1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Pires, J.R. Hong, X. Brockmann, C. Volkmer-Engert, R. Schneider-Mergener, J. Oschkinat, H. Erdmann, R. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 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 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 UK J.Mol.Biol. JMOBAK 0070 0022-2836 326 1427 1435 10.1016/S0022-2836(03)00039-1 12595255 The ScPex13p SH3 Domain Exposes Two Distinct Binding Sites for Pex5p and Pex14p 2003 10.2210/pdb1nm7/pdb pdb_00001nm7 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 8086.208 Peroxisomal Membrane Protein PAS20 SH3 domain 1 man polymer Pex13p SH3 domain no no GSHHHHHHFARALYDFVPENPEMEVALKKGDLMAILSKKDPLGRDSDWWKVRTKNGNIGYIPYNYIEII GSHHHHHHFARALYDFVPENPEMEVALKKGDLMAILSKKDPLGRDSDWWKVRTKNGNIGYIPYNYIEII 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 baker's yeast Saccharomyces Escherichia Escherichia coli sample 4932 Saccharomyces cerevisiae 469008 Escherichia coli BL21(DE3) BL21-DE3 plasmid pGEX-4T2 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2003-03-04 1 1 2008-04-29 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_ref_seq_dif.details 1N5Z contains complex structure of PEX13P SH3 domain with a peptide of PEX14P RCSB Y PDBJ 2003-01-09 REL REL structures with the lowest energy 100 10 3D_13C-separated_NOESY 3D_15N-separated_NOESY 2D NOESY 2D NOESY 50mM NaCl 6.0 1 atm 298 K AMBIGUOUS DISTANCE RESTRAINTS SIMULATED ANNEALING WITH TORSION ANGLE DYNAMICS AS IMPLEMENTED IN ARIA1.0 1 lowest energy 0.7mM [U-15N,13C] Pex13p SH3 domain, 20mM Phosphate Buffer, pH 6.0, 50mM NaCl 100% D2O 0.7mM [U-15N] Pex13p SH3 domain, 20mM Phosphate Buffer, pH 6.0, 50mM NaCl 90% H2O/10% D2O 0.7mM Unlabeled Pex13p SH3 domain, 20mM Phosphate Buffer, pH 6.0, 50mM NaCl 90% H2O/10% D2O 0.7mM Unlabeled Pex13p SH3 domain, 20mM Phosphate Buffer, pH 6.0, 50mM NaCl 100% D2O Bruker processing XwinNMR data analysis Sparky 3.106 J.P.Linge, S.I.O'Donoghue, M.Nilges structure solution ARIA 1.0 structure solution CNS 1.0 refinement CNS 1.0 600 Bruker DRX n 1 302 A n 2 303 A n 3 304 A n 4 305 A n 5 306 A n 6 307 A n 7 308 A n 8 309 A PHE 310 n 9 PHE 310 A ALA 311 n 10 ALA 311 A ARG 312 n 11 ARG 312 A ALA 313 n 12 ALA 313 A LEU 314 n 13 LEU 314 A TYR 315 n 14 TYR 315 A ASP 316 n 15 ASP 316 A PHE 317 n 16 PHE 317 A VAL 318 n 17 VAL 318 A PRO 319 n 18 PRO 319 A GLU 320 n 19 GLU 320 A ASN 321 n 20 ASN 321 A PRO 322 n 21 PRO 322 A GLU 323 n 22 GLU 323 A MET 324 n 23 MET 324 A GLU 325 n 24 GLU 325 A VAL 326 n 25 VAL 326 A ALA 327 n 26 ALA 327 A LEU 328 n 27 LEU 328 A LYS 329 n 28 LYS 329 A LYS 330 n 29 LYS 330 A GLY 331 n 30 GLY 331 A ASP 332 n 31 ASP 332 A LEU 333 n 32 LEU 333 A MET 334 n 33 MET 334 A ALA 335 n 34 ALA 335 A ILE 336 n 35 ILE 336 A LEU 337 n 36 LEU 337 A SER 338 n 37 SER 338 A LYS 339 n 38 LYS 339 A LYS 340 n 39 LYS 340 A ASP 341 n 40 ASP 341 A PRO 342 n 41 PRO 342 A LEU 343 n 42 LEU 343 A GLY 344 n 43 GLY 344 A ARG 345 n 44 ARG 345 A ASP 346 n 45 ASP 346 A SER 347 n 46 SER 347 A ASP 348 n 47 ASP 348 A TRP 349 n 48 TRP 349 A TRP 350 n 49 TRP 350 A LYS 351 n 50 LYS 351 A VAL 352 n 51 VAL 352 A ARG 353 n 52 ARG 353 A THR 354 n 53 THR 354 A LYS 355 n 54 LYS 355 A ASN 356 n 55 ASN 356 A GLY 357 n 56 GLY 357 A ASN 358 n 57 ASN 358 A ILE 359 n 58 ILE 359 A GLY 360 n 59 GLY 360 A TYR 361 n 60 TYR 361 A ILE 362 n 61 ILE 362 A PRO 363 n 62 PRO 363 A TYR 364 n 63 TYR 364 A ASN 365 n 64 ASN 365 A TYR 366 n 65 TYR 366 A ILE 367 n 66 ILE 367 A GLU 368 n 67 GLU 368 A ILE 369 n 68 ILE 369 A ILE 370 n 69 ILE 370 A author_defined_assembly 1 monomeric 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 O ASN 358 A O ASN 57 A N THR 354 A N THR 53 A O ARG 353 A O ARG 52 A N ALA 335 A N ALA 34 A O MET 334 A O MET 33 A N ALA 311 A N ALA 10 A N ARG 312 A N ARG 11 A O GLU 368 A O GLU 67 1 A GLY 302 A GLY 1 1 Y 1 A SER 303 A SER 2 1 Y 1 A HIS 304 A HIS 3 1 Y 1 A HIS 305 A HIS 4 1 Y 1 A HIS 306 A HIS 5 1 Y 1 A HIS 307 A HIS 6 1 Y 1 A HIS 308 A HIS 7 1 Y 1 A HIS 309 A HIS 8 1 Y 2 A GLY 302 A GLY 1 1 Y 2 A SER 303 A SER 2 1 Y 2 A HIS 304 A HIS 3 1 Y 2 A HIS 305 A HIS 4 1 Y 2 A HIS 306 A HIS 5 1 Y 2 A HIS 307 A HIS 6 1 Y 2 A HIS 308 A HIS 7 1 Y 2 A HIS 309 A HIS 8 1 Y 3 A GLY 302 A GLY 1 1 Y 3 A SER 303 A SER 2 1 Y 3 A HIS 304 A HIS 3 1 Y 3 A HIS 305 A HIS 4 1 Y 3 A HIS 306 A HIS 5 1 Y 3 A HIS 307 A HIS 6 1 Y 3 A HIS 308 A HIS 7 1 Y 3 A HIS 309 A HIS 8 1 Y 4 A GLY 302 A GLY 1 1 Y 4 A SER 303 A SER 2 1 Y 4 A HIS 304 A HIS 3 1 Y 4 A HIS 305 A HIS 4 1 Y 4 A HIS 306 A HIS 5 1 Y 4 A HIS 307 A HIS 6 1 Y 4 A HIS 308 A HIS 7 1 Y 4 A HIS 309 A HIS 8 1 Y 5 A GLY 302 A GLY 1 1 Y 5 A SER 303 A SER 2 1 Y 5 A HIS 304 A HIS 3 1 Y 5 A HIS 305 A HIS 4 1 Y 5 A HIS 306 A HIS 5 1 Y 5 A HIS 307 A HIS 6 1 Y 5 A HIS 308 A HIS 7 1 Y 5 A HIS 309 A HIS 8 1 Y 6 A GLY 302 A GLY 1 1 Y 6 A SER 303 A SER 2 1 Y 6 A HIS 304 A HIS 3 1 Y 6 A HIS 305 A HIS 4 1 Y 6 A HIS 306 A HIS 5 1 Y 6 A HIS 307 A HIS 6 1 Y 6 A HIS 308 A HIS 7 1 Y 6 A HIS 309 A HIS 8 1 Y 7 A GLY 302 A GLY 1 1 Y 7 A SER 303 A SER 2 1 Y 7 A HIS 304 A HIS 3 1 Y 7 A HIS 305 A HIS 4 1 Y 7 A HIS 306 A HIS 5 1 Y 7 A HIS 307 A HIS 6 1 Y 7 A HIS 308 A HIS 7 1 Y 7 A HIS 309 A HIS 8 1 Y 8 A GLY 302 A GLY 1 1 Y 8 A SER 303 A SER 2 1 Y 8 A HIS 304 A HIS 3 1 Y 8 A HIS 305 A HIS 4 1 Y 8 A HIS 306 A HIS 5 1 Y 8 A HIS 307 A HIS 6 1 Y 8 A HIS 308 A HIS 7 1 Y 8 A HIS 309 A HIS 8 1 Y 9 A GLY 302 A GLY 1 1 Y 9 A SER 303 A SER 2 1 Y 9 A HIS 304 A HIS 3 1 Y 9 A HIS 305 A HIS 4 1 Y 9 A HIS 306 A HIS 5 1 Y 9 A HIS 307 A HIS 6 1 Y 9 A HIS 308 A HIS 7 1 Y 9 A HIS 309 A HIS 8 1 Y 10 A GLY 302 A GLY 1 1 Y 10 A SER 303 A SER 2 1 Y 10 A HIS 304 A HIS 3 1 Y 10 A HIS 305 A HIS 4 1 Y 10 A HIS 306 A HIS 5 1 Y 10 A HIS 307 A HIS 6 1 Y 10 A HIS 308 A HIS 7 1 Y 10 A HIS 309 A HIS 8 1 Y 1 A A HA HB3 PRO GLU 319 325 1.34 2 A A HB3 HB3 ASP TYR 348 364 1.31 3 A A HB3 HB3 ASP TYR 348 364 1.30 5 A A HB3 HG23 MET VAL 334 352 1.33 6 A A HB3 HB3 ASP TYR 348 364 1.32 7 A A HB3 HB3 ASP TYR 348 364 1.32 10 A A HB3 HB3 ASP TYR 348 364 1.26 10 A A HA HB3 PRO GLU 319 325 1.32 1 A LEU 314 -76.06 -70.14 1 A ASP 316 -54.04 105.85 1 A PRO 319 -43.45 106.29 1 A PRO 322 -75.04 40.86 1 A GLU 323 -130.70 -43.75 1 A MET 324 -164.57 102.12 1 A LYS 330 -10.75 105.74 1 A ASP 332 -58.53 -172.40 1 A LEU 337 -121.88 -59.97 1 A LYS 339 -126.63 -120.68 1 A ASP 341 104.86 -63.49 1 A PRO 342 -92.15 -77.09 1 A ARG 345 -80.76 -154.15 1 A SER 347 167.84 161.01 1 A TRP 349 -167.56 104.55 1 A ILE 362 -175.63 118.25 2 A ASP 316 -47.84 107.67 2 A PRO 319 -37.51 103.03 2 A PRO 322 -74.82 37.90 2 A GLU 323 -130.29 -39.35 2 A MET 324 -165.88 101.74 2 A LYS 330 -22.96 114.92 2 A ASP 332 -56.49 176.14 2 A LEU 337 -131.49 -43.79 2 A LYS 339 -133.73 -117.57 2 A ASP 341 109.39 -59.04 2 A PRO 342 -85.40 -71.98 2 A LEU 343 -91.08 -71.06 2 A ARG 345 -77.85 -128.58 2 A ASP 346 -100.93 -141.38 2 A SER 347 65.95 150.45 2 A TRP 349 -161.55 113.37 2 A ILE 362 -178.92 121.63 3 A ASP 316 -53.46 109.90 3 A PRO 319 -38.02 103.11 3 A PRO 322 -74.44 46.28 3 A GLU 323 -133.01 -44.79 3 A LYS 330 -24.02 129.74 3 A ASP 332 -58.13 172.08 3 A LYS 339 -132.12 -119.66 3 A ASP 341 108.45 -60.81 3 A LEU 343 -94.34 -75.43 3 A ARG 345 -75.49 -123.17 3 A ASP 346 -105.54 -144.35 3 A SER 347 65.58 151.75 4 A PRO 319 -38.70 103.67 4 A PRO 322 -75.06 38.61 4 A MET 324 -165.33 101.06 4 A LYS 330 28.69 -96.95 4 A LYS 339 -129.75 -117.17 4 A ASP 341 108.25 -59.40 4 A PRO 342 -89.28 -83.70 4 A ARG 345 -79.29 -121.14 4 A ASP 346 -108.67 -147.59 4 A SER 347 67.53 151.37 4 A ILE 362 -178.66 119.85 5 A ASP 316 -53.22 108.55 5 A PRO 319 -47.93 98.98 5 A PRO 322 -74.39 39.83 5 A GLU 323 -130.66 -38.26 5 A MET 324 -162.17 101.20 5 A LYS 330 -16.87 112.92 5 A ASP 332 -61.31 -174.17 5 A LEU 337 -130.57 -78.84 5 A SER 338 -53.82 174.02 5 A LYS 339 -129.18 -119.29 5 A ASP 341 103.00 -64.23 5 A PRO 342 -94.07 -82.77 5 A ARG 345 -86.93 -150.61 5 A SER 347 163.87 160.64 5 A TRP 349 -167.20 112.97 5 A LYS 355 48.32 26.00 5 A ASN 365 174.19 -35.92 6 A ASP 316 -50.21 107.59 6 A PRO 319 -47.74 98.81 6 A PRO 322 -75.40 40.88 6 A GLU 323 -134.56 -40.60 6 A MET 324 -160.25 100.46 6 A LYS 330 25.08 -95.49 6 A LYS 339 -123.26 -121.32 6 A ASP 341 107.73 -61.72 6 A PRO 342 -80.91 -75.98 6 A ARG 345 -98.30 -126.15 6 A SER 347 78.90 152.25 6 A ILE 362 178.75 131.11 7 A LEU 314 -72.69 -77.82 7 A ASP 316 -53.35 105.44 7 A PRO 319 -49.15 103.19 7 A PRO 322 -75.05 42.50 7 A GLU 323 -131.99 -35.09 7 A MET 324 -165.27 100.30 7 A LYS 330 -15.70 118.38 7 A ASP 332 -59.83 -176.34 7 A LEU 337 -121.84 -72.18 7 A LYS 339 -117.97 -121.07 7 A ASP 341 76.02 -178.66 7 A PRO 342 -26.18 -46.74 7 A ARG 345 -103.70 -156.20 7 A SER 347 166.31 156.60 7 A TRP 349 -165.13 107.75 7 A LYS 355 49.35 21.08 7 A ILE 362 -175.35 119.25 8 A GLU 323 -137.24 -37.79 8 A MET 324 -165.57 99.90 8 A LYS 330 -16.57 118.45 8 A LEU 337 -120.97 -69.96 8 A LYS 339 -129.00 -114.39 8 A ASP 341 93.18 -77.10 8 A ARG 345 -68.63 -119.63 8 A ASP 346 -120.62 -109.65 8 A SER 347 56.58 158.83 8 A TRP 349 -167.28 108.39 8 A ILE 362 -171.51 118.55 8 A ASN 365 -176.28 -41.07 9 A ASP 316 -52.96 105.88 9 A PRO 319 -38.67 100.97 9 A PRO 322 -76.03 42.86 9 A GLU 323 -131.92 -44.38 9 A LYS 330 -13.46 121.15 9 A LYS 339 -107.41 -136.16 9 A ASP 341 103.62 -63.56 9 A PRO 342 -96.02 -88.23 9 A ARG 345 -69.59 -156.41 9 A SER 347 -48.79 161.80 9 A LYS 355 47.66 26.66 9 A ILE 362 -174.80 122.02 9 A ASN 365 173.02 -36.61 10 A TYR 315 76.76 108.82 10 A ASP 316 -39.70 114.05 10 A PRO 319 -38.59 97.16 10 A PRO 322 -75.58 40.59 10 A GLU 323 -137.45 -41.50 10 A MET 324 -161.19 101.46 10 A LYS 330 -19.92 116.66 10 A ASP 332 -58.46 173.21 10 A LEU 337 -128.69 -74.35 10 A LYS 339 -137.67 -116.74 10 A ASP 341 115.41 -56.64 10 A LEU 343 -111.02 -80.88 10 A ARG 345 -92.65 -109.64 10 A ASP 346 19.17 -139.58 10 A LYS 355 49.35 21.47 10 A ILE 362 -172.14 128.39 10 A TYR 364 -63.22 91.55 10 A ASN 365 -177.79 -34.15 Solution structure of the ScPex13p SH3 domain 1 N N A PRO 363 A PRO 62 HELX_P A ASN 365 A ASN 64 5 1 3 PROTEIN TRANSPORT Yeast, Membrane protein, Pex5p, Pex14p, Pex13p, import machine, SH3 domain, PROTEIN TRANSPORT PEX13_YEAST UNP 1 310 P80667 FARALYDFVPENPEMEVALKKGDLMAILSKKDPLGRDSDWWKVRTKNGNIGYIPYNYIEII 310 370 1NM7 310 370 P80667 A 1 9 69 1 expression tag GLY 302 1NM7 A P80667 UNP 1 1 expression tag SER 303 1NM7 A P80667 UNP 2 1 expression tag HIS 304 1NM7 A P80667 UNP 3 1 expression tag HIS 305 1NM7 A P80667 UNP 4 1 expression tag HIS 306 1NM7 A P80667 UNP 5 1 expression tag HIS 307 1NM7 A P80667 UNP 6 1 expression tag HIS 308 1NM7 A P80667 UNP 7 1 expression tag HIS 309 1NM7 A P80667 UNP 8 5 anti-parallel anti-parallel anti-parallel anti-parallel A ASN 358 A ASN 57 A ILE 362 A ILE 61 A TRP 350 A TRP 49 A THR 354 A THR 53 A LEU 333 A LEU 32 A ILE 336 A ILE 35 A ALA 311 A ALA 10 A ALA 313 A ALA 12 A ILE 367 A ILE 66 A ILE 369 A ILE 68