HEADER HYDROLASE 15-APR-21 7EN4 TITLE MULTI-STATE STRUCTURE DETERMINATION AND DYNAMICS ANALYSIS ELUCIDATE A TITLE 2 NEW UBIQUITIN-RECOGNITION MECHANISM OF YEAST UBIQUITIN C-TERMINAL TITLE 3 HYDROLASE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE YUH1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UCH,UBIQUITIN THIOESTERASE; COMPND 5 EC: 3.4.19.12; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_TAXID: 4932; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS PROTEIN SOLUTION NMR, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.OKADA,Y.TATEISHI,E.NOJIRI,T.MIKAWA,S.RAJESH,H.OGASAWA,T.UEDA, AUTHOR 2 H.YAGI,T.KOHNO,T.KIGAWA,I.SHIMADA,P.GUENTERT,I.YUTAKA,T.IKEYA REVDAT 3 15-MAY-24 7EN4 1 REMARK REVDAT 2 14-JUN-23 7EN4 1 REMARK REVDAT 1 20-APR-22 7EN4 0 JRNL AUTH M.OKADA,Y.TATEISHI,E.NOJIRI,T.MIKAWA,S.RAJESH,H.YAGI, JRNL AUTH 2 H.OGASAWA,T.UEDA,I.SHIMADA,T.KOHNO,T.KIGAWA,P.GUENTERT, JRNL AUTH 3 I.YUTAKA,T.IKEYA JRNL TITL MULTI-STATE STRUCTURE DETERMINATION AND DYNAMICS ANALYSIS JRNL TITL 2 ELUCIDATE A NEW UBIQUITIN-RECOGNITION MECHANISM OF YEAST JRNL TITL 3 UBIQUITIN C-TERMINAL HYDROLASE. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPAL 1.4 REMARK 3 AUTHORS : LUGINBUHL, GUNTERT, BILLETER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7EN4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-APR-21. REMARK 100 THE DEPOSITION ID IS D_1300021637. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT PA REMARK 210 SAMPLE CONTENTS : 2 MM [U-100% 13C; U-100% 15N; U REMARK 210 -50% 2H] UBIQUITIN HYDROLASE, 90% REMARK 210 H2O/10% D2O; 2 MM [U-100% 15N] REMARK 210 UBIQUITIN HYDROLASE, 90% H2O/10% REMARK 210 D2O; 2 MM ILE/LEU/VAL-METHYL- REMARK 210 SELECTIVELY 1H/13C-LABELED AND REMARK 210 PHE/TYR/TRP-AROMATIC RING- REMARK 210 SELECTIVELY 1H-LABELED UBIQUITIN REMARK 210 HYDROLASE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCA; 3D HN(CO)CA; 3D REMARK 210 CBCA(CO)NH; 3D CBCANH; 3D REMARK 210 HBHA(CO)NH; 3D H(CCO)NH; 3D C(CO) REMARK 210 NH; 3D HCCH-TOCSY; 3D 1H-13C REMARK 210 NOESY; 3D 1H-15N NOESY; 3D HSQC- REMARK 210 NOESY-HSQC; 3D CCNH; 2D 1H-1H REMARK 210 TOCSY; 3D TROSY-HNCO; T1 REMARK 210 RELAXATION; T2 RELAXATION; REMARK 210 HETERONUCLEAR 1H-15N NOE; 2D 1H- REMARK 210 15N HSQC; 2D 1H-13C HSQC; 2D 1H- REMARK 210 15N IPAP HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 3.99.0, AZARA 2.8.1, REMARK 210 CCPNMR ANALYSIS 2.5.0, TOPSPIN REMARK 210 3.5 REMARK 210 METHOD USED : ENERGY MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES RANDOMLY SELECTED REMARK 210 FROM EACH OF FIVE CLUSTERS 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 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 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 ASN A 5 5.75 51.49 REMARK 500 1 PHE A 47 71.48 -118.93 REMARK 500 1 ASP A 64 -79.99 -80.13 REMARK 500 1 SER A 85 -74.22 -77.94 REMARK 500 1 SER A 125 -76.75 -70.62 REMARK 500 1 LYS A 126 -15.27 -155.75 REMARK 500 1 ASP A 130 -2.52 -151.91 REMARK 500 1 GLN A 147 -173.77 -69.66 REMARK 500 1 GLU A 155 4.03 51.32 REMARK 500 1 ALA A 156 70.53 29.15 REMARK 500 1 ALA A 161 -177.21 -65.48 REMARK 500 1 ASN A 164 75.84 -112.33 REMARK 500 1 ASP A 200 -55.40 -153.95 REMARK 500 1 LEU A 201 -17.52 -167.50 REMARK 500 2 SER A 13 23.04 -79.22 REMARK 500 2 GLU A 16 -52.18 -121.32 REMARK 500 2 PRO A 49 -86.07 -71.05 REMARK 500 2 ARG A 65 96.81 62.38 REMARK 500 2 PHE A 129 47.80 -93.16 REMARK 500 2 ASP A 130 -11.03 -142.54 REMARK 500 2 GLN A 147 -74.54 -66.34 REMARK 500 2 THR A 148 -5.99 -151.05 REMARK 500 2 GLU A 155 -61.62 -90.11 REMARK 500 2 ALA A 156 72.15 40.58 REMARK 500 2 ALA A 161 -87.29 59.47 REMARK 500 2 ASP A 200 -8.76 -150.41 REMARK 500 2 LEU A 201 -42.02 128.17 REMARK 500 3 PRO A 49 -169.34 -72.29 REMARK 500 3 LYS A 66 -179.00 -63.09 REMARK 500 3 THR A 74 -178.13 -65.62 REMARK 500 3 SER A 75 15.86 -142.80 REMARK 500 3 SER A 85 -8.13 -142.26 REMARK 500 3 THR A 122 -80.21 -110.02 REMARK 500 3 SER A 125 29.10 -74.12 REMARK 500 3 ASP A 130 -1.44 -144.09 REMARK 500 3 GLN A 153 -7.54 -147.81 REMARK 500 3 ALA A 156 56.55 39.11 REMARK 500 3 ALA A 159 -171.80 -64.21 REMARK 500 3 THR A 160 6.96 -67.16 REMARK 500 3 PRO A 188 -174.89 -68.23 REMARK 500 3 ASP A 200 -72.65 -157.85 REMARK 500 3 LEU A 201 -21.42 -147.49 REMARK 500 4 SER A 13 -83.81 -100.26 REMARK 500 4 ALA A 32 -168.12 -160.66 REMARK 500 4 ARG A 65 9.96 -156.07 REMARK 500 4 ARG A 128 -85.95 -65.34 REMARK 500 4 PHE A 129 90.87 22.72 REMARK 500 4 ASP A 130 -7.55 -146.92 REMARK 500 4 THR A 148 -3.09 -151.72 REMARK 500 4 ALA A 156 103.80 -42.23 REMARK 500 REMARK 500 THIS ENTRY HAS 287 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36420 RELATED DB: BMRB REMARK 900 MULTI-STATE STRUCTURE DETERMINATION AND DYNAMICS ANALYSIS ELUCIDATE REMARK 900 A NEW UBIQUITIN-RECOGNITION MECHANISM OF YEAST UBIQUITIN C-TERMINAL REMARK 900 HYDROLASE. DBREF 7EN4 A 1 236 UNP P35127 UBL1_YEAST 1 236 SEQRES 1 A 236 MET SER GLY GLU ASN ARG ALA VAL VAL PRO ILE GLU SER SEQRES 2 A 236 ASN PRO GLU VAL PHE THR ASN PHE ALA HIS LYS LEU GLY SEQRES 3 A 236 LEU LYS ASN GLU TRP ALA TYR PHE ASP ILE TYR SER LEU SEQRES 4 A 236 THR GLU PRO GLU LEU LEU ALA PHE LEU PRO ARG PRO VAL SEQRES 5 A 236 LYS ALA ILE VAL LEU LEU PHE PRO ILE ASN GLU ASP ARG SEQRES 6 A 236 LYS SER SER THR SER GLN GLN ILE THR SER SER TYR ASP SEQRES 7 A 236 VAL ILE TRP PHE LYS GLN SER VAL LYS ASN ALA CYS GLY SEQRES 8 A 236 LEU TYR ALA ILE LEU HIS SER LEU SER ASN ASN GLN SER SEQRES 9 A 236 LEU LEU GLU PRO GLY SER ASP LEU ASP ASN PHE LEU LYS SEQRES 10 A 236 SER GLN SER ASP THR SER SER SER LYS ASN ARG PHE ASP SEQRES 11 A 236 ASP VAL THR THR ASP GLN PHE VAL LEU ASN VAL ILE LYS SEQRES 12 A 236 GLU ASN VAL GLN THR PHE SER THR GLY GLN SER GLU ALA SEQRES 13 A 236 PRO GLU ALA THR ALA ASP THR ASN LEU HIS TYR ILE THR SEQRES 14 A 236 TYR VAL GLU GLU ASN GLY GLY ILE PHE GLU LEU ASP GLY SEQRES 15 A 236 ARG ASN LEU SER GLY PRO LEU TYR LEU GLY LYS SER ASP SEQRES 16 A 236 PRO THR ALA THR ASP LEU ILE GLU GLN GLU LEU VAL ARG SEQRES 17 A 236 VAL ARG VAL ALA SER TYR MET GLU ASN ALA ASN GLU GLU SEQRES 18 A 236 ASP VAL LEU ASN PHE ALA MET LEU GLY LEU GLY PRO ASN SEQRES 19 A 236 TRP GLU HELIX 1 AA1 PRO A 15 GLY A 26 1 12 HELIX 2 AA2 GLU A 41 ALA A 46 1 6 HELIX 3 AA3 LYS A 87 CYS A 90 5 4 HELIX 4 AA4 GLY A 91 ASN A 101 1 11 HELIX 5 AA5 SER A 110 ASP A 121 1 12 HELIX 6 AA6 ASP A 131 ILE A 142 1 12 HELIX 7 AA7 ILE A 142 GLN A 147 1 6 HELIX 8 AA8 GLN A 204 ALA A 218 1 15 SHEET 1 AA1 4 TRP A 31 ILE A 36 0 SHEET 2 AA1 4 ALA A 227 PRO A 233 -1 O GLY A 232 N ALA A 32 SHEET 3 AA1 4 ALA A 54 PRO A 60 -1 N VAL A 56 O LEU A 229 SHEET 4 AA1 4 LEU A 165 TYR A 170 -1 O ILE A 168 N LEU A 57 SHEET 1 AA2 3 GLU A 172 GLU A 173 0 SHEET 2 AA2 3 GLY A 176 ILE A 177 -1 O GLY A 176 N GLU A 173 SHEET 3 AA2 3 GLY A 192 LYS A 193 -1 O GLY A 192 N ILE A 177 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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