PDB Short entry for 4Y6L HEADER HYDROLASE/PEPTIDE 13-FEB-15 4Y6L TITLE HUMAN SIRT2 IN COMPLEX WITH MYRISTOYLATED PEPTIDE (H3K9MYR) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 52-356; COMPND 5 SYNONYM: REGULATORY PROTEIN SIR2 HOMOLOG 2,SIR2-LIKE PROTEIN 2; COMPND 6 EC: 3.5.1.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PEPTIDE THR-ALA-ARG-MYK-SER-THR-GLY; COMPND 10 CHAIN: C, D; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SIRT2, SIR2L, SIR2L2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-4T3; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_TAXID: 9606 KEYWDS SIRTUIN, SIRT, NAD-DEPENDENT DEACETYLASE, MYRISTOYLATED LYSINE, KEYWDS 2 HYDROLASE-PEPTIDE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.KUDO,A.ITO,M.YOSHIDA REVDAT 3 08-NOV-23 4Y6L 1 REMARK REVDAT 2 05-FEB-20 4Y6L 1 JRNL REMARK REVDAT 1 06-JAN-16 4Y6L 0 JRNL AUTH J.L.FELDMAN,K.E.DITTENHAFER-REED,N.KUDO,J.N.THELEN,A.ITO, JRNL AUTH 2 M.YOSHIDA,J.M.DENU JRNL TITL KINETIC AND STRUCTURAL BASIS FOR ACYL-GROUP SELECTIVITY AND JRNL TITL 2 NAD(+) DEPENDENCE IN SIRTUIN-CATALYZED DEACYLATION. JRNL REF BIOCHEMISTRY V. 54 3037 2015 JRNL REFN ISSN 0006-2960 JRNL PMID 25897714 JRNL DOI 10.1021/ACS.BIOCHEM.5B00150 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 74836 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3849 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5369 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.43 REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 281 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4533 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 522 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : -0.04000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : -0.08000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.059 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.626 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4637 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6226 ; 1.217 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 554 ; 5.325 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 204 ;30.496 ;23.431 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 829 ;13.265 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;14.625 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 680 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3410 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2248 ; 0.639 ; 1.470 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2790 ; 1.152 ; 2.191 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2389 ; 0.659 ; 1.593 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 7621 ; 3.811 ;12.921 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4Y6L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000206568. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAY-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 79168 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.02300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 38.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: 1J8F, 3ZGO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z 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 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 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: 1480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 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 GLY A 52 REMARK 465 SER A 53 REMARK 465 GLN A 54 REMARK 465 LYS A 55 REMARK 465 SER A 98 REMARK 465 PRO A 99 REMARK 465 SER A 100 REMARK 465 THR A 101 REMARK 465 GLY A 102 REMARK 465 LEU A 103 REMARK 465 TYR A 104 REMARK 465 ASP A 105 REMARK 465 GLY A 303 REMARK 465 GLY A 304 REMARK 465 GLY A 305 REMARK 465 SER A 356 REMARK 465 GLY B 52 REMARK 465 SER B 53 REMARK 465 GLN B 54 REMARK 465 SER B 98 REMARK 465 PRO B 99 REMARK 465 SER B 100 REMARK 465 THR B 101 REMARK 465 GLY B 102 REMARK 465 LEU B 103 REMARK 465 TYR B 104 REMARK 465 ASP B 105 REMARK 465 ASN B 106 REMARK 465 LEU B 107 REMARK 465 GLU B 108 REMARK 465 LYS B 109 REMARK 465 TYR B 110 REMARK 465 HIS B 111 REMARK 465 GLY B 304 REMARK 465 GLY B 305 REMARK 465 SER B 356 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 CYS A 200 -66.00 -130.27 REMARK 500 ASP A 231 39.88 -77.09 REMARK 500 TYR A 315 -14.04 -144.47 REMARK 500 ARG A 316 -11.44 -150.76 REMARK 500 CYS B 200 -64.48 -126.85 REMARK 500 GLN B 225 -2.74 72.08 REMARK 500 ASP B 231 38.91 -74.81 REMARK 500 TYR B 315 -13.81 -149.56 REMARK 500 ARG B 316 -9.41 -150.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 MYK D 9 10.15 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 CYS A 200 SG 114.4 REMARK 620 3 CYS A 221 SG 111.0 106.9 REMARK 620 4 CYS A 224 SG 93.5 116.3 114.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 195 SG REMARK 620 2 CYS B 200 SG 111.9 REMARK 620 3 CYS B 221 SG 110.6 111.7 REMARK 620 4 CYS B 224 SG 93.2 112.2 116.0 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ARG C 8 and MYK C 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide MYK C 9 and SER C 10 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ARG D 8 and MYK D 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide MYK D 9 and SER D 10 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Y6O RELATED DB: PDB REMARK 900 RELATED ID: 4Y6Q RELATED DB: PDB DBREF 4Y6L A 52 356 UNP Q8IXJ6 SIR2_HUMAN 52 356 DBREF 4Y6L B 52 356 UNP Q8IXJ6 SIR2_HUMAN 52 356 DBREF 4Y6L C 6 12 PDB 4Y6L 4Y6L 6 12 DBREF 4Y6L D 6 12 PDB 4Y6L 4Y6L 6 12 SEQADV 4Y6L A UNP Q8IXJ6 GLN 292 DELETION SEQADV 4Y6L A UNP Q8IXJ6 SER 293 DELETION SEQADV 4Y6L A UNP Q8IXJ6 ASP 294 DELETION SEQADV 4Y6L A UNP Q8IXJ6 PRO 295 DELETION SEQADV 4Y6L A UNP Q8IXJ6 PHE 296 DELETION SEQADV 4Y6L A UNP Q8IXJ6 LEU 297 DELETION SEQADV 4Y6L A UNP Q8IXJ6 GLY 298 DELETION SEQADV 4Y6L A UNP Q8IXJ6 MET 299 DELETION SEQADV 4Y6L A UNP Q8IXJ6 ILE 300 DELETION SEQADV 4Y6L A UNP Q8IXJ6 MET 301 DELETION SEQADV 4Y6L A UNP Q8IXJ6 GLY 302 DELETION SEQADV 4Y6L A UNP Q8IXJ6 LEU 303 DELETION SEQADV 4Y6L B UNP Q8IXJ6 GLN 292 DELETION SEQADV 4Y6L B UNP Q8IXJ6 SER 293 DELETION SEQADV 4Y6L B UNP Q8IXJ6 ASP 294 DELETION SEQADV 4Y6L B UNP Q8IXJ6 PRO 295 DELETION SEQADV 4Y6L B UNP Q8IXJ6 PHE 296 DELETION SEQADV 4Y6L B UNP Q8IXJ6 LEU 297 DELETION SEQADV 4Y6L B UNP Q8IXJ6 GLY 298 DELETION SEQADV 4Y6L B UNP Q8IXJ6 MET 299 DELETION SEQADV 4Y6L B UNP Q8IXJ6 ILE 300 DELETION SEQADV 4Y6L B UNP Q8IXJ6 MET 301 DELETION SEQADV 4Y6L B UNP Q8IXJ6 GLY 302 DELETION SEQADV 4Y6L B UNP Q8IXJ6 LEU 303 DELETION SEQRES 1 A 293 GLY SER GLN LYS GLU ARG LEU LEU ASP GLU LEU THR LEU SEQRES 2 A 293 GLU GLY VAL ALA ARG TYR MET GLN SER GLU ARG CYS ARG SEQRES 3 A 293 ARG VAL ILE CYS LEU VAL GLY ALA GLY ILE SER THR SER SEQRES 4 A 293 ALA GLY ILE PRO ASP PHE ARG SER PRO SER THR GLY LEU SEQRES 5 A 293 TYR ASP ASN LEU GLU LYS TYR HIS LEU PRO TYR PRO GLU SEQRES 6 A 293 ALA ILE PHE GLU ILE SER TYR PHE LYS LYS HIS PRO GLU SEQRES 7 A 293 PRO PHE PHE ALA LEU ALA LYS GLU LEU TYR PRO GLY GLN SEQRES 8 A 293 PHE LYS PRO THR ILE CYS HIS TYR PHE MET ARG LEU LEU SEQRES 9 A 293 LYS ASP LYS GLY LEU LEU LEU ARG CYS TYR THR GLN ASN SEQRES 10 A 293 ILE ASP THR LEU GLU ARG ILE ALA GLY LEU GLU GLN GLU SEQRES 11 A 293 ASP LEU VAL GLU ALA HIS GLY THR PHE TYR THR SER HIS SEQRES 12 A 293 CYS VAL SER ALA SER CYS ARG HIS GLU TYR PRO LEU SER SEQRES 13 A 293 TRP MET LYS GLU LYS ILE PHE SER GLU VAL THR PRO LYS SEQRES 14 A 293 CYS GLU ASP CYS GLN SER LEU VAL LYS PRO ASP ILE VAL SEQRES 15 A 293 PHE PHE GLY GLU SER LEU PRO ALA ARG PHE PHE SER CYS SEQRES 16 A 293 MET GLN SER ASP PHE LEU LYS VAL ASP LEU LEU LEU VAL SEQRES 17 A 293 MET GLY THR SER LEU GLN VAL GLN PRO PHE ALA SER LEU SEQRES 18 A 293 ILE SER LYS ALA PRO LEU SER THR PRO ARG LEU LEU ILE SEQRES 19 A 293 ASN LYS GLU LYS ALA GLY GLY GLY GLY MET ASP PHE ASP SEQRES 20 A 293 SER LYS LYS ALA TYR ARG ASP VAL ALA TRP LEU GLY GLU SEQRES 21 A 293 CYS ASP GLN GLY CYS LEU ALA LEU ALA GLU LEU LEU GLY SEQRES 22 A 293 TRP LYS LYS GLU LEU GLU ASP LEU VAL ARG ARG GLU HIS SEQRES 23 A 293 ALA SER ILE ASP ALA GLN SER SEQRES 1 B 293 GLY SER GLN LYS GLU ARG LEU LEU ASP GLU LEU THR LEU SEQRES 2 B 293 GLU GLY VAL ALA ARG TYR MET GLN SER GLU ARG CYS ARG SEQRES 3 B 293 ARG VAL ILE CYS LEU VAL GLY ALA GLY ILE SER THR SER SEQRES 4 B 293 ALA GLY ILE PRO ASP PHE ARG SER PRO SER THR GLY LEU SEQRES 5 B 293 TYR ASP ASN LEU GLU LYS TYR HIS LEU PRO TYR PRO GLU SEQRES 6 B 293 ALA ILE PHE GLU ILE SER TYR PHE LYS LYS HIS PRO GLU SEQRES 7 B 293 PRO PHE PHE ALA LEU ALA LYS GLU LEU TYR PRO GLY GLN SEQRES 8 B 293 PHE LYS PRO THR ILE CYS HIS TYR PHE MET ARG LEU LEU SEQRES 9 B 293 LYS ASP LYS GLY LEU LEU LEU ARG CYS TYR THR GLN ASN SEQRES 10 B 293 ILE ASP THR LEU GLU ARG ILE ALA GLY LEU GLU GLN GLU SEQRES 11 B 293 ASP LEU VAL GLU ALA HIS GLY THR PHE TYR THR SER HIS SEQRES 12 B 293 CYS VAL SER ALA SER CYS ARG HIS GLU TYR PRO LEU SER SEQRES 13 B 293 TRP MET LYS GLU LYS ILE PHE SER GLU VAL THR PRO LYS SEQRES 14 B 293 CYS GLU ASP CYS GLN SER LEU VAL LYS PRO ASP ILE VAL SEQRES 15 B 293 PHE PHE GLY GLU SER LEU PRO ALA ARG PHE PHE SER CYS SEQRES 16 B 293 MET GLN SER ASP PHE LEU LYS VAL ASP LEU LEU LEU VAL SEQRES 17 B 293 MET GLY THR SER LEU GLN VAL GLN PRO PHE ALA SER LEU SEQRES 18 B 293 ILE SER LYS ALA PRO LEU SER THR PRO ARG LEU LEU ILE SEQRES 19 B 293 ASN LYS GLU LYS ALA GLY GLY GLY GLY MET ASP PHE ASP SEQRES 20 B 293 SER LYS LYS ALA TYR ARG ASP VAL ALA TRP LEU GLY GLU SEQRES 21 B 293 CYS ASP GLN GLY CYS LEU ALA LEU ALA GLU LEU LEU GLY SEQRES 22 B 293 TRP LYS LYS GLU LEU GLU ASP LEU VAL ARG ARG GLU HIS SEQRES 23 B 293 ALA SER ILE ASP ALA GLN SER SEQRES 1 C 7 THR ALA ARG MYK SER THR GLY SEQRES 1 D 7 THR ALA ARG MYK SER THR GLY HET MYK C 9 24 HET MYK D 9 24 HET ZN A 501 1 HET ZN B 501 1 HETNAM MYK N~6~-TETRADECANOYL-L-LYSINE HETNAM ZN ZINC ION HETSYN MYK N6-MYRISTOYL LYSINE FORMUL 3 MYK 2(C20 H40 N2 O3) FORMUL 5 ZN 2(ZN 2+) FORMUL 7 HOH *522(H2 O) HELIX 1 AA1 THR A 63 SER A 73 1 11 HELIX 2 AA2 ALA A 85 GLY A 92 5 8 HELIX 3 AA3 ASN A 106 HIS A 111 5 6 HELIX 4 AA4 TYR A 114 PHE A 119 5 6 HELIX 5 AA5 GLU A 120 HIS A 127 1 8 HELIX 6 AA6 PRO A 128 TYR A 139 1 12 HELIX 7 AA7 THR A 146 LYS A 158 1 13 HELIX 8 AA8 THR A 171 ALA A 176 1 6 HELIX 9 AA9 GLU A 179 GLU A 181 5 3 HELIX 10 AB1 LEU A 206 GLU A 216 1 11 HELIX 11 AB2 PRO A 240 PHE A 251 1 12 HELIX 12 AB3 PRO A 268 ALA A 276 5 9 HELIX 13 AB4 GLU A 323 GLY A 336 1 14 HELIX 14 AB5 TRP A 337 ALA A 354 1 18 HELIX 15 AB6 THR B 63 SER B 73 1 11 HELIX 16 AB7 ALA B 85 GLY B 92 5 8 HELIX 17 AB8 TYR B 114 PHE B 119 5 6 HELIX 18 AB9 GLU B 120 HIS B 127 1 8 HELIX 19 AC1 PRO B 128 TYR B 139 1 12 HELIX 20 AC2 THR B 146 LYS B 158 1 13 HELIX 21 AC3 THR B 171 ALA B 176 1 6 HELIX 22 AC4 GLU B 179 GLU B 181 5 3 HELIX 23 AC5 LEU B 206 SER B 215 1 10 HELIX 24 AC6 PRO B 240 PHE B 251 1 12 HELIX 25 AC7 PRO B 268 ALA B 276 5 9 HELIX 26 AC8 GLU B 323 LEU B 335 1 13 HELIX 27 AC9 TRP B 337 ALA B 354 1 18 SHEET 1 AA1 6 LEU A 183 GLU A 185 0 SHEET 2 AA1 6 LEU A 161 THR A 166 1 N CYS A 164 O VAL A 184 SHEET 3 AA1 6 VAL A 79 VAL A 83 1 N CYS A 81 O TYR A 165 SHEET 4 AA1 6 LEU A 256 MET A 260 1 O LEU A 258 N ILE A 80 SHEET 5 AA1 6 ARG A 282 ASN A 286 1 O LEU A 283 N VAL A 259 SHEET 6 AA1 6 ASP A 317 LEU A 321 1 O VAL A 318 N LEU A 284 SHEET 1 AA2 3 GLU A 203 PRO A 205 0 SHEET 2 AA2 3 GLY A 188 CYS A 195 -1 N SER A 193 O TYR A 204 SHEET 3 AA2 3 VAL A 228 ILE A 232 -1 O ASP A 231 N THR A 192 SHEET 1 AA3 6 LEU B 183 GLU B 185 0 SHEET 2 AA3 6 LEU B 161 THR B 166 1 N THR B 166 O VAL B 184 SHEET 3 AA3 6 VAL B 79 VAL B 83 1 N CYS B 81 O TYR B 165 SHEET 4 AA3 6 LEU B 256 MET B 260 1 O LEU B 258 N LEU B 82 SHEET 5 AA3 6 ARG B 282 ASN B 286 1 O LEU B 283 N VAL B 259 SHEET 6 AA3 6 ASP B 317 LEU B 321 1 O VAL B 318 N LEU B 284 SHEET 1 AA4 3 GLU B 203 PRO B 205 0 SHEET 2 AA4 3 GLY B 188 CYS B 195 -1 N SER B 193 O TYR B 204 SHEET 3 AA4 3 VAL B 228 ILE B 232 -1 O LYS B 229 N HIS B 194 LINK C ARG C 8 N MYK C 9 1555 1555 1.33 LINK C MYK C 9 N SER C 10 1555 1555 1.34 LINK C ARG D 8 N MYK D 9 1555 1555 1.33 LINK C MYK D 9 N SER D 10 1555 1555 1.33 LINK SG CYS A 195 ZN ZN A 501 1555 1555 2.32 LINK SG CYS A 200 ZN ZN A 501 1555 1555 2.32 LINK SG CYS A 221 ZN ZN A 501 1555 1555 2.33 LINK SG CYS A 224 ZN ZN A 501 1555 1555 2.31 LINK SG CYS B 195 ZN ZN B 501 1555 1555 2.33 LINK SG CYS B 200 ZN ZN B 501 1555 1555 2.33 LINK SG CYS B 221 ZN ZN B 501 1555 1555 2.33 LINK SG CYS B 224 ZN ZN B 501 1555 1555 2.33 CISPEP 1 GLN A 267 PRO A 268 0 1.20 CISPEP 2 GLN B 267 PRO B 268 0 2.75 SITE 1 AC1 4 CYS A 195 CYS A 200 CYS A 221 CYS A 224 SITE 1 AC2 4 CYS B 195 CYS B 200 CYS B 221 CYS B 224 SITE 1 AC3 18 PHE A 96 PHE A 119 GLU A 137 PHE A 143 SITE 2 AC3 18 HIS A 187 PHE A 190 VAL A 233 PHE A 235 SITE 3 AC3 18 GLY A 236 GLU A 237 SER A 238 GLN A 267 SITE 4 AC3 18 THR C 6 ALA C 7 SER C 10 HOH C 103 SITE 5 AC3 18 HOH C 105 HOH C 110 SITE 1 AC4 16 PHE A 96 PHE A 119 PHE A 143 HIS A 187 SITE 2 AC4 16 PHE A 190 VAL A 233 PHE A 235 GLY A 236 SITE 3 AC4 16 GLU A 237 VAL A 266 GLN A 267 ARG C 8 SITE 4 AC4 16 THR C 11 GLY C 12 HOH C 103 HOH C 105 SITE 1 AC5 12 PHE B 96 PHE B 143 HIS B 187 VAL B 233 SITE 2 AC5 12 PHE B 235 GLY B 236 GLU B 237 GLN B 267 SITE 3 AC5 12 THR D 6 ALA D 7 SER D 10 HOH D 103 SITE 1 AC6 13 PHE B 96 PHE B 143 HIS B 187 VAL B 233 SITE 2 AC6 13 PHE B 235 GLY B 236 GLU B 237 VAL B 266 SITE 3 AC6 13 GLN B 267 ARG D 8 THR D 11 GLY D 12 SITE 4 AC6 13 HOH D 103 CRYST1 37.102 48.824 97.147 101.05 91.53 112.07 P 1 2 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 0.026953 0.010928 0.003173 0.00000 SCALE2 0.000000 0.022101 0.004928 0.00000 SCALE3 0.000000 0.000000 0.010550 0.00000