data_1QKI # _model_server_result.job_id xVLctLUS66GXHxAaqE5xug _model_server_result.datetime_utc '2024-11-30 13:34:19' _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":"R","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 . . . R 2 -3.971 90.595 60.681 1 58.59 ? PA NAP 800 D 1 HETATM 2 O O1A NAP . . . R 2 -4.481 89.235 60.37 1 61.64 ? O1A NAP 800 D 1 HETATM 3 O O2A NAP . . . R 2 -4.543 91.618 59.772 1 54.37 ? O2A NAP 800 D 1 HETATM 4 O O5B NAP . . . R 2 -2.427 90.537 60.28 1 58.32 ? O5B NAP 800 D 1 HETATM 5 C C5B NAP . . . R 2 -1.543 91.416 60.992 1 55.67 ? C5B NAP 800 D 1 HETATM 6 C C4B NAP . . . R 2 -0.136 91.522 60.327 1 52.88 ? C4B NAP 800 D 1 HETATM 7 O O4B NAP . . . R 2 -0.158 90.78 59.094 1 48.9 ? O4B NAP 800 D 1 HETATM 8 C C3B NAP . . . R 2 0.156 92.958 59.892 1 52.08 ? C3B NAP 800 D 1 HETATM 9 O O3B NAP . . . R 2 1.482 93.358 60.234 1 48.91 ? O3B NAP 800 D 1 HETATM 10 C C2B NAP . . . R 2 -0.088 92.899 58.405 1 42.82 ? C2B NAP 800 D 1 HETATM 11 O O2B NAP . . . R 2 0.585 93.966 57.748 1 38.32 ? O2B NAP 800 D 1 HETATM 12 C C1B NAP . . . R 2 0.54 91.561 58.163 1 41.79 ? C1B NAP 800 D 1 HETATM 13 N N9A NAP . . . R 2 0.211 91.111 56.828 1 44.79 ? N9A NAP 800 D 1 HETATM 14 C C8A NAP . . . R 2 -0.975 91.261 56.164 1 45.42 ? C8A NAP 800 D 1 HETATM 15 N N7A NAP . . . R 2 -1.011 90.65 55.007 1 52.04 ? N7A NAP 800 D 1 HETATM 16 C C5A NAP . . . R 2 0.247 90.128 54.873 1 53.63 ? C5A NAP 800 D 1 HETATM 17 C C6A NAP . . . R 2 0.798 89.412 53.828 1 57.34 ? C6A NAP 800 D 1 HETATM 18 N N6A NAP . . . R 2 0.121 89.104 52.673 1 49.85 ? N6A NAP 800 D 1 HETATM 19 N N1A NAP . . . R 2 2.103 89.017 53.971 1 59.41 ? N1A NAP 800 D 1 HETATM 20 C C2A NAP . . . R 2 2.764 89.345 55.094 1 52.97 ? C2A NAP 800 D 1 HETATM 21 N N3A NAP . . . R 2 2.323 90.035 56.145 1 52.47 ? N3A NAP 800 D 1 HETATM 22 C C4A NAP . . . R 2 1.038 90.394 55.964 1 49.69 ? C4A NAP 800 D 1 HETATM 23 O O3 NAP . . . R 2 -4.106 90.925 62.19 1 47.63 ? O3 NAP 800 D 1 HETATM 24 P PN NAP . . . R 2 -4.517 92.229 62.91 1 46.76 ? PN NAP 800 D 1 HETATM 25 O O1N NAP . . . R 2 -3.896 93.455 62.337 1 43.96 ? O1N NAP 800 D 1 HETATM 26 O O2N NAP . . . R 2 -4.28 92.154 64.368 1 45.92 ? O2N NAP 800 D 1 HETATM 27 O O5D NAP . . . R 2 -6.116 92.425 62.798 1 51.36 ? O5D NAP 800 D 1 HETATM 28 C C5D NAP . . . R 2 -6.844 92.753 61.591 1 50.59 ? C5D NAP 800 D 1 HETATM 29 C C4D NAP . . . R 2 -7.835 93.895 61.854 1 46.84 ? C4D NAP 800 D 1 HETATM 30 O O4D NAP . . . R 2 -8.421 93.649 63.163 1 47.49 ? O4D NAP 800 D 1 HETATM 31 C C3D NAP . . . R 2 -7.104 95.225 62.025 1 53.89 ? C3D NAP 800 D 1 HETATM 32 O O3D NAP . . . R 2 -7.791 96.306 61.402 1 57.89 ? O3D NAP 800 D 1 HETATM 33 C C2D NAP . . . R 2 -7.058 95.365 63.521 1 47.51 ? C2D NAP 800 D 1 HETATM 34 O O2D NAP . . . R 2 -6.801 96.71 63.885 1 47.45 ? O2D NAP 800 D 1 HETATM 35 C C1D NAP . . . R 2 -8.453 94.904 63.814 1 43.44 ? C1D NAP 800 D 1 HETATM 36 N N1N NAP . . . R 2 -8.562 94.761 65.258 1 43.56 ? N1N NAP 800 D 1 HETATM 37 C C2N NAP . . . R 2 -8.744 95.806 66.049 1 44.03 ? C2N NAP 800 D 1 HETATM 38 C C3N NAP . . . R 2 -8.772 95.678 67.405 1 43 ? C3N NAP 800 D 1 HETATM 39 C C7N NAP . . . R 2 -8.959 96.673 68.483 1 38.71 ? C7N NAP 800 D 1 HETATM 40 O O7N NAP . . . R 2 -9.372 97.782 68.158 1 48.56 ? O7N NAP 800 D 1 HETATM 41 N N7N NAP . . . R 2 -8.657 96.249 69.731 1 32.79 ? N7N NAP 800 D 1 HETATM 42 C C4N NAP . . . R 2 -8.607 94.424 67.928 1 52.43 ? C4N NAP 800 D 1 HETATM 43 C C5N NAP . . . R 2 -8.433 93.342 67.103 1 59.03 ? C5N NAP 800 D 1 HETATM 44 C C6N NAP . . . R 2 -8.416 93.551 65.768 1 48.21 ? C6N NAP 800 D 1 HETATM 45 P P2B NAP . . . R 2 0.25 95.501 57.96 1 47.81 ? P2B NAP 800 D 1 HETATM 46 O O1X NAP . . . R 2 0.722 95.836 59.323 1 44.94 ? O1X NAP 800 D 1 HETATM 47 O O2X NAP . . . R 2 -1.216 95.588 57.804 1 51.29 ? O2X NAP 800 D 1 HETATM 48 O O3X NAP . . . R 2 1.002 96.202 56.904 1 42.91 ? O3X NAP 800 D 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 38 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 48 #