data_2J3N # _model_server_result.job_id aCzMa2gQZsTcbGwYfwf6jA _model_server_result.datetime_utc '2025-06-22 15:37:52' _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 2j3n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":601}' # _entry.id 2J3N # _exptl.entry_id 2J3N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 112.46 _cell.angle_gamma 90 _cell.entry_id 2J3N _cell.length_a 144.63 _cell.length_b 90.64 _cell.length_c 166.6 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2J3N _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 PQS dimeric 2 author_and_software_defined_assembly 1 PQS dimeric 2 author_and_software_defined_assembly 2 PQS 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,H,I,J,K,L,M,X,Y 1 1 C,D,N,O,P,Q,R,Z,AA 2 1 E,F,S,T,U,V,W,BA,CA 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 ? 3 H N N ? 3 K N N ? 3 O N N ? 3 Q N N ? 3 T N N ? 3 V 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 A SG CYS 79 A CYS 59 1_555 A SG CYS 84 A CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf2 B SG CYS 79 B CYS 59 1_555 B SG CYS 84 B CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf3 C SG CYS 79 C CYS 59 1_555 C SG CYS 84 C CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf4 D SG CYS 79 D CYS 59 1_555 D SG CYS 84 D CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 E SG CYS 79 E CYS 59 1_555 E SG CYS 84 E CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf6 E SG CYS 517 E CYS 497 1_555 E SG CYS 518 E CYS 498 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf7 F SG CYS 79 F CYS 59 1_555 F SG CYS 84 F CYS 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? # _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 349 n n PA O2A NAP sing 350 n n PA O5B NAP sing 351 n n PA O3 NAP sing 352 n n O2A HOA2 NAP sing 353 n n O5B C5B NAP sing 354 n n C5B C4B NAP sing 355 n n C5B H51A NAP sing 356 n n C5B H52A NAP sing 357 n n C4B O4B NAP sing 358 n n C4B C3B NAP sing 359 n n C4B H4B NAP sing 360 n n O4B C1B NAP sing 361 n n C3B O3B NAP sing 362 n n C3B C2B NAP sing 363 n n C3B H3B NAP sing 364 n n O3B HO3A NAP sing 365 n n C2B O2B NAP sing 366 n n C2B C1B NAP sing 367 n n C2B H2B NAP sing 368 n n O2B P2B NAP sing 369 n n C1B N9A NAP sing 370 n n C1B H1B NAP sing 371 n n N9A C8A NAP sing 372 n y N9A C4A NAP sing 373 n y C8A N7A NAP doub 374 n y C8A H8A NAP sing 375 n n N7A C5A NAP sing 376 n y C5A C6A NAP sing 377 n y C5A C4A NAP doub 378 n y C6A N6A NAP sing 379 n n C6A N1A NAP doub 380 n y N6A H61A NAP sing 381 n n N6A H62A NAP sing 382 n n N1A C2A NAP sing 383 n y C2A N3A NAP doub 384 n y C2A H2A NAP sing 385 n n N3A C4A NAP sing 386 n y O3 PN NAP sing 387 n n PN O1N NAP doub 388 n n PN O2N NAP sing 389 n n PN O5D NAP sing 390 n n O5D C5D NAP sing 391 n n C5D C4D NAP sing 392 n n C5D H51N NAP sing 393 n n C5D H52N NAP sing 394 n n C4D O4D NAP sing 395 n n C4D C3D NAP sing 396 n n C4D H4D NAP sing 397 n n O4D C1D NAP sing 398 n n C3D O3D NAP sing 399 n n C3D C2D NAP sing 400 n n C3D H3D NAP sing 401 n n O3D HO3N NAP sing 402 n n C2D O2D NAP sing 403 n n C2D C1D NAP sing 404 n n C2D H2D NAP sing 405 n n O2D HO2N NAP sing 406 n n C1D N1N NAP sing 407 n n C1D H1D NAP sing 408 n n N1N C2N NAP sing 409 n y N1N C6N NAP doub 410 n y C2N C3N NAP doub 411 n y C2N H2N NAP sing 412 n n C3N C7N NAP sing 413 n n C3N C4N NAP sing 414 n y C7N O7N NAP doub 415 n n C7N N7N NAP sing 416 n n N7N H71N NAP sing 417 n n N7N H72N NAP sing 418 n n C4N C5N NAP doub 419 n y C4N H4N NAP sing 420 n n C5N C6N NAP sing 421 n y C5N H5N NAP sing 422 n n C6N H6N NAP sing 423 n n P2B O1X NAP doub 424 n n P2B O2X NAP sing 425 n n P2B O3X NAP sing 426 n n O2X HOP2 NAP sing 427 n n O3X HOP3 NAP sing 428 n n # _atom_sites.entry_id 2J3N _atom_sites.fract_transf_matrix[1][1] 0.006914 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002858 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011033 _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] 0.006495 _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 FAD A 1 600 600 FAD FAD . H 3 NAP A 1 601 601 NAP NAP . I 4 MPD A 1 701 701 MPD MPD . J 2 FAD B 1 600 600 FAD FAD . K 3 NAP B 1 601 601 NAP NAP . L 4 MPD B 1 700 700 MPD MPD . M 4 MPD B 1 701 701 MPD MPD . N 2 FAD C 1 600 600 FAD FAD . O 3 NAP C 1 601 601 NAP NAP . P 2 FAD D 1 600 600 FAD FAD . Q 3 NAP D 1 601 601 NAP NAP . R 4 MPD D 1 700 700 MPD MPD . S 2 FAD E 1 600 600 FAD FAD . T 3 NAP E 1 601 601 NAP NAP . U 2 FAD F 1 600 600 FAD FAD . V 3 NAP F 1 601 601 NAP NAP . W 4 MPD F 1 700 700 MPD MPD . X 5 HOH A 1 2001 2001 HOH HOH . X 5 HOH A 2 2002 2002 HOH HOH . X 5 HOH A 3 2003 2003 HOH HOH . X 5 HOH A 4 2004 2004 HOH HOH . X 5 HOH A 5 2005 2005 HOH HOH . X 5 HOH A 6 2006 2006 HOH HOH . X 5 HOH A 7 2007 2007 HOH HOH . X 5 HOH A 8 2008 2008 HOH HOH . X 5 HOH A 9 2009 2009 HOH HOH . Y 5 HOH B 1 2001 2001 HOH HOH . Y 5 HOH B 2 2002 2002 HOH HOH . Y 5 HOH B 3 2003 2003 HOH HOH . Y 5 HOH B 4 2004 2004 HOH HOH . Y 5 HOH B 5 2005 2005 HOH HOH . Y 5 HOH B 6 2006 2006 HOH HOH . Y 5 HOH B 7 2007 2007 HOH HOH . Y 5 HOH B 8 2008 2008 HOH HOH . Y 5 HOH B 9 2009 2009 HOH HOH . Z 5 HOH C 1 2001 2001 HOH HOH . Z 5 HOH C 2 2002 2002 HOH HOH . Z 5 HOH C 3 2003 2003 HOH HOH . Z 5 HOH C 4 2004 2004 HOH HOH . Z 5 HOH C 5 2005 2005 HOH HOH . Z 5 HOH C 6 2006 2006 HOH HOH . Z 5 HOH C 7 2007 2007 HOH HOH . AA 5 HOH D 1 2001 2001 HOH HOH . AA 5 HOH D 2 2002 2002 HOH HOH . AA 5 HOH D 3 2003 2003 HOH HOH . AA 5 HOH D 4 2004 2004 HOH HOH . AA 5 HOH D 5 2005 2005 HOH HOH . AA 5 HOH D 6 2006 2006 HOH HOH . AA 5 HOH D 7 2007 2007 HOH HOH . AA 5 HOH D 8 2008 2008 HOH HOH . BA 5 HOH E 1 2001 2001 HOH HOH . BA 5 HOH E 2 2002 2002 HOH HOH . BA 5 HOH E 3 2003 2003 HOH HOH . BA 5 HOH E 4 2004 2004 HOH HOH . CA 5 HOH F 1 2001 2001 HOH HOH . CA 5 HOH F 2 2002 2002 HOH HOH . CA 5 HOH F 3 2003 2003 HOH HOH . CA 5 HOH F 4 2004 2004 HOH HOH . CA 5 HOH F 5 2005 2005 HOH HOH . CA 5 HOH F 6 2006 2006 HOH HOH . CA 5 HOH F 7 2007 2007 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 . . . V 3 -0.762 -10.173 45.232 1 108.45 ? PA NAP 601 F 1 HETATM 2 O O1A NAP . . . V 3 0.349 -10.952 44.631 1 108.29 ? O1A NAP 601 F 1 HETATM 3 O O2A NAP . . . V 3 -1.795 -10.765 46.104 1 108.28 ? O2A NAP 601 F 1 HETATM 4 O O5B NAP . . . V 3 -1.374 -9.376 44.024 1 105.16 ? O5B NAP 601 F 1 HETATM 5 C C5B NAP . . . V 3 -2.574 -8.613 44.218 1 100.11 ? C5B NAP 601 F 1 HETATM 6 C C4B NAP . . . V 3 -2.897 -8.029 42.851 1 96.96 ? C4B NAP 601 F 1 HETATM 7 O O4B NAP . . . V 3 -2.897 -9.141 41.916 1 95.32 ? O4B NAP 601 F 1 HETATM 8 C C3B NAP . . . V 3 -4.262 -7.389 42.82 1 95.03 ? C3B NAP 601 F 1 HETATM 9 O O3B NAP . . . V 3 -4.255 -6.338 41.818 1 94.72 ? O3B NAP 601 F 1 HETATM 10 C C2B NAP . . . V 3 -5.069 -8.639 42.438 1 92.87 ? C2B NAP 601 F 1 HETATM 11 O O2B NAP . . . V 3 -6.429 -8.481 42.128 1 88.78 ? O2B NAP 601 F 1 HETATM 12 C C1B NAP . . . V 3 -4.207 -9.265 41.365 1 93.43 ? C1B NAP 601 F 1 HETATM 13 N N9A NAP . . . V 3 -4.329 -10.712 41.183 1 93.82 ? N9A NAP 601 F 1 HETATM 14 C C8A NAP . . . V 3 -3.931 -11.697 42.074 1 93.55 ? C8A NAP 601 F 1 HETATM 15 N N7A NAP . . . V 3 -4.141 -12.935 41.648 1 93.25 ? N7A NAP 601 F 1 HETATM 16 C C5A NAP . . . V 3 -4.7 -12.756 40.433 1 94.28 ? C5A NAP 601 F 1 HETATM 17 C C6A NAP . . . V 3 -5.155 -13.707 39.478 1 94.55 ? C6A NAP 601 F 1 HETATM 18 N N6A NAP . . . V 3 -5.079 -15.024 39.682 1 94.39 ? N6A NAP 601 F 1 HETATM 19 N N1A NAP . . . V 3 -5.686 -13.186 38.313 1 94.68 ? N1A NAP 601 F 1 HETATM 20 C C2A NAP . . . V 3 -5.77 -11.844 38.08 1 94.7 ? C2A NAP 601 F 1 HETATM 21 N N3A NAP . . . V 3 -5.364 -10.853 38.939 1 94.31 ? N3A NAP 601 F 1 HETATM 22 C C4A NAP . . . V 3 -4.829 -11.373 40.118 1 94.39 ? C4A NAP 601 F 1 HETATM 23 O O3 NAP . . . V 3 0.092 -9.066 46.025 1 111.74 ? O3 NAP 601 F 1 HETATM 24 P PN NAP . . . V 3 1.239 -9.163 47.12 1 115.33 ? PN NAP 601 F 1 HETATM 25 O O1N NAP . . . V 3 1.924 -7.854 47.297 1 115.17 ? O1N NAP 601 F 1 HETATM 26 O O2N NAP . . . V 3 2.101 -10.331 46.68 1 115.37 ? O2N NAP 601 F 1 HETATM 27 O O5D NAP . . . V 3 0.448 -9.628 48.442 1 116.02 ? O5D NAP 601 F 1 HETATM 28 C C5D NAP . . . V 3 0.704 -10.842 49.181 1 117.9 ? C5D NAP 601 F 1 HETATM 29 C C4D NAP . . . V 3 0.79 -10.505 50.638 1 119 ? C4D NAP 601 F 1 HETATM 30 O O4D NAP . . . V 3 1.362 -9.167 50.74 1 119.73 ? O4D NAP 601 F 1 HETATM 31 C C3D NAP . . . V 3 -0.56 -10.416 51.384 1 119.33 ? C3D NAP 601 F 1 HETATM 32 O O3D NAP . . . V 3 -1.071 -11.655 51.816 1 118.2 ? O3D NAP 601 F 1 HETATM 33 C C2D NAP . . . V 3 -0.254 -9.4 52.475 1 120.05 ? C2D NAP 601 F 1 HETATM 34 O O2D NAP . . . V 3 0.224 -10.106 53.635 1 119.74 ? O2D NAP 601 F 1 HETATM 35 C C1D NAP . . . V 3 0.783 -8.45 51.81 1 120.37 ? C1D NAP 601 F 1 HETATM 36 N N1N NAP . . . V 3 0.249 -7.1 51.251 1 120.2 ? N1N NAP 601 F 1 HETATM 37 C C2N NAP . . . V 3 1.141 -6.229 50.615 1 119.53 ? C2N NAP 601 F 1 HETATM 38 C C3N NAP . . . V 3 0.732 -4.993 50.094 1 118.85 ? C3N NAP 601 F 1 HETATM 39 C C7N NAP . . . V 3 1.692 -4.031 49.401 1 118.46 ? C7N NAP 601 F 1 HETATM 40 O O7N NAP . . . V 3 2.607 -3.506 50.044 1 117.57 ? O7N NAP 601 F 1 HETATM 41 N N7N NAP . . . V 3 1.469 -3.816 48.096 1 118.03 ? N7N NAP 601 F 1 HETATM 42 C C4N NAP . . . V 3 -0.656 -4.608 50.218 1 119.02 ? C4N NAP 601 F 1 HETATM 43 C C5N NAP . . . V 3 -1.56 -5.49 50.862 1 119.31 ? C5N NAP 601 F 1 HETATM 44 C C6N NAP . . . V 3 -1.13 -6.709 51.371 1 119.78 ? C6N NAP 601 F 1 HETATM 45 P P2B NAP . . . V 3 -7.62 -8.749 43.217 1 85.61 ? P2B NAP 601 F 1 HETATM 46 O O1X NAP . . . V 3 -8.804 -9.266 42.46 1 85.65 ? O1X NAP 601 F 1 HETATM 47 O O2X NAP . . . V 3 -6.985 -9.727 44.183 1 83.68 ? O2X NAP 601 F 1 HETATM 48 O O3X NAP . . . V 3 -7.853 -7.4 43.84 1 85.55 ? O3X NAP 601 F 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 48 #