1K9R - Header Asymmetric Unit

HEADER STRUCTURAL PROTEIN 30-OCT-01 1K9R

TITLE YAP65 WW DOMAIN COMPLEXED TO ACETYL-PLPPY

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 65 KDA YES-ASSOCIATED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: WILD TYPE WW DOMAIN; COMPND 5 SYNONYM: YAP65; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: WW DOMAIN BINDING PROTEIN-1; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: RESIDUES 149-153; COMPND 11 SYNONYM: WBP-1; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE WAS SYNTHETICALLY OBTAINED, SOURCE 4 BY SEMIAUTOMATED SPOT SYNTHESIS IN A CELLULOSE SUPPORT.; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: THIS SEQUENCE WAS SYNTHETICALLY OBTAINED BY SOURCE 8 SPOT SYNTHESIS IN A CELLULOSE SUPPORT.

KEYWDS WW DOMAIN, YAP65, BETA-SHEET PROTEINS, LIGANDS, PROLINE- KEYWDS 2 RICH PEPTIDES, STRUCTURAL PROTEIN

EXPDTA SOLUTION NMR

NUMMDL 20

AUTHOR J.R.PIRES,F.TAHA-NEJAD,F.TOEPERT,T.AST,U.HOFFMULLER, AUTHOR 2 J.SCHNEIDER-MERGENER,R.KUHNE,M.J.MACIAS,H.OSCHKINAT

REVDAT 4 24-FEB-09 1K9R 1 VERSN REVDAT 3 30-SEP-03 1K9R 1 DBREF REVDAT 2 04-DEC-02 1K9R 1 REMARK REVDAT 1 28-DEC-01 1K9R 0

JRNL AUTH J.R.PIRES,F.TAHA-NEJAD,F.TOEPERT,T.AST, JRNL AUTH 2 U.HOFFMULLER,J.SCHNEIDER-MERGENER,R.KUHNE, JRNL AUTH 3 M.J.MACIAS,H.OSCHKINAT JRNL TITL SOLUTION STRUCTURES OF THE YAP65 WW DOMAIN AND THE JRNL TITL 2 VARIANT L30 K IN COMPLEX WITH THE PEPTIDES JRNL TITL 3 GTPPPPYTVG, N-(N-OCTYL)-GPPPY AND PLPPY AND THE JRNL TITL 4 APPLICATION OF PEPTIDE LIBRARIES REVEAL A MINIMAL JRNL TITL 5 BINDING EPITOPE. JRNL REF J.MOL.BIOL. V. 314 1147 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11743730 JRNL DOI 10.1006/JMBI.2000.5199

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER, A.T. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 2000K, 200 RUNS, FORCE CONSTANTS FOR REMARK 3 NOES 50KCAL MOL-1 RAD-2, 330 RESTRAINTS

REMARK 4 REMARK 4 1K9R COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-NOV-01. REMARK 100 THE RCSB ID CODE IS RCSB014737.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288; 288 REMARK 210 PH : 6; 6 REMARK 210 IONIC STRENGTH : 100MM NACL; 100MM NACL REMARK 210 PRESSURE : 1ATM; 1ATM REMARK 210 SAMPLE CONTENTS : PHOSPHATE BUFFER 10MM, NACL REMARK 210 100MM, DTT 0.1MM, EDTA 0.1MM, REMARK 210 PH 6, WW DOMAIN 1.2MM, LIGAND REMARK 210 2.4MM; PHOSPHATE BUFFER 10MM, REMARK 210 NACL 100MM, DTT 0.1MM, EDTA REMARK 210 0.1MM, PH 6, WW DOMAIN 1.2MM, REMARK 210 LIGAND 2.4MM REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ, 750 MHZ REMARK 210 SPECTROMETER MODEL : DRX, DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, ANSIG 3.3 REMARK 210 METHOD USED : SIMULATED ANNELING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL

REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.

REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 GLU A 6 -176.14 53.30 REMARK 500 1 ASP A 10 -82.87 -127.68 REMARK 500 1 PRO A 14 -163.11 -72.02 REMARK 500 1 THR A 22 -158.97 -134.48 REMARK 500 1 SER A 23 -91.74 47.40 REMARK 500 1 SER A 24 -42.20 -150.35 REMARK 500 1 GLN A 35 88.36 54.52 REMARK 500 1 LEU B 47 139.15 61.39 REMARK 500 2 ILE A 7 97.06 53.60 REMARK 500 2 ASP A 10 -81.69 -92.92 REMARK 500 2 PRO A 14 -165.70 -72.30 REMARK 500 2 ALA A 20 -151.25 -150.96 REMARK 500 2 SER A 23 -91.85 47.33 REMARK 500 2 SER A 24 -42.07 -153.02 REMARK 500 2 GLN A 35 74.77 50.48 REMARK 500 2 LEU B 47 113.27 -174.50 REMARK 500 3 GLU A 6 50.19 -110.04 REMARK 500 3 PRO A 8 -167.27 -72.29 REMARK 500 3 ASP A 9 66.38 -119.93 REMARK 500 3 ASP A 10 -75.80 -53.33 REMARK 500 3 PRO A 12 -86.50 -73.35 REMARK 500 3 PRO A 14 -164.93 -72.24 REMARK 500 3 ALA A 20 -152.24 -153.50 REMARK 500 3 SER A 23 89.26 -68.45 REMARK 500 3 SER A 24 -32.24 175.64 REMARK 500 3 GLN A 35 76.86 49.90 REMARK 500 3 GLN A 40 -157.76 -73.33 REMARK 500 3 LEU B 47 109.80 -175.68 REMARK 500 3 PRO B 49 -164.65 -72.71 REMARK 500 4 GLU A 6 -178.20 53.23 REMARK 500 4 ASP A 9 52.86 -115.33 REMARK 500 4 PRO A 12 -159.00 -76.88 REMARK 500 4 PRO A 14 -164.83 -72.34 REMARK 500 4 ALA A 20 -151.61 -153.22 REMARK 500 4 SER A 24 -33.57 177.70 REMARK 500 4 GLN A 35 76.21 50.51 REMARK 500 4 GLN A 40 -155.66 -79.89 REMARK 500 4 ARG A 43 79.41 53.23 REMARK 500 4 LEU B 47 129.92 -174.95 REMARK 500 4 PRO B 49 -162.97 -72.63 REMARK 500 5 GLU A 6 -166.79 53.30 REMARK 500 5 PRO A 8 -87.53 -71.62 REMARK 500 5 PRO A 12 -158.85 -71.35 REMARK 500 5 PRO A 14 -162.78 -72.94 REMARK 500 5 SER A 23 -149.62 45.75 REMARK 500 5 GLN A 26 135.82 -173.18 REMARK 500 5 GLN A 35 76.63 35.28 REMARK 500 6 GLU A 6 87.30 -175.00 REMARK 500 6 ASP A 9 26.02 47.21 REMARK 500 6 PRO A 14 -163.04 -72.75 REMARK 500 6 ALA A 20 -121.09 -151.92 REMARK 500 6 THR A 22 -159.18 -142.40 REMARK 500 6 SER A 23 170.04 -53.42 REMARK 500 6 SER A 24 -0.03 70.46 REMARK 500 6 GLN A 35 75.98 50.02 REMARK 500 6 GLN A 40 -165.33 -112.48 REMARK 500 6 ARG A 43 99.42 -69.99 REMARK 500 6 LEU B 47 119.79 -174.96 REMARK 500 6 PRO B 49 -168.37 -72.74 REMARK 500 7 ASP A 10 -41.11 -131.16 REMARK 500 7 PRO A 12 -158.98 -75.92 REMARK 500 7 PRO A 14 -164.25 -72.68 REMARK 500 7 THR A 22 -159.47 -136.31 REMARK 500 7 SER A 23 -148.88 45.66 REMARK 500 7 GLN A 26 136.03 -176.01 REMARK 500 7 ILE A 33 -60.05 -91.65 REMARK 500 7 GLN A 35 74.58 50.47 REMARK 500 7 GLN A 40 -159.50 -96.37 REMARK 500 7 PRO A 42 -163.19 -72.42 REMARK 500 7 ARG A 43 -86.65 57.24 REMARK 500 7 PRO B 49 47.79 -84.59 REMARK 500 8 PRO A 8 -168.01 -72.42 REMARK 500 8 ASP A 9 57.07 -117.03 REMARK 500 8 ASP A 10 -81.43 -81.43 REMARK 500 8 PRO A 12 -85.37 -78.02 REMARK 500 8 PRO A 14 -163.50 -72.18 REMARK 500 8 ALA A 20 -150.54 -150.38 REMARK 500 8 SER A 23 -92.06 45.42 REMARK 500 8 SER A 24 -41.62 -155.01 REMARK 500 8 GLN A 35 74.37 35.94 REMARK 500 8 PRO A 42 -163.03 -72.46 REMARK 500 8 LEU B 47 120.44 -175.02 REMARK 500 9 ASP A 10 -81.83 -72.85 REMARK 500 9 PRO A 12 -88.00 -73.18 REMARK 500 9 ALA A 20 -132.37 -151.05 REMARK 500 9 SER A 23 -91.56 43.44 REMARK 500 9 SER A 24 -81.47 -121.23 REMARK 500 9 GLN A 35 70.08 50.65 REMARK 500 9 ASP A 41 151.43 58.83 REMARK 500 9 ARG A 43 -161.00 -70.61 REMARK 500 9 LEU B 47 113.84 -175.61 REMARK 500 9 PRO B 49 -163.18 -72.47 REMARK 500 10 PRO A 8 34.07 -86.77 REMARK 500 10 ASP A 10 60.97 -172.88 REMARK 500 10 LEU A 13 165.42 57.33 REMARK 500 10 SER A 23 -92.15 45.48 REMARK 500 10 SER A 24 -42.05 -154.16 REMARK 500 10 LEU A 30 99.70 -55.29 REMARK 500 10 GLN A 35 77.09 54.43 REMARK 500 10 GLN A 40 131.86 -175.16 REMARK 500 10 ASP A 41 -59.77 -177.88 REMARK 500 10 ARG A 43 94.36 53.56 REMARK 500 11 PRO A 8 -86.96 -70.90 REMARK 500 11 PRO A 12 -159.17 -72.31 REMARK 500 11 PRO A 14 -162.58 -73.18 REMARK 500 11 ALA A 20 -150.99 -154.54 REMARK 500 11 GLN A 35 72.80 48.77 REMARK 500 11 GLN A 40 52.25 -168.57 REMARK 500 11 ASP A 41 61.07 -170.05 REMARK 500 11 PRO A 42 -87.39 -71.83 REMARK 500 12 GLU A 6 90.91 53.18 REMARK 500 12 SER A 23 -93.98 45.28 REMARK 500 12 GLN A 35 73.02 50.93 REMARK 500 12 TRP A 39 -154.35 -69.31 REMARK 500 12 ASP A 41 -59.85 -177.61 REMARK 500 12 ARG A 43 174.42 54.60 REMARK 500 12 LEU B 47 116.60 -174.51 REMARK 500 13 GLU A 6 80.42 53.27 REMARK 500 13 ALA A 20 -150.54 -148.71 REMARK 500 13 THR A 22 -159.19 -145.52 REMARK 500 13 SER A 23 -146.31 47.29 REMARK 500 13 GLN A 26 136.36 -177.05 REMARK 500 13 GLN A 35 78.51 47.01 REMARK 500 13 GLN A 40 -158.18 -82.17 REMARK 500 13 ARG A 43 -168.62 51.82 REMARK 500 14 GLU A 6 178.08 53.28 REMARK 500 14 ASP A 9 47.41 -151.55 REMARK 500 14 ASP A 10 -80.13 -67.97 REMARK 500 14 PRO A 14 -168.19 -72.32 REMARK 500 14 ALA A 20 -151.02 -155.67 REMARK 500 14 THR A 22 -161.41 -129.08 REMARK 500 14 SER A 23 178.67 -58.62 REMARK 500 14 SER A 24 -54.23 73.12 REMARK 500 14 GLN A 35 87.18 55.86 REMARK 500 14 GLN A 40 131.25 -175.49 REMARK 500 14 ASP A 41 -59.67 -178.04 REMARK 500 14 ARG A 43 179.23 53.42 REMARK 500 15 GLU A 6 61.60 -117.95 REMARK 500 15 ILE A 7 95.70 53.18 REMARK 500 15 ASP A 9 78.08 45.96 REMARK 500 15 PRO A 12 -159.06 -71.76 REMARK 500 15 PRO A 14 -162.97 -73.20 REMARK 500 15 ALA A 20 -152.21 -153.29 REMARK 500 15 SER A 23 89.44 -69.33 REMARK 500 15 SER A 24 -34.12 178.64 REMARK 500 15 GLN A 35 92.14 34.97 REMARK 500 15 GLN A 40 -174.50 -173.96 REMARK 500 15 PRO B 49 -162.58 -77.82 REMARK 500 16 PRO A 8 -165.57 -71.49 REMARK 500 16 ASP A 10 -85.16 -92.97 REMARK 500 16 PRO A 12 -158.69 -81.16 REMARK 500 16 ALA A 20 -121.77 -151.88 REMARK 500 16 SER A 23 -92.07 45.18 REMARK 500 16 SER A 24 -41.56 -156.56 REMARK 500 16 GLN A 35 73.80 49.00 REMARK 500 16 PRO A 42 -167.85 -72.37 REMARK 500 16 LEU B 47 129.92 62.08 REMARK 500 17 ASP A 9 74.52 45.99 REMARK 500 17 PRO A 14 -162.56 -73.08 REMARK 500 17 THR A 22 -161.94 -129.90 REMARK 500 17 SER A 23 -145.76 42.94 REMARK 500 17 GLN A 26 132.52 -176.23 REMARK 500 17 ILE A 33 -61.82 -91.33 REMARK 500 17 GLN A 40 -163.97 -74.29 REMARK 500 17 ARG A 43 -159.51 53.26 REMARK 500 17 PRO B 49 -164.86 -73.14 REMARK 500 18 PRO A 8 -88.03 -80.99 REMARK 500 18 ASP A 9 33.84 -95.95 REMARK 500 18 PRO A 12 -87.29 -73.70 REMARK 500 18 PRO A 14 -162.33 -72.17 REMARK 500 18 ALA A 20 -153.26 -154.42 REMARK 500 18 SER A 23 88.74 -68.47 REMARK 500 18 SER A 24 -33.69 177.97 REMARK 500 18 GLN A 35 76.04 50.46 REMARK 500 18 GLN A 40 29.98 -168.77 REMARK 500 18 ARG A 43 28.72 -166.19 REMARK 500 18 LEU B 47 130.52 -175.15 REMARK 500 18 PRO B 49 -167.61 -73.10 REMARK 500 19 ASP A 9 36.98 -156.75 REMARK 500 19 PRO A 12 -85.98 -76.76 REMARK 500 19 PRO A 14 -165.83 -72.64 REMARK 500 19 ALA A 20 -153.41 -155.66 REMARK 500 19 SER A 24 -34.17 178.96 REMARK 500 19 GLN A 40 116.92 -176.06 REMARK 500 19 ASP A 41 -59.74 -178.05 REMARK 500 19 ARG A 43 76.89 53.31 REMARK 500 19 LEU B 47 129.44 -175.20 REMARK 500 20 GLU A 6 46.17 -152.97 REMARK 500 20 ILE A 7 96.76 53.37 REMARK 500 20 PRO A 8 -87.53 -71.62 REMARK 500 20 ASP A 9 -63.18 -91.99 REMARK 500 20 ASP A 10 -58.84 -171.75 REMARK 500 20 PRO A 12 -87.12 -73.87 REMARK 500 20 ALA A 20 -122.78 -152.85 REMARK 500 20 THR A 22 -159.99 -147.23 REMARK 500 20 SER A 23 -146.47 47.64 REMARK 500 20 GLN A 26 133.55 -177.17 REMARK 500 20 GLN A 40 149.13 -175.72 REMARK 500 20 ASP A 41 -59.63 -178.31 REMARK 500 20 PRO A 42 -87.45 -71.03 REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JMQ RELATED DB: PDB REMARK 900 1JMQ CONTAINS YAP65 (L30K MUTANT) WW DOMAIN IN COMPLEXED REMARK 900 WITH GTPPPPYTVG PEPTIDE REMARK 900 RELATED ID: 1K9Q RELATED DB: PDB REMARK 900 1K9Q CONTAINS YAP65 WW DOMAIN COMPLEXED WITH N-(N-OCTYL)- REMARK 900 GPPPY-NH2 REMARK 900 RELATED ID: 1E0M RELATED DB: PDB REMARK 900 1E0M CONTAINS PROTOTYPE WW DOMAIN REMARK 900 RELATED ID: 1EG3 RELATED DB: PDB REMARK 900 1EG3 CONTAINS DYSTROPHIN WW DOMAIN FRAGMENT REMARK 900 RELATED ID: 1EG4 RELATED DB: PDB REMARK 900 1EG4 CONTAINS DYSTROPHIN WW DOMAIN FRAGMENT IN COMPLEXED REMARK 900 WITH BETA-DYSTROGLYCAN PEPTIDE REMARK 900 RELATED ID: 1I5H RELATED DB: PDB REMARK 900 1I5H CONTAINS RNEDD4 WWIII DOMAIN-RENAC BP2 PEPTIDE COMPLEX

DBREF 1K9R A 5 44 UNP P46937 YAP1_HUMAN 165 204 DBREF 1K9R B 46 50 GB 4205084 AAD10950 149 153

SEQADV 1K9R LEU B 47 GB 4205084 PRO 150 ENGINEERED

SEQRES 1 A 40 PHE GLU ILE PRO ASP ASP VAL PRO LEU PRO ALA GLY TRP SEQRES 2 A 40 GLU MET ALA LYS THR SER SER GLY GLN ARG TYR PHE LEU SEQRES 3 A 40 ASN HIS ILE ASP GLN THR THR THR TRP GLN ASP PRO ARG SEQRES 4 A 40 LYS SEQRES 1 B 6 ACE PRO LEU PRO PRO TYR

HET ACE B 45 6

HETNAM ACE ACETYL GROUP

FORMUL 2 ACE C2 H4 O

SHEET 1 A 3 TRP A 17 THR A 22 0 SHEET 2 A 3 GLN A 26 ASN A 31 -1 O LEU A 30 N GLU A 18 SHEET 3 A 3 THR A 36 THR A 38 -1 O THR A 36 N ASN A 31

LINK C ACE B 45 N PRO B 46 1555 1555 1.31

CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1

ORIGX1 1.000000 0.000000 0.000000 0.00000

ORIGX2 0.000000 1.000000 0.000000 0.00000

ORIGX3 0.000000 0.000000 1.000000 0.00000

SCALE1 1.000000 0.000000 0.000000 0.00000

SCALE2 0.000000 1.000000 0.000000 0.00000

SCALE3 0.000000 0.000000 1.000000 0.00000