data_1QKI # _model_server_result.job_id 5qbLkFxPv6perPWzfyVlxw _model_server_result.datetime_utc '2024-11-30 13:50:27' _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 1qki # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":800}' # _entry.id 1QKI # _exptl.entry_id 1QKI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 8 _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 1QKI _cell.length_a 128.9 _cell.length_b 208.7 _cell.length_c 214.3 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1QKI _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 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 PQS tetrameric 4 software_defined_assembly 1 PQS tetrameric 4 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,C,D,I,J,K,L,M,N,O,P,Q,R,S,DA,EA,FA,GA 1 1 E,F,G,H,T,U,V,W,X,Y,Z,AA,BA,CA,HA,IA,JA 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 ? 2 I N N ? 2 K N N ? 2 O N N ? 2 R N N ? 2 T N N ? 2 W N N ? 2 Y N N ? 2 BA 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 disulf ? disulf1 C SG CYS 12 C CYS 13 1_555 C SG CYS 445 C CYS 446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 D SG CYS 12 D CYS 13 1_555 D SG CYS 445 D CYS 446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 E SG CYS 12 E CYS 13 1_555 E SG CYS 445 E CYS 446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 F SG CYS 12 F CYS 13 1_555 F SG CYS 445 F CYS 446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 H SG CYS 12 H CYS 13 1_555 H SG CYS 445 H CYS 446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 PA O1A NAP doub 258 n n PA O2A NAP sing 259 n n PA O5B NAP sing 260 n n PA O3 NAP sing 261 n n O2A HOA2 NAP sing 262 n n O5B C5B NAP sing 263 n n C5B C4B NAP sing 264 n n C5B H51A NAP sing 265 n n C5B H52A NAP sing 266 n n C4B O4B NAP sing 267 n n C4B C3B NAP sing 268 n n C4B H4B NAP sing 269 n n O4B C1B NAP sing 270 n n C3B O3B NAP sing 271 n n C3B C2B NAP sing 272 n n C3B H3B NAP sing 273 n n O3B HO3A NAP sing 274 n n C2B O2B NAP sing 275 n n C2B C1B NAP sing 276 n n C2B H2B NAP sing 277 n n O2B P2B NAP sing 278 n n C1B N9A NAP sing 279 n n C1B H1B NAP sing 280 n n N9A C8A NAP sing 281 n y N9A C4A NAP sing 282 n y C8A N7A NAP doub 283 n y C8A H8A NAP sing 284 n n N7A C5A NAP sing 285 n y C5A C6A NAP sing 286 n y C5A C4A NAP doub 287 n y C6A N6A NAP sing 288 n n C6A N1A NAP doub 289 n y N6A H61A NAP sing 290 n n N6A H62A NAP sing 291 n n N1A C2A NAP sing 292 n y C2A N3A NAP doub 293 n y C2A H2A NAP sing 294 n n N3A C4A NAP sing 295 n y O3 PN NAP sing 296 n n PN O1N NAP doub 297 n n PN O2N NAP sing 298 n n PN O5D NAP sing 299 n n O5D C5D NAP sing 300 n n C5D C4D NAP sing 301 n n C5D H51N NAP sing 302 n n C5D H52N NAP sing 303 n n C4D O4D NAP sing 304 n n C4D C3D NAP sing 305 n n C4D H4D NAP sing 306 n n O4D C1D NAP sing 307 n n C3D O3D NAP sing 308 n n C3D C2D NAP sing 309 n n C3D H3D NAP sing 310 n n O3D HO3N NAP sing 311 n n C2D O2D NAP sing 312 n n C2D C1D NAP sing 313 n n C2D H2D NAP sing 314 n n O2D HO2N NAP sing 315 n n C1D N1N NAP sing 316 n n C1D H1D NAP sing 317 n n N1N C2N NAP sing 318 n y N1N C6N NAP doub 319 n y C2N C3N NAP doub 320 n y C2N H2N NAP sing 321 n n C3N C7N NAP sing 322 n n C3N C4N NAP sing 323 n y C7N O7N NAP doub 324 n n C7N N7N NAP sing 325 n n N7N H71N NAP sing 326 n n N7N H72N NAP sing 327 n n C4N C5N NAP doub 328 n y C4N H4N NAP sing 329 n n C5N C6N NAP sing 330 n y C5N H5N NAP sing 331 n n C6N H6N NAP sing 332 n n P2B O1X NAP doub 333 n n P2B O2X NAP sing 334 n n P2B O3X NAP sing 335 n n O2X HOP2 NAP sing 336 n n O3X HOP3 NAP sing 337 n n # _atom_sites.entry_id 1QKI _atom_sites.fract_transf_matrix[1][1] 0.007758 _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] 0.004792 _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] 0.004666 _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 I 2 NAP A 1 800 800 NAP NAP . J 3 GOA A 1 900 900 GOA GOA . K 2 NAP B 1 800 800 NAP NAP . L 3 GOA B 1 900 900 GOA GOA . M 4 GOL B 1 1101 1101 GOL GOL . N 4 GOL B 1 1102 1102 GOL GOL . O 2 NAP C 1 800 800 NAP NAP . P 3 GOA C 1 900 900 GOA GOA . Q 4 GOL C 1 1103 1103 GOL GOL . R 2 NAP D 1 800 800 NAP NAP . S 3 GOA D 1 900 900 GOA GOA . T 2 NAP E 1 800 800 NAP NAP . U 3 GOA E 1 900 900 GOA GOA . V 4 GOL E 1 1105 1105 GOL GOL . W 2 NAP F 1 800 800 NAP NAP . X 3 GOA F 1 900 900 GOA GOA . Y 2 NAP G 1 800 800 NAP NAP . Z 3 GOA G 1 900 900 GOA GOA . AA 4 GOL G 1 1104 1104 GOL GOL . BA 2 NAP H 1 800 800 NAP NAP . CA 3 GOA H 1 900 900 GOA GOA . DA 5 HOH A 1 2001 2001 HOH HOH . DA 5 HOH A 2 2002 2002 HOH HOH . DA 5 HOH A 3 2003 2003 HOH HOH . DA 5 HOH A 4 2004 2004 HOH HOH . DA 5 HOH A 5 2005 2005 HOH HOH . DA 5 HOH A 6 2006 2006 HOH HOH . DA 5 HOH A 7 2007 2007 HOH HOH . DA 5 HOH A 8 2008 2008 HOH HOH . DA 5 HOH A 9 2009 2009 HOH HOH . DA 5 HOH A 10 2010 2010 HOH HOH . DA 5 HOH A 11 2011 2011 HOH HOH . DA 5 HOH A 12 2012 2012 HOH HOH . DA 5 HOH A 13 2013 2013 HOH HOH . EA 5 HOH B 1 2001 2001 HOH HOH . EA 5 HOH B 2 2002 2002 HOH HOH . EA 5 HOH B 3 2003 2003 HOH HOH . EA 5 HOH B 4 2004 2004 HOH HOH . EA 5 HOH B 5 2005 2005 HOH HOH . EA 5 HOH B 6 2006 2006 HOH HOH . EA 5 HOH B 7 2007 2007 HOH HOH . EA 5 HOH B 8 2008 2008 HOH HOH . EA 5 HOH B 9 2009 2009 HOH HOH . FA 5 HOH C 1 2001 2001 HOH HOH . FA 5 HOH C 2 2002 2002 HOH HOH . FA 5 HOH C 3 2003 2003 HOH HOH . GA 5 HOH D 1 2001 2001 HOH HOH . GA 5 HOH D 2 2002 2002 HOH HOH . GA 5 HOH D 3 2003 2003 HOH HOH . GA 5 HOH D 4 2004 2004 HOH HOH . GA 5 HOH D 5 2005 2005 HOH HOH . GA 5 HOH D 6 2006 2006 HOH HOH . GA 5 HOH D 7 2007 2007 HOH HOH . GA 5 HOH D 8 2008 2008 HOH HOH . HA 5 HOH E 1 2001 2001 HOH HOH . HA 5 HOH E 2 2002 2002 HOH HOH . HA 5 HOH E 3 2003 2003 HOH HOH . HA 5 HOH E 4 2004 2004 HOH HOH . HA 5 HOH E 5 2005 2005 HOH HOH . HA 5 HOH E 6 2006 2006 HOH HOH . HA 5 HOH E 7 2007 2007 HOH HOH . HA 5 HOH E 8 2008 2008 HOH HOH . HA 5 HOH E 9 2009 2009 HOH HOH . HA 5 HOH E 10 2010 2010 HOH HOH . HA 5 HOH E 11 2011 2011 HOH HOH . IA 5 HOH F 1 2001 2001 HOH HOH . IA 5 HOH F 2 2002 2002 HOH HOH . IA 5 HOH F 3 2003 2003 HOH HOH . JA 5 HOH H 1 2001 2001 HOH HOH . JA 5 HOH H 2 2002 2002 HOH HOH . JA 5 HOH H 3 2003 2003 HOH HOH . JA 5 HOH H 4 2004 2004 HOH HOH . JA 5 HOH H 5 2005 2005 HOH HOH . JA 5 HOH H 6 2006 2006 HOH HOH . JA 5 HOH H 7 2007 2007 HOH HOH . JA 5 HOH H 8 2008 2008 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 NAP . . . Y 2 -14.293 102.427 129.992 1 64.08 ? PA NAP 800 G 1 HETATM 2 O O1A NAP . . . Y 2 -13.008 101.833 129.545 1 65.33 ? O1A NAP 800 G 1 HETATM 3 O O2A NAP . . . Y 2 -15.421 101.484 129.798 1 65.1 ? O2A NAP 800 G 1 HETATM 4 O O5B NAP . . . Y 2 -14.57 103.579 128.926 1 52.52 ? O5B NAP 800 G 1 HETATM 5 C C5B NAP . . . Y 2 -14.96 104.876 129.375 1 47.16 ? C5B NAP 800 G 1 HETATM 6 C C4B NAP . . . Y 2 -15.258 105.731 128.162 1 43.76 ? C4B NAP 800 G 1 HETATM 7 O O4B NAP . . . Y 2 -15.133 104.869 127.012 1 48.61 ? O4B NAP 800 G 1 HETATM 8 C C3B NAP . . . Y 2 -16.717 106.166 128.124 1 50.8 ? C3B NAP 800 G 1 HETATM 9 O O3B NAP . . . Y 2 -16.863 107.573 127.895 1 44.96 ? O3B NAP 800 G 1 HETATM 10 C C2B NAP . . . Y 2 -17.289 105.325 126.979 1 55.71 ? C2B NAP 800 G 1 HETATM 11 O O2B NAP . . . Y 2 -18.435 105.974 126.44 1 54.59 ? O2B NAP 800 G 1 HETATM 12 C C1B NAP . . . Y 2 -16.073 105.374 126.091 1 52.18 ? C1B NAP 800 G 1 HETATM 13 N N9A NAP . . . Y 2 -16.149 104.481 124.924 1 46.25 ? N9A NAP 800 G 1 HETATM 14 C C8A NAP . . . Y 2 -16.522 103.164 124.839 1 40.91 ? C8A NAP 800 G 1 HETATM 15 N N7A NAP . . . Y 2 -16.221 102.61 123.679 1 42.45 ? N7A NAP 800 G 1 HETATM 16 C C5A NAP . . . Y 2 -15.694 103.65 122.952 1 48.86 ? C5A NAP 800 G 1 HETATM 17 C C6A NAP . . . Y 2 -15.168 103.668 121.676 1 51.13 ? C6A NAP 800 G 1 HETATM 18 N N6A NAP . . . Y 2 -15.067 102.572 120.864 1 48.31 ? N6A NAP 800 G 1 HETATM 19 N N1A NAP . . . Y 2 -14.716 104.865 121.203 1 48.93 ? N1A NAP 800 G 1 HETATM 20 C C2A NAP . . . Y 2 -14.841 105.944 121.968 1 46.8 ? C2A NAP 800 G 1 HETATM 21 N N3A NAP . . . Y 2 -15.333 106.036 123.2 1 48.69 ? N3A NAP 800 G 1 HETATM 22 C C4A NAP . . . Y 2 -15.714 104.829 123.645 1 47.59 ? C4A NAP 800 G 1 HETATM 23 O O3 NAP . . . Y 2 -14.209 102.992 131.459 1 49.05 ? O3 NAP 800 G 1 HETATM 24 P PN NAP . . . Y 2 -15.089 103.031 132.749 1 41.2 ? PN NAP 800 G 1 HETATM 25 O O1N NAP . . . Y 2 -16.46 103.544 132.509 1 48.17 ? O1N NAP 800 G 1 HETATM 26 O O2N NAP . . . Y 2 -14.441 103.825 133.816 1 41.57 ? O2N NAP 800 G 1 HETATM 27 O O5D NAP . . . Y 2 -15.287 101.558 133.382 1 40.62 ? O5D NAP 800 G 1 HETATM 28 C C5D NAP . . . Y 2 -15.913 100.448 132.69 1 42.77 ? C5D NAP 800 G 1 HETATM 29 C C4D NAP . . . Y 2 -16.95 99.705 133.571 1 45.31 ? C4D NAP 800 G 1 HETATM 30 O O4D NAP . . . Y 2 -16.358 99.506 134.886 1 45.83 ? O4D NAP 800 G 1 HETATM 31 C C3D NAP . . . Y 2 -18.172 100.57 133.865 1 49.5 ? C3D NAP 800 G 1 HETATM 32 O O3D NAP . . . Y 2 -19.341 99.799 134.138 1 58.37 ? O3D NAP 800 G 1 HETATM 33 C C2D NAP . . . Y 2 -17.742 101.309 135.068 1 43.92 ? C2D NAP 800 G 1 HETATM 34 O O2D NAP . . . Y 2 -18.876 101.96 135.62 1 40.51 ? O2D NAP 800 G 1 HETATM 35 C C1D NAP . . . Y 2 -17.249 100.104 135.817 1 39.87 ? C1D NAP 800 G 1 HETATM 36 N N1N NAP . . . Y 2 -16.544 100.604 136.988 1 48.69 ? N1N NAP 800 G 1 HETATM 37 C C2N NAP . . . Y 2 -17.207 100.838 138.099 1 47.84 ? C2N NAP 800 G 1 HETATM 38 C C3N NAP . . . Y 2 -16.595 101.35 139.198 1 51.84 ? C3N NAP 800 G 1 HETATM 39 C C7N NAP . . . Y 2 -17.205 101.568 140.543 1 52.39 ? C7N NAP 800 G 1 HETATM 40 O O7N NAP . . . Y 2 -18.016 100.726 140.931 1 53.56 ? O7N NAP 800 G 1 HETATM 41 N N7N NAP . . . Y 2 -16.677 102.581 141.271 1 43.8 ? N7N NAP 800 G 1 HETATM 42 C C4N NAP . . . Y 2 -15.26 101.67 139.101 1 53.59 ? C4N NAP 800 G 1 HETATM 43 C C5N NAP . . . Y 2 -14.567 101.424 137.941 1 48.13 ? C5N NAP 800 G 1 HETATM 44 C C6N NAP . . . Y 2 -15.244 100.868 136.91 1 46.16 ? C6N NAP 800 G 1 HETATM 45 P P2B NAP . . . Y 2 -19.826 105.368 126.933 1 55.75 ? P2B NAP 800 G 1 HETATM 46 O O1X NAP . . . Y 2 -20.013 105.864 128.314 1 46.31 ? O1X NAP 800 G 1 HETATM 47 O O2X NAP . . . Y 2 -19.694 103.889 126.86 1 44.02 ? O2X NAP 800 G 1 HETATM 48 O O3X NAP . . . Y 2 -20.787 105.943 125.968 1 48.18 ? O3X NAP 800 G 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #