1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Oost, T.K. Sun, C. Armstrong, R.C. Al-Assaad, A.S. Betz, S.F. Deckwerth, T.L. Elmore, S.W. Meadows, R.P. Olejniczak, E.T. Oleksijew, A. Oltersdorf, T. Rosenberg, S.H. Shoemaker, A.R. Zou, H. Fesik, S.W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C25 H38 N4 O3 442.594 N-METHYLALANYL-3-METHYLVALYL-N-(1,2,3,4-TETRAHYDRONAPHTHALEN-1-YL)PROLINAMIDE 1-[3,3-DIMETHYL-2-(2-METHYLAMINO-PROPIONYLAMINO)-BUTYRYL]-PYRROLIDINE-2-CARBOXYLIC ACID(1,2,3,4-TETRAHYDRO-NAPHTHALEN-1-YL)-AMIDE non-polymer C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking Zn 2 65.409 ZINC ION non-polymer US J.Med.Chem. JMCMAR 0151 0022-2623 47 4417 4426 10.1021/jm040037k 15317454 Discovery of Potent Antagonists of the Antiapoptotic Protein XIAP for the Treatment of Cancer. 2004 10.2210/pdb1tfq/pdb pdb_00001tfq 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 13424.951 Baculoviral IAP repeat-containing protein 4 BIR3 of XIAP: RESIDUES 241-356 1 man polymer 65.409 ZINC ION 1 syn non-polymer 442.594 N-METHYLALANYL-3-METHYLVALYL-N-(1,2,3,4-TETRAHYDRONAPHTHALEN-1-YL)PROLINAMIDE 1 syn non-polymer Inhibitor of apoptosis protein 3, X-linked inhibitor of apoptosis protein, XIAP, X-linked IAP, IAP-like protein, HILP no no MSDAVSSDRNFPNSTNLPRNPSMADYEARIFTFGTWIYSVNKEQLARAGFYALGEGDKVKCFHCGGGLTDWKPSEDPWEQ HAKWYPGCKYLLEQKGQEYINNIHLTHSLEECLVRTT MSDAVSSDRNFPNSTNLPRNPSMADYEARIFTFGTWIYSVNKEQLARAGFYALGEGDKVKCFHCGGGLTDWKPSEDPWEQ HAKWYPGCKYLLEQKGQEYINNIHLTHSLEECLVRTT A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n human Homo Escherichia sample BIRC4, API3, IAP3, XIAP 9606 Homo sapiens 562 Escherichia coli plasmid pet28b database_2 pdbx_struct_assembly pdbx_struct_conn_angle pdbx_struct_oper_list struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Version format compliance Database references Derived calculations 1 0 2004-09-07 1 1 2008-04-30 1 2 2011-07-13 1 3 2022-03-02 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_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.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _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_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id NMR Structure of an Antagonists of the XIAP-Caspase-9 Interaction Complexed to the BIR3 domain of XIAP RCSB Y RCSB 2004-05-27 REL ZN ZINC ION 998 N-METHYLALANYL-3-METHYLVALYL-N-(1,2,3,4-TETRAHYDRONAPHTHALEN-1-YL)PROLINAMIDE 1 3D_13C-separated_NOESY 3D_15N-separated_NOESY 2D_13C,15N filtered NOESY 2D_13C,15N filtered tocsy 3D_13C,15N filtered ,13C separated NOESY 20mM Tris 7.2 ambient 303 K simulated annealing 1 minimized average structure U-15N, 0.8mM Bir3,20mM Tris, 2mMDTT, 20mM phosphate buffer, 120mM NaCl, 90%H2O, 10%D20 90%H2O, 10%D20 U-15N,13C 0.8mM Bir3, 20mM Tris, 2mMDTT, 20mM phosphate buffer, 120mM NaCl, 100%D2O 100% D2O Brunger refinement CNS 2000 600 Bruker DRX ZN 999 2 ZN ZN 999 A LIG 998 3 998 998 998 A MET 240 n 1 MET 240 A SER 241 n 2 SER 241 A ASP 242 n 3 ASP 242 A ALA 243 n 4 ALA 243 A VAL 244 n 5 VAL 244 A SER 245 n 6 SER 245 A SER 246 n 7 SER 246 A ASP 247 n 8 ASP 247 A ARG 248 n 9 ARG 248 A ASN 249 n 10 ASN 249 A PHE 250 n 11 PHE 250 A PRO 251 n 12 PRO 251 A ASN 252 n 13 ASN 252 A SER 253 n 14 SER 253 A THR 254 n 15 THR 254 A ASN 255 n 16 ASN 255 A LEU 256 n 17 LEU 256 A PRO 257 n 18 PRO 257 A ARG 258 n 19 ARG 258 A ASN 259 n 20 ASN 259 A PRO 260 n 21 PRO 260 A SER 261 n 22 SER 261 A MET 262 n 23 MET 262 A ALA 263 n 24 ALA 263 A ASP 264 n 25 ASP 264 A TYR 265 n 26 TYR 265 A GLU 266 n 27 GLU 266 A ALA 267 n 28 ALA 267 A ARG 268 n 29 ARG 268 A ILE 269 n 30 ILE 269 A PHE 270 n 31 PHE 270 A THR 271 n 32 THR 271 A PHE 272 n 33 PHE 272 A GLY 273 n 34 GLY 273 A THR 274 n 35 THR 274 A TRP 275 n 36 TRP 275 A ILE 276 n 37 ILE 276 A TYR 277 n 38 TYR 277 A SER 278 n 39 SER 278 A VAL 279 n 40 VAL 279 A ASN 280 n 41 ASN 280 A LYS 281 n 42 LYS 281 A GLU 282 n 43 GLU 282 A GLN 283 n 44 GLN 283 A LEU 284 n 45 LEU 284 A ALA 285 n 46 ALA 285 A ARG 286 n 47 ARG 286 A ALA 287 n 48 ALA 287 A GLY 288 n 49 GLY 288 A PHE 289 n 50 PHE 289 A TYR 290 n 51 TYR 290 A ALA 291 n 52 ALA 291 A LEU 292 n 53 LEU 292 A GLY 293 n 54 GLY 293 A GLU 294 n 55 GLU 294 A GLY 295 n 56 GLY 295 A ASP 296 n 57 ASP 296 A LYS 297 n 58 LYS 297 A VAL 298 n 59 VAL 298 A LYS 299 n 60 LYS 299 A CYS 300 n 61 CYS 300 A PHE 301 n 62 PHE 301 A HIS 302 n 63 HIS 302 A CYS 303 n 64 CYS 303 A GLY 304 n 65 GLY 304 A GLY 305 n 66 GLY 305 A GLY 306 n 67 GLY 306 A LEU 307 n 68 LEU 307 A THR 308 n 69 THR 308 A ASP 309 n 70 ASP 309 A TRP 310 n 71 TRP 310 A LYS 311 n 72 LYS 311 A PRO 312 n 73 PRO 312 A SER 313 n 74 SER 313 A GLU 314 n 75 GLU 314 A ASP 315 n 76 ASP 315 A PRO 316 n 77 PRO 316 A TRP 317 n 78 TRP 317 A GLU 318 n 79 GLU 318 A GLN 319 n 80 GLN 319 A HIS 320 n 81 HIS 320 A ALA 321 n 82 ALA 321 A LYS 322 n 83 LYS 322 A TRP 323 n 84 TRP 323 A TYR 324 n 85 TYR 324 A PRO 325 n 86 PRO 325 A GLY 326 n 87 GLY 326 A CYS 327 n 88 CYS 327 A LYS 328 n 89 LYS 328 A TYR 329 n 90 TYR 329 A LEU 330 n 91 LEU 330 A LEU 331 n 92 LEU 331 A GLU 332 n 93 GLU 332 A GLN 333 n 94 GLN 333 A LYS 334 n 95 LYS 334 A GLY 335 n 96 GLY 335 A GLN 336 n 97 GLN 336 A GLU 337 n 98 GLU 337 A TYR 338 n 99 TYR 338 A ILE 339 n 100 ILE 339 A ASN 340 n 101 ASN 340 A ASN 341 n 102 ASN 341 A ILE 342 n 103 ILE 342 A HIS 343 n 104 HIS 343 A LEU 344 n 105 LEU 344 A THR 345 n 106 THR 345 A HIS 346 n 107 HIS 346 A SER 347 n 108 SER 347 A LEU 348 n 109 LEU 348 A GLU 349 n 110 GLU 349 A GLU 350 n 111 GLU 350 A CYS 351 n 112 CYS 351 A LEU 352 n 113 LEU 352 A VAL 353 n 114 VAL 353 A ARG 354 n 115 ARG 354 A THR 355 n 116 THR 355 A THR 356 n 117 THR 356 A author_defined_assembly 1 monomeric A CYS 300 A SG CYS 61 1_555 A ZN 999 B ZN ZN 1_555 A CYS 303 A SG CYS 64 1_555 108.6 A CYS 300 A SG CYS 61 1_555 A ZN 999 B ZN ZN 1_555 A HIS 320 A ND1 HIS 81 1_555 110.0 A CYS 303 A SG CYS 64 1_555 A ZN 999 B ZN ZN 1_555 A HIS 320 A ND1 HIS 81 1_555 110.0 A CYS 300 A SG CYS 61 1_555 A ZN 999 B ZN ZN 1_555 A CYS 327 A SG CYS 88 1_555 109.2 A CYS 303 A SG CYS 64 1_555 A ZN 999 B ZN ZN 1_555 A CYS 327 A SG CYS 88 1_555 110.1 A HIS 320 A ND1 HIS 81 1_555 A ZN 999 B ZN ZN 1_555 A CYS 327 A SG CYS 88 1_555 109.0 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N TYR 290 A N TYR 51 A O LYS 299 A O LYS 60 A N VAL 298 A N VAL 59 A O LEU 307 A O LEU 68 1 A ALA 243 63.16 -176.77 1 A VAL 244 -150.92 80.29 1 A SER 245 -159.55 -66.69 1 A ASP 247 -147.84 -61.36 1 A PHE 250 59.36 72.42 1 A ASN 252 -151.81 -60.91 1 A SER 253 -178.15 -54.37 1 A ASN 255 -58.70 100.62 1 A ARG 258 -170.11 -63.56 1 A ASN 259 57.49 74.31 1 A MET 262 -169.05 -50.38 1 A ASP 264 -137.56 -59.76 1 A TYR 277 -146.58 -52.06 1 A SER 278 -129.35 -73.21 1 A ASP 296 72.51 -56.62 1 A LYS 297 -53.59 100.67 1 A HIS 302 71.10 -66.69 1 A ASP 309 60.35 65.49 1 A SER 313 62.36 89.11 1 A TYR 324 -161.02 87.64 1 A LEU 344 -176.09 -49.56 1 A LEU 348 59.63 176.69 1 A VAL 353 71.76 -67.46 1 A ARG 354 -166.85 51.36 minimized average NMR Structure of an Antagonists of the XIAP-Caspase-9 Interaction Complexed to the BIR3 domain of XIAP 1 N N 2 N N 3 N N A ASP 264 A ASP 25 HELX_P A GLY 273 A GLY 34 1 1 10 A ASN 280 A ASN 41 HELX_P A GLY 288 A GLY 49 1 2 9 A ASP 315 A ASP 76 HELX_P A TYR 324 A TYR 85 1 3 10 A CYS 327 A CYS 88 HELX_P A HIS 343 A HIS 104 1 4 17 metalc 2.102 A CYS 300 A SG CYS 61 1_555 A ZN 999 B ZN ZN 1_555 metalc 2.104 A CYS 303 A SG CYS 64 1_555 A ZN 999 B ZN ZN 1_555 metalc 2.205 A HIS 320 A ND1 HIS 81 1_555 A ZN 999 B ZN ZN 1_555 metalc 2.104 A CYS 327 A SG CYS 88 1_555 A ZN 999 B ZN ZN 1_555 APOPTOSIS COMPLEX, ligand-PROTEIN, APOPTOSIS, BIR, XIAP BIRC4_HUMAN UNP 1 241 P98170 SDAVSSDRNFPNSTNLPRNPSMADYEARIFTFGTWIYSVNKEQLARAGFYALGEGDKVKCFHCGGGLTDWKPSEDPWEQH AKWYPGCKYLLEQKGQEYINNIHLTHSLEECLVRTT 241 356 1TFQ 241 356 P98170 A 1 2 117 1 initiating methionine MET 240 1TFQ A P98170 UNP 1 3 anti-parallel anti-parallel A PHE 289 A PHE 50 A ALA 291 A ALA 52 A VAL 298 A VAL 59 A CYS 300 A CYS 61 A GLY 306 A GLY 67 A LEU 307 A LEU 68 BINDING SITE FOR RESIDUE ZN A 999 A ZN 999 Software 4 BINDING SITE FOR RESIDUE 998 A 998 A 998 998 Software 8 A CYS 300 A CYS 61 4 1_555 A CYS 303 A CYS 64 4 1_555 A HIS 320 A HIS 81 4 1_555 A CYS 327 A CYS 88 4 1_555 A LYS 297 A LYS 58 8 1_555 A LYS 299 A LYS 60 8 1_555 A GLY 306 A GLY 67 8 1_555 A LEU 307 A LEU 68 8 1_555 A THR 308 A THR 69 8 1_555 A ASP 309 A ASP 70 8 1_555 A GLN 319 A GLN 80 8 1_555 A TRP 323 A TRP 84 8 1_555