HEADER HYDROLASE 24-AUG-04 1W6V TITLE SOLUTION STRUCTURE OF THE DUSP DOMAIN OF HUSP15 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 15; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DUSP DOMAIN, RESIDUES 1-120; COMPND 5 SYNONYM: UBIQUITIN THIOLESTERASE 15, UBIQUITIN-SPECIFIC COMPND 6 PROCESSING PROTEASE 15, UBIQUITINATING ENZYME 15, UNPH-2, COMPND 7 UNPH4; COMPND 8 EC: 3.1.2.15; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 9 OTHER_DETAILS: SELF MADE CDNA LIBRARY OF MULTIPLE HUMAN SOURCE 10 CARCINOMA CELL LINES KEYWDS HYDROLASE, UCH, USP, DUB, DEUBIQUITYLATION, KEYWDS 2 DEUBIQUITINATING ENZYME, UBIQUITIN, UBIQUITIN SPECIFIC KEYWDS 3 PROTEASE, UBIQUITIN CARBOXYTERMINAL HYDROLASE, CLEAVAGE, KEYWDS 4 USP15, DUB15, UBP15, ENDOPEPTIDASE, THIOLESTERASE, DUSP, KEYWDS 5 STRUCTURAL PROTEOMICS IN EUROPE, SPINE, STRUCTURAL KEYWDS 6 GENOMICS EXPDTA SOLUTION NMR NUMMDL 13 AUTHOR R.D.DE JONG,E.AB,T.DIERCKS,V.TRUFFAULT,M.DANIELS,R.KAPTEIN, AUTHOR 2 G.E.FOLKERS REVDAT 3 24-FEB-09 1W6V 1 VERSN REVDAT 2 22-FEB-06 1W6V 1 JRNL REVDAT 1 12-JAN-06 1W6V 0 JRNL AUTH R.N.DE JONG,E.AB,T.DIERCKS,V.TRUFFAULT,M.DANIELS, JRNL AUTH 2 R.KAPTEIN,G.E.FOLKERS JRNL TITL SOLUTION STRUCTURE OF THE HUMAN UBIQUITIN-SPECIFIC JRNL TITL 2 PROTEASE 15 DUSP DOMAIN. JRNL REF J.BIOL.CHEM. V. 281 5026 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16298993 JRNL DOI 10.1074/JBC.M510993200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE JRNL CITATION ABOVE. REMARK 4 REMARK 4 1W6V COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-AUG-04. REMARK 100 THE PDBE ID CODE IS EBI-20880. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 150 MM REMARK 210 PRESSURE : 1.0 REMARK 210 SAMPLE CONTENTS : 90% WATER/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCO,HNCACO,HNCACB, REMARK 210 CBCACONH,HNCA,HBHACONH, REMARK 210 HNCAHA,CCH-COSY,HCCH-TOCSY, REMARK 210 HNH-NOESY,HCH-NOESY,CNH- REMARK 210 NOESY,HH-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY REMARK 210 METHOD USED : CANDID IN CYANA AND CNS REMARK 210 FOR WATER REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 13 REMARK 210 CONFORMERS, SELECTION CRITERIA : SMALLEST MAXIMUM RESTRAINT REMARK 210 VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE REMARK 210 NMR SPECTROSCOPY ON 15N- AND 13C, 15N-LABELED HIS-TAGGED REMARK 210 HUSP15_1-120 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 400 REMARK 400 COMPOUND REMARK 400 CATALYTIC ACTIVITY: UBIQUITIN C-TERMINAL THIOLESTER + H(2)O = REMARK 400 UBIQUITIN + A THIOL. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -21 REMARK 465 GLY A -20 REMARK 465 SER A -19 REMARK 465 SER A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 SER A -11 REMARK 465 SER A -10 REMARK 465 GLY A -9 REMARK 465 LEU A -8 REMARK 465 VAL A -7 REMARK 465 PRO A -6 REMARK 465 ARG A -5 REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 HIS A -2 REMARK 465 MET A -1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 13 LYS A 52 N - CA - CB ANGL. DEV. = -12.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 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 ALA A 6 -168.93 70.80 REMARK 500 1 ARG A 25 112.01 63.67 REMARK 500 1 ASP A 85 -151.81 -57.12 REMARK 500 1 GLU A 86 -17.81 -39.24 REMARK 500 1 THR A 105 -173.27 48.24 REMARK 500 2 LYS A 52 18.77 -142.33 REMARK 500 2 ALA A 76 13.59 58.22 REMARK 500 2 ASP A 85 -139.52 -59.64 REMARK 500 2 GLU A 86 -18.82 -41.44 REMARK 500 2 THR A 105 167.28 58.30 REMARK 500 3 ARG A 25 -157.45 -104.88 REMARK 500 3 LYS A 52 9.68 -162.39 REMARK 500 3 ASP A 85 -139.08 -62.87 REMARK 500 3 THR A 105 172.00 56.64 REMARK 500 3 VAL A 117 -172.11 -66.71 REMARK 500 4 ARG A 25 -145.52 -127.23 REMARK 500 4 THR A 29 110.20 49.55 REMARK 500 4 LYS A 52 21.41 -156.91 REMARK 500 4 ASP A 85 -139.98 -61.59 REMARK 500 4 GLU A 86 -18.86 -40.33 REMARK 500 4 THR A 105 -174.58 49.63 REMARK 500 5 ARG A 25 -159.55 -104.59 REMARK 500 5 LYS A 52 15.47 -157.50 REMARK 500 5 LYS A 72 -176.95 -64.22 REMARK 500 5 ASP A 85 -146.22 -62.55 REMARK 500 5 GLU A 86 -18.19 -40.74 REMARK 500 5 THR A 105 -174.11 50.62 REMARK 500 5 VAL A 117 -176.85 -60.40 REMARK 500 6 ASP A 51 78.62 -103.37 REMARK 500 6 LYS A 52 3.55 -169.92 REMARK 500 6 TYR A 61 100.47 -34.34 REMARK 500 6 ASP A 85 -130.53 -60.62 REMARK 500 6 GLU A 86 -17.39 -47.51 REMARK 500 6 THR A 105 174.63 56.33 REMARK 500 7 ALA A 6 -158.30 56.43 REMARK 500 7 ARG A 25 -144.68 -105.51 REMARK 500 7 LYS A 52 16.31 -145.93 REMARK 500 7 LYS A 72 -167.87 -74.64 REMARK 500 7 ASP A 85 -134.53 -71.54 REMARK 500 7 GLU A 86 -19.41 -45.53 REMARK 500 7 THR A 105 168.37 57.77 REMARK 500 8 LYS A 72 -169.32 -69.90 REMARK 500 8 ASP A 85 -141.15 -64.59 REMARK 500 8 GLU A 86 -19.90 -40.88 REMARK 500 8 THR A 105 -174.44 53.63 REMARK 500 9 ALA A 2 31.96 -149.61 REMARK 500 9 ASP A 51 -94.34 -129.26 REMARK 500 9 LYS A 52 29.11 42.80 REMARK 500 9 ASP A 85 -130.72 -64.87 REMARK 500 9 GLU A 86 -24.08 -38.43 REMARK 500 9 THR A 105 -170.05 47.28 REMARK 500 10 LYS A 52 13.05 -160.50 REMARK 500 10 TYR A 61 102.38 -33.73 REMARK 500 10 ASP A 85 -142.56 -56.24 REMARK 500 10 GLU A 86 -19.03 -39.09 REMARK 500 10 THR A 105 175.10 52.74 REMARK 500 11 ALA A 2 147.48 69.66 REMARK 500 11 ASP A 75 -49.49 72.16 REMARK 500 11 ASP A 85 -145.14 -63.83 REMARK 500 11 GLU A 86 -17.69 -40.63 REMARK 500 11 THR A 105 -173.46 50.02 REMARK 500 12 ALA A 6 64.42 66.24 REMARK 500 12 ALA A 7 155.34 73.52 REMARK 500 12 THR A 22 167.29 -46.31 REMARK 500 12 ARG A 25 -152.67 60.17 REMARK 500 12 ASP A 85 -110.87 -64.39 REMARK 500 12 THR A 105 -176.50 49.63 REMARK 500 13 ASP A 51 73.15 -150.18 REMARK 500 13 LYS A 52 13.89 -142.57 REMARK 500 13 ASP A 85 -142.03 -67.95 REMARK 500 13 GLU A 86 -18.62 -40.53 REMARK 500 13 THR A 105 174.87 54.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 5 ARG A 13 0.07 SIDE CHAIN REMARK 500 6 ARG A 13 0.17 SIDE CHAIN REMARK 500 9 ARG A 13 0.07 SIDE CHAIN REMARK 500 9 ARG A 115 0.08 SIDE CHAIN REMARK 500 10 ARG A 36 0.07 SIDE CHAIN REMARK 500 11 ARG A 13 0.18 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 7 THR A 105 24.6 L L OUTSIDE RANGE REMARK 500 10 LEU A 32 23.3 L L OUTSIDE RANGE REMARK 500 10 THR A 105 24.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. DBREF 1W6V A -21 -1 PDB 1W6V 1W6V -21 -1 DBREF 1W6V A 1 120 UNP Q9Y4E8 UB15_HUMAN 1 120 SEQRES 1 A 141 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 141 LEU VAL PRO ARG GLY SER HIS MET MET ALA GLU GLY GLY SEQRES 3 A 141 ALA ALA ASP LEU ASP THR GLN ARG SER ASP ILE ALA THR SEQRES 4 A 141 LEU LEU LYS THR SER LEU ARG LYS GLY ASP THR TRP TYR SEQRES 5 A 141 LEU VAL ASP SER ARG TRP PHE LYS GLN TRP LYS LYS TYR SEQRES 6 A 141 VAL GLY PHE ASP SER TRP ASP LYS TYR GLN MET GLY ASP SEQRES 7 A 141 GLN ASN VAL TYR PRO GLY PRO ILE ASP ASN SER GLY LEU SEQRES 8 A 141 LEU LYS ASP GLY ASP ALA GLN SER LEU LYS GLU HIS LEU SEQRES 9 A 141 ILE ASP GLU LEU ASP TYR ILE LEU LEU PRO THR GLU GLY SEQRES 10 A 141 TRP ASN LYS LEU VAL SER TRP TYR THR LEU MET GLU GLY SEQRES 11 A 141 GLN GLU PRO ILE ALA ARG LYS VAL VAL GLU GLN HELIX 1 1 ASP A 8 LYS A 21 1 14 HELIX 2 2 SER A 35 GLY A 46 1 12 HELIX 3 3 PRO A 93 TYR A 104 1 12 SHEET 1 AA 3 TYR A 89 LEU A 92 0 SHEET 2 AA 3 THR A 29 ASP A 34 -1 O TYR A 31 N LEU A 92 SHEET 3 AA 3 ALA A 114 LYS A 116 -1 O ARG A 115 N TRP A 30 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 MODEL 1