.8 116.62 ? N1A CNA 402 A 1 HETATM 20 C C2A CNA . . . F 4 5.181 20.414 4.555 0.8 102.98 ? C2A CNA 402 A 1 HETATM 21 N N3A CNA . . . F 4 6.322 20.957 4.984 0.8 96.75 ? N3A CNA 402 A 1 HETATM 22 C C4A CNA . . . F 4 6.152 21.565 6.18 0.8 113.57 ? C4A CNA 402 A 1 HETATM 23 O O3 CNA . . . F 4 10.325 24.291 10.391 0.8 184.32 ? O3 CNA 402 A 1 HETATM 24 P PN CNA . . . F 4 11.521 23.251 10.764 0.8 138.94 ? PN CNA 402 A 1 HETATM 25 O O1N CNA . . . F 4 10.857 22.263 11.678 0.8 66.07 ? O1N CNA 402 A 1 HETATM 26 O O2N CNA . . . F 4 12.166 22.793 9.483 0.8 82.89 ? O2N CNA 402 A 1 HETATM 27 O O5D CNA . . . F 4 12.625 24.094 11.599 0.8 154.44 ? O5D CNA 402 A 1 HETATM 28 C C5D CNA . . . F 4 13.051 23.665 12.937 0.8 137.91 ? C5D CNA 402 A 1 HETATM 29 C C4D CNA . . . F 4 12.071 24.174 13.975 0.8 130.74 ? C4D CNA 402 A 1 HETATM 30 C C4' CNA . . . F 4 10.73 23.427 14.063 0.8 128.22 ? C4' CNA 402 A 1 HETATM 31 C C3D CNA . . . F 4 12.522 24.085 15.434 0.8 112.79 ? C3D CNA 402 A 1 HETATM 32 O O3D CNA . . . F 4 13.405 25.185 15.602 0.8 117.61 ? O3D CNA 402 A 1 HETATM 33 C C2D CNA . . . F 4 11.236 24.176 16.279 0.8 86.32 ? C2D CNA 402 A 1 HETATM 34 O O2D CNA . . . F 4 11.349 25.439 16.899 0.8 42.6 ? O2D CNA 402 A 1 HETATM 35 C C1D CNA . . . F 4 10.111 24.179 15.234 0.8 106.78 ? C1D CNA 402 A 1 HETATM 36 N N1N CNA . . . F 4 8.784 23.646 15.587 0.8 117.94 ? N1N CNA 402 A 1 HETATM 37 C C2N CNA . . . F 4 8.576 22.504 16.263 0.8 114.19 ? C2N CNA 402 A 1 HETATM 38 C C3N CNA . . . F 4 7.265 22.059 16.426 0.8 106.86 ? C3N CNA 402 A 1 HETATM 39 C C7N CNA . . . F 4 6.884 20.836 17.203 0.8 70.86 ? C7N CNA 402 A 1 HETATM 40 O O7N CNA . . . F 4 7.167 20.729 18.408 0.8 48.9 ? O7N CNA 402 A 1 HETATM 41 N N7N CNA . . . F 4 6.052 19.995 16.605 0.8 64.69 ? N7N CNA 402 A 1 HETATM 42 C C4N CNA . . . F 4 6.203 22.838 15.985 0.8 139.79 ? C4N CNA 402 A 1 HETATM 43 C C5N CNA . . . F 4 6.451 24.001 15.289 0.8 147.42 ? C5N CNA 402 A 1 HETATM 44 C C6N CNA . . . F 4 7.753 24.397 15.088 0.8 140.95 ? C6N CNA 402 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 565 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 44 #