HEADER HYDROLASE 16-JUN-25 9VH0 TITLE SIRT2-H187A STRUCTURE IN COMPLEX WITH H3K18MYR PEPTIDE AND NATIVE NAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NAD-DEPENDENT PROTEIN DEFATTY-ACYLASE SIRTUIN-2,REGULATORY COMPND 5 PROTEIN SIR2 HOMOLOG 2,SIR2-LIKE PROTEIN 2; COMPND 6 EC: 2.3.1.286,2.3.1.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: HISTONE H3.1; COMPND 11 CHAIN: C, D; COMPND 12 SYNONYM: HISTONE H3/A,HISTONE H3/B,HISTONE H3/C,HISTONE H3/D,HISTONE COMPND 13 H3/F,HISTONE H3/H,HISTONE H3/I,HISTONE H3/J,HISTONE H3/K,HISTONE COMPND 14 H3/L; COMPND 15 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 BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS DEACYLATED, CELL CYCLE REGULATION, METABOLIC REGULATION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.ZHANG,Q.HAO REVDAT 3 12-NOV-25 9VH0 1 JRNL REVDAT 2 01-OCT-25 9VH0 1 JRNL REVDAT 1 24-SEP-25 9VH0 0 JRNL AUTH N.ZHANG,K.C.POW,L.CHEN,Q.HAO JRNL TITL STRUCTURAL BASIS OF SIRT2 PRE-CATALYSIS NAD + BINDING JRNL TITL 2 DYNAMICS AND MECHANISM. JRNL REF RSC CHEM BIOL V. 6 1749 2025 JRNL REFN ESSN 2633-0679 JRNL PMID 40963517 JRNL DOI 10.1039/D5CB00169B REMARK 2 REMARK 2 RESOLUTION. 2.41 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 (REFMACAT 0.4.105) REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 3 NUMBER OF REFLECTIONS : 21622 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.009 REMARK 3 FREE R VALUE TEST SET COUNT : 1083 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) : 2.41 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.47 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1376 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.35 REMARK 3 BIN R VALUE (WORKING SET) : 0.3200 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.3900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4571 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 120 REMARK 3 SOLVENT ATOMS : 40 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.97900 REMARK 3 B22 (A**2) : -0.16400 REMARK 3 B33 (A**2) : 3.35900 REMARK 3 B12 (A**2) : 0.71000 REMARK 3 B13 (A**2) : -2.65800 REMARK 3 B23 (A**2) : -4.35700 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.866 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.331 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.274 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.313 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.897 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4816 ; 0.006 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 4465 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6513 ; 1.656 ; 1.840 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10357 ; 0.568 ; 1.750 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 586 ; 7.756 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 30 ;10.863 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 792 ;16.773 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 722 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5510 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1060 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1061 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 63 ; 0.240 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2315 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 146 ; 0.158 ; 0.200 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): 2359 ; 3.894 ; 4.573 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2359 ; 3.893 ; 4.573 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2940 ; 5.889 ; 8.203 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2941 ; 5.889 ; 8.205 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2457 ; 3.957 ; 4.862 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2458 ; 3.956 ; 4.863 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3573 ; 6.160 ; 8.829 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3574 ; 6.159 ; 8.830 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 BULK SOLVENT 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: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9VH0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-JUN-25. REMARK 100 THE DEPOSITION ID IS D_1300060660. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-APR-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97861 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21638 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.410 REMARK 200 RESOLUTION RANGE LOW (A) : 47.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.41 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 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 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: PHASER REMARK 200 STARTING MODEL: 4X3O REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES 5.5, 9.2% PEG10000, PH 5.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K 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: 3060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13110 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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: 2890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13050 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 ASP A 294 REMARK 465 PRO A 295 REMARK 465 PHE A 296 REMARK 465 LEU A 297 REMARK 465 GLY A 298 REMARK 465 MET A 299 REMARK 465 ILE A 300 REMARK 465 MET A 301 REMARK 465 GLY A 302 REMARK 465 LEU A 303 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 ASP B 294 REMARK 465 PRO B 295 REMARK 465 PHE B 296 REMARK 465 LEU B 297 REMARK 465 GLY B 298 REMARK 465 MET B 299 REMARK 465 ILE B 300 REMARK 465 MET B 301 REMARK 465 GLY B 302 REMARK 465 LEU B 303 REMARK 465 GLY B 304 REMARK 465 ALA D 6 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 SER A 293 OG REMARK 470 LYS A 312 CG CD CE NZ REMARK 470 GLN B 54 CG CD OE1 NE2 REMARK 470 GLU B 74 CG CD OE1 OE2 REMARK 470 ARG B 97 CG CD NE CZ NH1 NH2 REMARK 470 THR B 101 OG1 CG2 REMARK 470 LYS B 109 CG CD CE NZ REMARK 470 LEU B 112 CG CD1 CD2 REMARK 470 TYR B 114 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU B 116 CG CD OE1 OE2 REMARK 470 PHE B 119 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 120 CG CD OE1 OE2 REMARK 470 SER B 122 OG REMARK 470 LYS B 126 CG CD CE NZ REMARK 470 PHE B 132 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 136 CG CD CE NZ REMARK 470 GLU B 137 CG CD OE1 OE2 REMARK 470 ARG B 201 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 206 CG CD1 CD2 REMARK 470 LYS B 210 CG CD CE NZ REMARK 470 GLU B 211 CG CD OE1 OE2 REMARK 470 LYS B 212 CG CD CE NZ REMARK 470 PHE B 214 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 220 CG CD CE NZ REMARK 470 LYS B 275 CG CD CE NZ REMARK 470 LYS B 339 CG CD CE NZ REMARK 470 ARG B 346 CG CD NE CZ NH1 NH2 REMARK 470 PRO C 7 CG CD REMARK 470 ARG D 8 CG CD NE CZ NH1 NH2 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 ARG A 316 NE - CZ - NH2 ANGL. DEV. = -3.3 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 SER A 100 -52.16 56.44 REMARK 500 ASN A 106 21.26 -140.31 REMARK 500 CYS A 200 -65.75 -121.40 REMARK 500 ASP A 223 -61.56 -97.00 REMARK 500 GLN A 225 2.24 81.55 REMARK 500 ASP A 231 42.00 -75.33 REMARK 500 ASP A 310 12.40 -142.57 REMARK 500 TYR A 315 -19.03 -145.69 REMARK 500 ARG A 316 -3.13 -140.68 REMARK 500 SER B 100 -32.55 71.11 REMARK 500 HIS B 111 59.45 39.23 REMARK 500 GLU B 116 -142.83 56.28 REMARK 500 ALA B 117 -15.32 70.93 REMARK 500 TYR B 139 118.78 -33.22 REMARK 500 ARG B 163 143.64 -172.34 REMARK 500 THR B 189 142.43 -176.48 REMARK 500 CYS B 200 -60.06 -123.35 REMARK 500 ARG B 316 -20.16 -145.02 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 309 ASP A 310 -144.52 REMARK 500 PRO C 7 ARG C 8 -144.47 REMARK 500 PRO D 7 ARG D 8 -137.91 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 ARG A 75 0.12 SIDE CHAIN REMARK 500 ARG A 77 0.10 SIDE CHAIN REMARK 500 ARG A 174 0.09 SIDE CHAIN 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 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 CYS A 200 SG 107.8 REMARK 620 3 CYS A 221 SG 116.7 116.2 REMARK 620 4 CYS A 224 SG 97.7 113.9 103.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 195 SG REMARK 620 2 CYS B 200 SG 118.1 REMARK 620 3 CYS B 221 SG 104.9 112.0 REMARK 620 4 CYS B 224 SG 88.2 126.6 103.2 REMARK 620 N 1 2 3 DBREF 9VH0 A 54 355 UNP Q8IXJ6 SIR2_HUMAN 54 355 DBREF 9VH0 B 54 355 UNP Q8IXJ6 SIR2_HUMAN 54 355 DBREF 9VH0 C 6 11 UNP P68431 H31_HUMAN 16 21 DBREF 9VH0 D 6 11 UNP P68431 H31_HUMAN 16 21 SEQADV 9VH0 ALA A 187 UNP Q8IXJ6 HIS 187 ENGINEERED MUTATION SEQADV 9VH0 ALA B 187 UNP Q8IXJ6 HIS 187 ENGINEERED MUTATION SEQRES 1 A 302 GLN LYS GLU ARG LEU LEU ASP GLU LEU THR LEU GLU GLY SEQRES 2 A 302 VAL ALA ARG TYR MET GLN SER GLU ARG CYS ARG ARG VAL SEQRES 3 A 302 ILE CYS LEU VAL GLY ALA GLY ILE SER THR SER ALA GLY SEQRES 4 A 302 ILE PRO ASP PHE ARG SER PRO SER THR GLY LEU TYR ASP SEQRES 5 A 302 ASN LEU GLU LYS TYR HIS LEU PRO TYR PRO GLU ALA ILE SEQRES 6 A 302 PHE GLU ILE SER TYR PHE LYS LYS HIS PRO GLU PRO PHE SEQRES 7 A 302 PHE ALA LEU ALA LYS GLU LEU TYR PRO GLY GLN PHE LYS SEQRES 8 A 302 PRO THR ILE CYS HIS TYR PHE MET ARG LEU LEU LYS ASP SEQRES 9 A 302 LYS GLY LEU LEU LEU ARG CYS TYR THR GLN ASN ILE ASP SEQRES 10 A 302 THR LEU GLU ARG ILE ALA GLY LEU GLU GLN GLU ASP LEU SEQRES 11 A 302 VAL GLU ALA ALA GLY THR PHE TYR THR SER HIS CYS VAL SEQRES 12 A 302 SER ALA SER CYS ARG HIS GLU TYR PRO LEU SER TRP MET SEQRES 13 A 302 LYS GLU LYS ILE PHE SER GLU VAL THR PRO LYS CYS GLU SEQRES 14 A 302 ASP CYS GLN SER LEU VAL LYS PRO ASP ILE VAL PHE PHE SEQRES 15 A 302 GLY GLU SER LEU PRO ALA ARG PHE PHE SER CYS MET GLN SEQRES 16 A 302 SER ASP PHE LEU LYS VAL ASP LEU LEU LEU VAL MET GLY SEQRES 17 A 302 THR SER LEU GLN VAL GLN PRO PHE ALA SER LEU ILE SER SEQRES 18 A 302 LYS ALA PRO LEU SER THR PRO ARG LEU LEU ILE ASN LYS SEQRES 19 A 302 GLU LYS ALA GLY GLN SER ASP PRO PHE LEU GLY MET ILE SEQRES 20 A 302 MET GLY LEU GLY GLY GLY MET ASP PHE ASP SER LYS LYS SEQRES 21 A 302 ALA TYR ARG ASP VAL ALA TRP LEU GLY GLU CYS ASP GLN SEQRES 22 A 302 GLY CYS LEU ALA LEU ALA GLU LEU LEU GLY TRP LYS LYS SEQRES 23 A 302 GLU LEU GLU ASP LEU VAL ARG ARG GLU HIS ALA SER ILE SEQRES 24 A 302 ASP ALA GLN SEQRES 1 B 302 GLN LYS GLU ARG LEU LEU ASP GLU LEU THR LEU GLU GLY SEQRES 2 B 302 VAL ALA ARG TYR MET GLN SER GLU ARG CYS ARG ARG VAL SEQRES 3 B 302 ILE CYS LEU VAL GLY ALA GLY ILE SER THR SER ALA GLY SEQRES 4 B 302 ILE PRO ASP PHE ARG SER PRO SER THR GLY LEU TYR ASP SEQRES 5 B 302 ASN LEU GLU LYS TYR HIS LEU PRO TYR PRO GLU ALA ILE SEQRES 6 B 302 PHE GLU ILE SER TYR PHE LYS LYS HIS PRO GLU PRO PHE SEQRES 7 B 302 PHE ALA LEU ALA LYS GLU LEU TYR PRO GLY GLN PHE LYS SEQRES 8 B 302 PRO THR ILE CYS HIS TYR PHE MET ARG LEU LEU LYS ASP SEQRES 9 B 302 LYS GLY LEU LEU LEU ARG CYS TYR THR GLN ASN ILE ASP SEQRES 10 B 302 THR LEU GLU ARG ILE ALA GLY LEU GLU GLN GLU ASP LEU SEQRES 11 B 302 VAL GLU ALA ALA GLY THR PHE TYR THR SER HIS CYS VAL SEQRES 12 B 302 SER ALA SER CYS ARG HIS GLU TYR PRO LEU SER TRP MET SEQRES 13 B 302 LYS GLU LYS ILE PHE SER GLU VAL THR PRO LYS CYS GLU SEQRES 14 B 302 ASP CYS GLN SER LEU VAL LYS PRO ASP ILE VAL PHE PHE SEQRES 15 B 302 GLY GLU SER LEU PRO ALA ARG PHE PHE SER CYS MET GLN SEQRES 16 B 302 SER ASP PHE LEU LYS VAL ASP LEU LEU LEU VAL MET GLY SEQRES 17 B 302 THR SER LEU GLN VAL GLN PRO PHE ALA SER LEU ILE SER SEQRES 18 B 302 LYS ALA PRO LEU SER THR PRO ARG LEU LEU ILE ASN LYS SEQRES 19 B 302 GLU LYS ALA GLY GLN SER ASP PRO PHE LEU GLY MET ILE SEQRES 20 B 302 MET GLY LEU GLY GLY GLY MET ASP PHE ASP SER LYS LYS SEQRES 21 B 302 ALA TYR ARG ASP VAL ALA TRP LEU GLY GLU CYS ASP GLN SEQRES 22 B 302 GLY CYS LEU ALA LEU ALA GLU LEU LEU GLY TRP LYS LYS SEQRES 23 B 302 GLU LEU GLU ASP LEU VAL ARG ARG GLU HIS ALA SER ILE SEQRES 24 B 302 ASP ALA GLN SEQRES 1 C 6 ALA PRO ARG LYS GLN LEU SEQRES 1 D 6 ALA PRO ARG LYS GLN LEU HET NAD A 401 44 HET ZN A 402 1 HET NAD B 401 44 HET ZN B 402 1 HET MYR C 101 15 HET MYR D 101 15 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM ZN ZINC ION HETNAM MYR MYRISTIC ACID FORMUL 5 NAD 2(C21 H27 N7 O14 P2) FORMUL 6 ZN 2(ZN 2+) FORMUL 9 MYR 2(C14 H28 O2) FORMUL 11 HOH *40(H2 O) HELIX 1 AA1 THR A 63 SER A 73 1 11 HELIX 2 AA2 ALA A 85 SER A 88 5 4 HELIX 3 AA3 GLY A 102 ASN A 106 5 5 HELIX 4 AA4 LEU A 107 HIS A 111 5 5 HELIX 5 AA5 TYR A 114 PHE A 119 5 6 HELIX 6 AA6 GLU A 120 HIS A 127 1 8 HELIX 7 AA7 PRO A 128 TYR A 139 1 12 HELIX 8 AA8 THR A 146 LYS A 158 1 13 HELIX 9 AA9 THR A 171 ALA A 176 1 6 HELIX 10 AB1 GLU A 179 GLU A 181 5 3 HELIX 11 AB2 PRO A 205 GLU A 216 1 12 HELIX 12 AB3 PRO A 240 PHE A 251 1 12 HELIX 13 AB4 PHE A 269 ALA A 276 5 8 HELIX 14 AB5 GLU A 323 LEU A 335 1 13 HELIX 15 AB6 TRP A 337 ALA A 354 1 18 HELIX 16 AB7 THR B 63 GLN B 72 1 10 HELIX 17 AB8 ALA B 85 GLY B 92 5 8 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 LEU B 206 PHE B 214 1 9 HELIX 23 AC5 PRO B 240 PHE B 251 1 12 HELIX 24 AC6 PRO B 268 ALA B 270 5 3 HELIX 25 AC7 SER B 271 ALA B 276 1 6 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 ARG A 282 SHEET 1 AA2 3 GLU A 203 TYR A 204 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 VAL B 79 O LEU B 162 SHEET 4 AA3 6 LEU B 256 MET B 260 1 O LEU B 258 N ILE B 80 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 NZ LYS C 9 C1 MYR C 101 1555 1555 1.44 LINK NZ LYS D 9 C1 MYR D 101 1555 1555 1.45 LINK SG CYS A 195 ZN ZN A 402 1555 1555 2.37 LINK SG CYS A 200 ZN ZN A 402 1555 1555 2.34 LINK SG CYS A 221 ZN ZN A 402 1555 1555 2.33 LINK SG CYS A 224 ZN ZN A 402 1555 1555 2.36 LINK SG CYS B 195 ZN ZN B 402 1555 1555 2.35 LINK SG CYS B 200 ZN ZN B 402 1555 1555 2.34 LINK SG CYS B 221 ZN ZN B 402 1555 1555 2.32 LINK SG CYS B 224 ZN ZN B 402 1555 1555 2.36 CISPEP 1 GLN A 267 PRO A 268 0 2.86 CISPEP 2 GLN B 267 PRO B 268 0 -0.37 CRYST1 37.434 48.130 96.194 100.19 91.58 112.17 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 0.026714 0.010884 0.003000 0.00000 SCALE2 0.000000 0.022435 0.004634 0.00000 SCALE3 0.000000 0.000000 0.010619 0.00000 CONECT 1150 4632 CONECT 1180 4632 CONECT 1362 4632 CONECT 1385 4632 CONECT 3361 4677 CONECT 3391 4677 CONECT 3542 4677 CONECT 3565 4677 CONECT 4528 4678 CONECT 4568 4693 CONECT 4588 4589 4590 4591 4610 CONECT 4589 4588 CONECT 4590 4588 CONECT 4591 4588 4592 CONECT 4592 4591 4593 CONECT 4593 4592 4594 4595 CONECT 4594 4593 4599 CONECT 4595 4593 4596 4597 CONECT 4596 4595 CONECT 4597 4595 4598 4599 CONECT 4598 4597 CONECT 4599 4594 4597 4600 CONECT 4600 4599 4601 4609 CONECT 4601 4600 4602 CONECT 4602 4601 4603 CONECT 4603 4602 4604 4609 CONECT 4604 4603 4605 4606 CONECT 4605 4604 CONECT 4606 4604 4607 CONECT 4607 4606 4608 CONECT 4608 4607 4609 CONECT 4609 4600 4603 4608 CONECT 4610 4588 4611 CONECT 4611 4610 4612 4613 4614 CONECT 4612 4611 CONECT 4613 4611 CONECT 4614 4611 4615 CONECT 4615 4614 4616 CONECT 4616 4615 4617 4618 CONECT 4617 4616 4622 CONECT 4618 4616 4619 4620 CONECT 4619 4618 CONECT 4620 4618 4621 4622 CONECT 4621 4620 CONECT 4622 4617 4620 4623 CONECT 4623 4622 4624 4631 CONECT 4624 4623 4625 CONECT 4625 4624 4626 4629 CONECT 4626 4625 4627 4628 CONECT 4627 4626 CONECT 4628 4626 CONECT 4629 4625 4630 CONECT 4630 4629 4631 CONECT 4631 4623 4630 CONECT 4632 1150 1180 1362 1385 CONECT 4633 4634 4635 4636 4655 CONECT 4634 4633 CONECT 4635 4633 CONECT 4636 4633 4637 CONECT 4637 4636 4638 CONECT 4638 4637 4639 4640 CONECT 4639 4638 4644 CONECT 4640 4638 4641 4642 CONECT 4641 4640 CONECT 4642 4640 4643 4644 CONECT 4643 4642 CONECT 4644 4639 4642 4645 CONECT 4645 4644 4646 4654 CONECT 4646 4645 4647 CONECT 4647 4646 4648 CONECT 4648 4647 4649 4654 CONECT 4649 4648 4650 4651 CONECT 4650 4649 CONECT 4651 4649 4652 CONECT 4652 4651 4653 CONECT 4653 4652 4654 CONECT 4654 4645 4648 4653 CONECT 4655 4633 4656 CONECT 4656 4655 4657 4658 4659 CONECT 4657 4656 CONECT 4658 4656 CONECT 4659 4656 4660 CONECT 4660 4659 4661 CONECT 4661 4660 4662 4663 CONECT 4662 4661 4667 CONECT 4663 4661 4664 4665 CONECT 4664 4663 CONECT 4665 4663 4666 4667 CONECT 4666 4665 CONECT 4667 4662 4665 4668 CONECT 4668 4667 4669 4676 CONECT 4669 4668 4670 CONECT 4670 4669 4671 4674 CONECT 4671 4670 4672 4673 CONECT 4672 4671 CONECT 4673 4671 CONECT 4674 4670 4675 CONECT 4675 4674 4676 CONECT 4676 4668 4675 CONECT 4677 3361 3391 3542 3565 CONECT 4678 4528 4679 4680 CONECT 4679 4678 CONECT 4680 4678 4681 CONECT 4681 4680 4682 CONECT 4682 4681 4683 CONECT 4683 4682 4684 CONECT 4684 4683 4685 CONECT 4685 4684 4686 CONECT 4686 4685 4687 CONECT 4687 4686 4688 CONECT 4688 4687 4689 CONECT 4689 4688 4690 CONECT 4690 4689 4691 CONECT 4691 4690 4692 CONECT 4692 4691 CONECT 4693 4568 4694 4695 CONECT 4694 4693 CONECT 4695 4693 4696 CONECT 4696 4695 4697 CONECT 4697 4696 4698 CONECT 4698 4697 4699 CONECT 4699 4698 4700 CONECT 4700 4699 4701 CONECT 4701 4700 4702 CONECT 4702 4701 4703 CONECT 4703 4702 4704 CONECT 4704 4703 4705 CONECT 4705 4704 4706 CONECT 4706 4705 4707 CONECT 4707 4706 MASTER 415 0 6 27 18 0 0 6 4731 4 130 50 END