data_2J3N # _model_server_result.job_id EKsIWcDcNiV22oJd3XU85A _model_server_result.datetime_utc '2025-06-22 15:56:20' _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":"O","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 . . . O 3 -53.987 32.567 58.378 1 95.03 ? PA NAP 601 C 1 HETATM 2 O O1A NAP . . . O 3 -54.279 31.116 58.203 1 95.66 ? O1A NAP 601 C 1 HETATM 3 O O2A NAP . . . O 3 -53.851 33.459 57.222 1 95.24 ? O2A NAP 601 C 1 HETATM 4 O O5B NAP . . . O 3 -52.748 32.577 59.301 1 93.36 ? O5B NAP 601 C 1 HETATM 5 C C5B NAP . . . O 3 -52.052 33.766 59.749 1 90.37 ? C5B NAP 601 C 1 HETATM 6 C C4B NAP . . . O 3 -50.992 33.021 60.495 1 88.33 ? C4B NAP 601 C 1 HETATM 7 O O4B NAP . . . O 3 -51.832 33.433 61.75 1 86.75 ? O4B NAP 601 C 1 HETATM 8 C C3B NAP . . . O 3 -49.831 32.538 61.304 1 87.14 ? C3B NAP 601 C 1 HETATM 9 O O3B NAP . . . O 3 -48.98 33.648 61.719 1 87.69 ? O3B NAP 601 C 1 HETATM 10 C C2B NAP . . . O 3 -50.541 31.833 62.407 1 86.21 ? C2B NAP 601 C 1 HETATM 11 O O2B NAP . . . O 3 -49.797 30.951 63.206 1 84.76 ? O2B NAP 601 C 1 HETATM 12 C C1B NAP . . . O 3 -51.087 33.122 62.944 1 85.7 ? C1B NAP 601 C 1 HETATM 13 N N9A NAP . . . O 3 -51.994 33.098 64.087 1 84.36 ? N9A NAP 601 C 1 HETATM 14 C C8A NAP . . . O 3 -53.335 32.751 64.122 1 83.76 ? C8A NAP 601 C 1 HETATM 15 N N7A NAP . . . O 3 -53.864 32.848 65.353 1 83.64 ? N7A NAP 601 C 1 HETATM 16 C C5A NAP . . . O 3 -52.826 33.274 66.117 1 83.8 ? C5A NAP 601 C 1 HETATM 17 C C6A NAP . . . O 3 -52.745 33.578 67.521 1 83.25 ? C6A NAP 601 C 1 HETATM 18 N N6A NAP . . . O 3 -53.785 33.479 68.348 1 83.09 ? N6A NAP 601 C 1 HETATM 19 N N1A NAP . . . O 3 -51.517 33.987 67.978 1 82.73 ? N1A NAP 601 C 1 HETATM 20 C C2A NAP . . . O 3 -50.436 34.105 67.166 1 82.77 ? C2A NAP 601 C 1 HETATM 21 N N3A NAP . . . O 3 -50.415 33.848 65.814 1 83.11 ? N3A NAP 601 C 1 HETATM 22 C C4A NAP . . . O 3 -51.659 33.428 65.339 1 83.61 ? C4A NAP 601 C 1 HETATM 23 O O3 NAP . . . O 3 -55.124 33.07 59.373 1 97.79 ? O3 NAP 601 C 1 HETATM 24 P PN NAP . . . O 3 -56.622 32.668 59.659 1 101.41 ? PN NAP 601 C 1 HETATM 25 O O1N NAP . . . O 3 -57.367 33.83 60.225 1 101.32 ? O1N NAP 601 C 1 HETATM 26 O O2N NAP . . . O 3 -56.505 31.423 60.5 1 101.2 ? O2N NAP 601 C 1 HETATM 27 O O5D NAP . . . O 3 -57.25 32.204 58.248 1 100.69 ? O5D NAP 601 C 1 HETATM 28 C C5D NAP . . . O 3 -58.084 31.028 58.113 1 101.47 ? C5D NAP 601 C 1 HETATM 29 C C4D NAP . . . O 3 -58.678 30.924 56.737 1 101.54 ? C4D NAP 601 C 1 HETATM 30 O O4D NAP . . . O 3 -57.756 31.423 55.732 1 101.5 ? O4D NAP 601 C 1 HETATM 31 C C3D NAP . . . O 3 -59.065 29.503 56.286 1 101.68 ? C3D NAP 601 C 1 HETATM 32 O O3D NAP . . . O 3 -60.357 29.123 56.698 1 101.04 ? O3D NAP 601 C 1 HETATM 33 C C2D NAP . . . O 3 -58.836 29.523 54.774 1 101.46 ? C2D NAP 601 C 1 HETATM 34 O O2D NAP . . . O 3 -60.078 29.713 54.097 1 100.9 ? O2D NAP 601 C 1 HETATM 35 C C1D NAP . . . O 3 -57.825 30.66 54.552 1 101.73 ? C1D NAP 601 C 1 HETATM 36 N N1N NAP . . . O 3 -56.402 30.263 54.159 1 102.04 ? N1N NAP 601 C 1 HETATM 37 C C2N NAP . . . O 3 -56.065 28.936 53.941 1 102.1 ? C2N NAP 601 C 1 HETATM 38 C C3N NAP . . . O 3 -54.773 28.563 53.573 1 101.86 ? C3N NAP 601 C 1 HETATM 39 C C7N NAP . . . O 3 -54.396 27.124 53.332 1 101.21 ? C7N NAP 601 C 1 HETATM 40 O O7N NAP . . . O 3 -54.167 26.75 52.184 1 100.35 ? O7N NAP 601 C 1 HETATM 41 N N7N NAP . . . O 3 -54.343 26.34 54.424 1 100.88 ? N7N NAP 601 C 1 HETATM 42 C C4N NAP . . . O 3 -53.755 29.583 53.409 1 102 ? C4N NAP 601 C 1 HETATM 43 C C5N NAP . . . O 3 -54.1 30.934 53.631 1 101.77 ? C5N NAP 601 C 1 HETATM 44 C C6N NAP . . . O 3 -55.397 31.28 53.998 1 101.98 ? C6N NAP 601 C 1 HETATM 45 P P2B NAP . . . O 3 -49.928 29.316 62.993 1 82.38 ? P2B NAP 601 C 1 HETATM 46 O O1X NAP . . . O 3 -49.249 28.95 61.701 1 82.19 ? O1X NAP 601 C 1 HETATM 47 O O2X NAP . . . O 3 -49.287 28.782 64.235 1 84.31 ? O2X NAP 601 C 1 HETATM 48 O O3X NAP . . . O 3 -51.413 29.026 62.958 1 80.79 ? O3X NAP 601 C 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #