HEADER HYDROLASE 21-DEC-06 2OD2 TITLE CRYSTAL STRUCTURE OF YHST2 I117F MUTANT BOUND TO CARBA-NAD+ AND AN TITLE 2 ACETYLATED H4 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT DEACETYLASE HST2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HST2 CATALYTIC CORE DOMAIN, RESIDUES 1-294; COMPND 5 SYNONYM: HOMOLOGOUS TO SIR2 PROTEIN 2; COMPND 6 EC: 3.5.1.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: ACETYLATED H4 PEPTIDE; COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: HST2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: DE3 BL-21 GOLD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSET-A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN HOMO SAPIENS SOURCE 14 (HUMANS) KEYWDS ZN BINDING PROTEIN, ROSSMANN FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR B.D.SANDERS REVDAT 8 03-APR-24 2OD2 1 REMARK REVDAT 7 27-DEC-23 2OD2 1 REMARK REVDAT 6 20-OCT-21 2OD2 1 REMARK SEQADV LINK REVDAT 5 18-OCT-17 2OD2 1 REMARK REVDAT 4 13-JUL-11 2OD2 1 VERSN REVDAT 3 24-FEB-09 2OD2 1 VERSN REVDAT 2 27-FEB-07 2OD2 1 JRNL REVDAT 1 20-FEB-07 2OD2 0 JRNL AUTH B.D.SANDERS,K.ZHAO,J.T.SLAMA,R.MARMORSTEIN JRNL TITL STRUCTURAL BASIS FOR NICOTINAMIDE INHIBITION AND BASE JRNL TITL 2 EXCHANGE IN SIR2 ENZYMES. JRNL REF MOL.CELL V. 25 463 2007 JRNL REFN ISSN 1097-2765 JRNL PMID 17289592 JRNL DOI 10.1016/J.MOLCEL.2006.12.022 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.0 REMARK 3 NUMBER OF REFLECTIONS : 26083 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.600 REMARK 3 FREE R VALUE TEST SET COUNT : 2597 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 6.00 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2250 REMARK 3 BIN FREE R VALUE : 0.2330 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 2597 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2367 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 166 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 10.47400 REMARK 3 B22 (A**2) : 10.47400 REMARK 3 B33 (A**2) : -20.94900 REMARK 3 B12 (A**2) : 4.86600 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 61.74 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : CARBAGOL.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2OD2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000040982. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9777 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31864 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.0 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.21800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY ISZC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 CITRATE, PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.14667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 22.57333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 22.57333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.14667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: THE BIOLOGICAL UNIT IS A TRIMER GENERATED BY THE MONOMER IN REMARK 300 THE ASSYMETRIC UNIT. 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 184.70417 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 22.57333 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 -13 REMARK 465 ARG A -12 REMARK 465 GLY A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 GLY A -3 REMARK 465 SER A 210 REMARK 465 GLY A 211 REMARK 465 LYS A 212 REMARK 465 HIS A 213 REMARK 465 PRO A 214 REMARK 465 GLN A 294 REMARK 465 ARG B 19 REMARK 465 LYS B 20 REMARK 465 ILE B 21 REMARK 465 LEU B 22 REMARK 465 THR B 23 REMARK 465 ALA B 24 REMARK 465 GLN B 25 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR A 292 OG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU A 9 OE2 GLU A 280 1.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLY A 48 N GLY A 48 CA 0.091 REMARK 500 TYR A 52 CE2 TYR A 52 CD2 0.092 REMARK 500 PHE A 79 CB PHE A 79 CG 0.130 REMARK 500 PHE A 79 C PHE A 79 O 0.136 REMARK 500 LYS A 95 CD LYS A 95 CE 0.156 REMARK 500 TYR A 98 CE1 TYR A 98 CZ -0.081 REMARK 500 ASP A 118 N ASP A 118 CA 0.196 REMARK 500 ARG A 122 CG ARG A 122 CD 0.172 REMARK 500 ARG A 122 C ARG A 122 O 0.120 REMARK 500 VAL A 126 CB VAL A 126 CG1 0.130 REMARK 500 SER A 137 CA SER A 137 CB 0.093 REMARK 500 CYS A 143 C CYS A 143 O 0.122 REMARK 500 LYS A 156 CD LYS A 156 CE 0.228 REMARK 500 ASP A 166 CB ASP A 166 CG 0.154 REMARK 500 LYS A 169 CD LYS A 169 CE 0.151 REMARK 500 CYS A 173 CB CYS A 173 SG -0.155 REMARK 500 PHE A 183 CD1 PHE A 183 CE1 -0.145 REMARK 500 SER A 193 C SER A 193 O 0.125 REMARK 500 ASN A 198 CB ASN A 198 CG 0.157 REMARK 500 GLU A 205 CG GLU A 205 CD 0.095 REMARK 500 SER A 225 CA SER A 225 CB 0.094 REMARK 500 TYR A 269 C TYR A 269 O 0.125 REMARK 500 GLU A 272 CD GLU A 272 OE1 -0.071 REMARK 500 PHE A 273 CZ PHE A 273 CE2 0.127 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 43 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 GLY A 48 C - N - CA ANGL. DEV. = -22.0 DEGREES REMARK 500 THR A 49 N - CA - CB ANGL. DEV. = -12.1 DEGREES REMARK 500 ARG A 57 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ASP A 68 CB - CG - OD1 ANGL. DEV. = -8.8 DEGREES REMARK 500 ASP A 68 CB - CG - OD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 ASP A 70 CB - CG - OD2 ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG A 92 NE - CZ - NH1 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG A 92 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ASP A 107 CB - CG - OD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 118 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ASP A 118 N - CA - C ANGL. DEV. = 24.1 DEGREES REMARK 500 ASP A 128 CB - CG - OD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 ASP A 129 CB - CG - OD1 ANGL. DEV. = 8.0 DEGREES REMARK 500 CYS A 143 CA - CB - SG ANGL. DEV. = -13.5 DEGREES REMARK 500 CYS A 146 CA - CB - SG ANGL. DEV. = 7.7 DEGREES REMARK 500 ASP A 166 CB - CG - OD2 ANGL. DEV. = 10.0 DEGREES REMARK 500 ASP A 171 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 CYS A 173 CA - CB - SG ANGL. DEV. = 8.5 DEGREES REMARK 500 PHE A 183 CB - CG - CD1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP A 187 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 190 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 GLU A 272 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ASP A 286 CB - CG - OD1 ANGL. DEV. = 5.5 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 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 ASP A 75 96.94 -168.70 REMARK 500 ASP A 118 -39.65 -35.99 REMARK 500 ASP A 166 71.51 58.21 REMARK 500 VAL A 172 -62.44 -108.44 REMARK 500 ALA A 180 48.55 -71.90 REMARK 500 THR A 208 71.87 -118.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE A 117 ASP A 118 138.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 143 SG REMARK 620 2 CYS A 146 SG 116.6 REMARK 620 3 CYS A 170 SG 92.4 117.1 REMARK 620 4 CYS A 173 SG 75.9 125.8 114.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CNA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1989 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1990 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1991 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1992 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1SZC RELATED DB: PDB REMARK 900 WILDTYPE YHST2 BOUND TO CARBA-NAD+ AND AN ACETYLATED H4 PEPTIDE REMARK 900 RELATED ID: 1SZD RELATED DB: PDB REMARK 900 WILDTYPE YHST2 BOUND TO ADP-RIBOSE AND AN ACETYLATED H4 PEPTIDE REMARK 900 RELATED ID: 2OD7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF YHST2 BOUND TO THE INTERMEDIATE ANALOGUE ADP- REMARK 900 HPD, AND AND ACEYLATED H4 PEPTIDE REMARK 900 RELATED ID: 2OD9 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR NICOTINAMIDE INHIBITION AND BASE EXCHANGE IN REMARK 900 SIR2 ENZYMES DBREF 2OD2 A 1 294 UNP P53686 HST2_YEAST 1 294 DBREF 2OD2 B 12 25 PDB 2OD2 2OD2 12 25 SEQADV 2OD2 MET A -13 UNP P53686 INITIATING METHIONINE SEQADV 2OD2 ARG A -12 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 GLY A -11 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 SER A -10 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 HIS A -9 UNP P53686 EXPRESSION TAG SEQADV 2OD2 HIS A -8 UNP P53686 EXPRESSION TAG SEQADV 2OD2 HIS A -7 UNP P53686 EXPRESSION TAG SEQADV 2OD2 HIS A -6 UNP P53686 EXPRESSION TAG SEQADV 2OD2 HIS A -5 UNP P53686 EXPRESSION TAG SEQADV 2OD2 HIS A -4 UNP P53686 EXPRESSION TAG SEQADV 2OD2 GLY A -3 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 MET A -2 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 ALA A -1 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 SER A 0 UNP P53686 CLONING ARTIFACT SEQADV 2OD2 PHE A 117 UNP P53686 ILE 117 ENGINEERED MUTATION SEQRES 1 A 308 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY MET ALA SEQRES 2 A 308 SER MET SER VAL SER THR ALA SER THR GLU MET SER VAL SEQRES 3 A 308 ARG LYS ILE ALA ALA HIS MET LYS SER ASN PRO ASN ALA SEQRES 4 A 308 LYS VAL ILE PHE MET VAL GLY ALA GLY ILE SER THR SER SEQRES 5 A 308 CYS GLY ILE PRO ASP PHE ARG SER PRO GLY THR GLY LEU SEQRES 6 A 308 TYR HIS ASN LEU ALA ARG LEU LYS LEU PRO TYR PRO GLU SEQRES 7 A 308 ALA VAL PHE ASP VAL ASP PHE PHE GLN SER ASP PRO LEU SEQRES 8 A 308 PRO PHE TYR THR LEU ALA LYS GLU LEU TYR PRO GLY ASN SEQRES 9 A 308 PHE ARG PRO SER LYS PHE HIS TYR LEU LEU LYS LEU PHE SEQRES 10 A 308 GLN ASP LYS ASP VAL LEU LYS ARG VAL TYR THR GLN ASN SEQRES 11 A 308 PHE ASP THR LEU GLU ARG GLN ALA GLY VAL LYS ASP ASP SEQRES 12 A 308 LEU ILE ILE GLU ALA HIS GLY SER PHE ALA HIS CYS HIS SEQRES 13 A 308 CYS ILE GLY CYS GLY LYS VAL TYR PRO PRO GLN VAL PHE SEQRES 14 A 308 LYS SER LYS LEU ALA GLU HIS PRO ILE LYS ASP PHE VAL SEQRES 15 A 308 LYS CYS ASP VAL CYS GLY GLU LEU VAL LYS PRO ALA ILE SEQRES 16 A 308 VAL PHE PHE GLY GLU ASP LEU PRO ASP SER PHE SER GLU SEQRES 17 A 308 THR TRP LEU ASN ASP SER GLU TRP LEU ARG GLU LYS ILE SEQRES 18 A 308 THR THR SER GLY LYS HIS PRO GLN GLN PRO LEU VAL ILE SEQRES 19 A 308 VAL VAL GLY THR SER LEU ALA VAL TYR PRO PHE ALA SER SEQRES 20 A 308 LEU PRO GLU GLU ILE PRO ARG LYS VAL LYS ARG VAL LEU SEQRES 21 A 308 CYS ASN LEU GLU THR VAL GLY ASP PHE LYS ALA ASN LYS SEQRES 22 A 308 ARG PRO THR ASP LEU ILE VAL HIS GLN TYR SER ASP GLU SEQRES 23 A 308 PHE ALA GLU GLN LEU VAL GLU GLU LEU GLY TRP GLN GLU SEQRES 24 A 308 ASP PHE GLU LYS ILE LEU THR ALA GLN SEQRES 1 B 14 LYS GLY GLY ALA ALY ARG HIS ARG LYS ILE LEU THR ALA SEQRES 2 B 14 GLN MODRES 2OD2 ALY B 16 LYS N(6)-ACETYLLYSINE HET ALY B 16 12 HET ZN A 701 1 HET CNA A1001 44 HET GOL A1989 6 HET GOL A1990 6 HET GOL A1991 6 HET GOL A1992 6 HETNAM ALY N(6)-ACETYLLYSINE HETNAM ZN ZINC ION HETNAM CNA CARBA-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ALY C8 H16 N2 O3 FORMUL 3 ZN ZN 2+ FORMUL 4 CNA C22 H30 N7 O13 P2 1+ FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *166(H2 O) HELIX 1 1 THR A 8 ASN A 22 1 15 HELIX 2 2 ALA A 33 GLY A 40 5 8 HELIX 3 3 THR A 49 LEU A 58 1 10 HELIX 4 4 TYR A 62 PHE A 67 5 6 HELIX 5 5 ASP A 68 ASP A 75 1 8 HELIX 6 6 PRO A 76 TYR A 87 1 12 HELIX 7 7 SER A 94 LYS A 106 1 13 HELIX 8 8 THR A 119 ALA A 124 1 6 HELIX 9 9 LYS A 127 ASP A 129 5 3 HELIX 10 10 PRO A 151 ALA A 160 1 10 HELIX 11 11 PRO A 189 ILE A 207 1 19 HELIX 12 12 PRO A 230 ILE A 238 5 9 HELIX 13 13 GLY A 253 ASN A 258 1 6 HELIX 14 14 TYR A 269 GLY A 282 1 14 HELIX 15 15 TRP A 283 THR A 292 1 10 SHEET 1 A 6 ILE A 131 GLU A 133 0 SHEET 2 A 6 LEU A 109 THR A 114 1 N THR A 114 O ILE A 132 SHEET 3 A 6 VAL A 27 VAL A 31 1 N PHE A 29 O TYR A 113 SHEET 4 A 6 LEU A 218 VAL A 222 1 O VAL A 222 N MET A 30 SHEET 5 A 6 LYS A 243 CYS A 247 1 O VAL A 245 N VAL A 221 SHEET 6 A 6 LEU A 264 VAL A 266 1 O VAL A 266 N LEU A 246 SHEET 1 B 3 VAL A 149 TYR A 150 0 SHEET 2 B 3 GLY A 136 CYS A 143 -1 N CYS A 141 O TYR A 150 SHEET 3 B 3 VAL A 177 ILE A 181 -1 O ALA A 180 N HIS A 140 LINK C ALA B 15 N ALY B 16 1555 1555 1.33 LINK C ALY B 16 N ARG B 17 1555 1555 1.33 LINK SG CYS A 143 ZN ZN A 701 1555 1555 2.83 LINK SG CYS A 146 ZN ZN A 701 1555 1555 2.03 LINK SG CYS A 170 ZN ZN A 701 1555 1555 2.40 LINK SG CYS A 173 ZN ZN A 701 1555 1555 2.78 CISPEP 1 HIS A 162 PRO A 163 0 -5.05 CISPEP 2 TYR A 229 PRO A 230 0 2.31 SITE 1 AC1 4 CYS A 143 CYS A 146 CYS A 170 CYS A 173 SITE 1 AC2 25 GLY A 32 ALA A 33 GLY A 34 THR A 37 SITE 2 AC2 25 ARG A 45 GLN A 115 ASN A 116 PHE A 117 SITE 3 AC2 25 ASP A 118 GLY A 223 THR A 224 SER A 225 SITE 4 AC2 25 ASN A 248 LEU A 249 GLN A 268 TYR A 269 SITE 5 AC2 25 SER A 270 HOH A2011 HOH A2015 HOH A2030 SITE 6 AC2 25 HOH A2076 HOH A2092 HOH A2095 HOH A2119 SITE 7 AC2 25 ALY B 16 SITE 1 AC3 4 SER A 193 TRP A 196 GLU A 237 LYS B 12 SITE 1 AC4 4 THR A 49 GLY A 50 HOH A2004 HOH A2090 SITE 1 AC5 5 LYS A 84 TYR A 87 ASN A 90 LEU A 159 SITE 2 AC5 5 ALA A 160 SITE 1 AC6 4 LYS A 26 LYS A 110 TRP A 202 LYS A 206 CRYST1 106.639 106.639 67.720 90.00 90.00 120.00 P 32 2 1 6 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 0.009377 0.005414 0.000000 0.00000 SCALE2 0.000000 0.010828 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014767 0.00000