HEADER HYDROLASE 12-JUN-25 9VG0 TITLE SIRT2 STRUCTURE IN COMPLEX WITH H3K18MYR PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-2; COMPND 3 CHAIN: A; 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 MOL_ID: 2; COMPND 9 MOLECULE: HISTONE H3.1; COMPND 10 CHAIN: C; COMPND 11 SYNONYM: HISTONE H3/A,HISTONE H3/B,HISTONE H3/C,HISTONE H3/D,HISTONE COMPND 12 H3/F,HISTONE H3/H,HISTONE H3/I,HISTONE H3/J,HISTONE H3/K,HISTONE COMPND 13 H3/L; COMPND 14 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 9VG0 1 JRNL REVDAT 2 01-OCT-25 9VG0 1 JRNL REVDAT 1 24-SEP-25 9VG0 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. 1.61 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.61 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 3 NUMBER OF REFLECTIONS : 34572 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) : 0.188 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 1746 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) : 1.61 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.65 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2654 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 142 REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2270 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 174 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.34800 REMARK 3 B22 (A**2) : -0.60600 REMARK 3 B33 (A**2) : 0.67800 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.88000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.106 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.068 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2403 ; 0.013 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2289 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3236 ; 1.903 ; 1.652 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5278 ; 1.490 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 300 ; 6.812 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;31.277 ;21.327 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 407 ;15.832 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;20.290 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 308 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2666 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 538 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 491 ; 0.238 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 43 ; 0.192 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1155 ; 0.171 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 131 ; 0.147 ; 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): 1197 ; 1.390 ; 1.982 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1196 ; 1.388 ; 1.982 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1498 ; 1.993 ; 2.968 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1499 ; 1.993 ; 2.968 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1206 ; 2.168 ; 2.254 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1207 ; 2.167 ; 2.253 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1738 ; 3.226 ; 3.280 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1738 ; 3.226 ; 3.280 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 57 A 355 REMARK 3 RESIDUE RANGE : A 403 A 403 REMARK 3 RESIDUE RANGE : A 404 A 404 REMARK 3 RESIDUE RANGE : A 406 A 406 REMARK 3 RESIDUE RANGE : A 407 A 407 REMARK 3 RESIDUE RANGE : A 408 A 408 REMARK 3 ORIGIN FOR THE GROUP (A): 7.9192 8.4232 19.8146 REMARK 3 T TENSOR REMARK 3 T11: 0.0161 T22: 0.0267 REMARK 3 T33: 0.0233 T12: 0.0033 REMARK 3 T13: -0.0147 T23: -0.0081 REMARK 3 L TENSOR REMARK 3 L11: 0.4599 L22: 0.7318 REMARK 3 L33: 1.1771 L12: -0.0484 REMARK 3 L13: -0.2131 L23: -0.2107 REMARK 3 S TENSOR REMARK 3 S11: -0.0012 S12: 0.0639 S13: -0.0595 REMARK 3 S21: -0.0732 S22: 0.0296 S23: 0.0648 REMARK 3 S31: 0.0164 S32: -0.1475 S33: -0.0284 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 6 C 11 REMARK 3 ORIGIN FOR THE GROUP (A): 7.9710 -3.1763 7.1306 REMARK 3 T TENSOR REMARK 3 T11: 0.1407 T22: 0.1637 REMARK 3 T33: 0.1841 T12: 0.0055 REMARK 3 T13: -0.0315 T23: 0.0258 REMARK 3 L TENSOR REMARK 3 L11: 8.0184 L22: 5.2477 REMARK 3 L33: 3.7947 L12: -4.4496 REMARK 3 L13: 0.4275 L23: 2.9983 REMARK 3 S TENSOR REMARK 3 S11: -0.0851 S12: 0.1184 S13: -0.0071 REMARK 3 S21: 0.2278 S22: 0.0627 S23: 0.0145 REMARK 3 S31: 0.2215 S32: 0.1776 S33: 0.0224 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 9VG0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JUN-25. REMARK 100 THE DEPOSITION ID IS D_1300060603. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL10U2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34600 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.610 REMARK 200 RESOLUTION RANGE LOW (A) : 55.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.61 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 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 (%): 40.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS 8.0, 25% PEG 2000MME, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 36.75200 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 19.0 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 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 SER A 50 REMARK 465 LEU A 51 REMARK 465 GLY A 52 REMARK 465 SER A 53 REMARK 465 GLN A 54 REMARK 465 LYS A 55 REMARK 465 GLU A 56 REMARK 465 GLY A 102 REMARK 465 LEU A 103 REMARK 465 TYR A 104 REMARK 465 ASP A 105 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 GLY A 304 REMARK 465 GLY A 305 REMARK 465 SER A 356 REMARK 465 ALA C 12 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 ASN A 106 CG OD1 ND2 REMARK 470 GLU A 108 CG CD OE1 OE2 REMARK 470 LYS A 109 CG CD CE NZ REMARK 470 HIS A 111 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 112 CG CD1 CD2 REMARK 470 TYR A 114 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PRO A 115 CG CD REMARK 470 GLU A 116 CG CD OE1 OE2 REMARK 470 GLU A 120 CG CD OE1 OE2 REMARK 470 LYS A 126 CG CD CE NZ REMARK 470 GLU A 137 CG CD OE1 OE2 REMARK 470 GLU A 211 CG CD OE1 OE2 REMARK 470 PHE A 214 CG CD1 CD2 CE1 CE2 CZ REMARK 470 SER A 215 OG REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 VAL A 217 CG1 CG2 REMARK 470 LEU A 297 CG CD1 CD2 REMARK 470 GLU A 342 CG CD OE1 OE2 REMARK 470 PRO C 7 CG CD REMARK 470 LEU C 11 CG CD1 CD2 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 NZ LYS C 9 O1 MYR C 101 2.07 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 CYS A 224 CB CYS A 224 SG -0.114 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 95 98.28 -67.26 REMARK 500 HIS A 111 51.71 -91.01 REMARK 500 CYS A 200 -71.58 -117.71 REMARK 500 ASP A 231 41.00 -77.00 REMARK 500 PRO A 277 153.02 -49.11 REMARK 500 TYR A 315 -16.59 -144.19 REMARK 500 ARG A 316 -5.68 -147.51 REMARK 500 PRO C 7 106.26 -56.47 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 406 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 CYS A 200 SG 109.8 REMARK 620 3 CYS A 221 SG 115.7 110.2 REMARK 620 4 CYS A 224 SG 94.5 116.4 109.8 REMARK 620 N 1 2 3 DBREF 9VG0 A 50 356 UNP Q8IXJ6 SIR2_HUMAN 50 356 DBREF 9VG0 C 6 12 UNP P68431 H31_HUMAN 16 22 SEQRES 1 A 307 SER LEU GLY SER GLN LYS GLU ARG LEU LEU ASP GLU LEU SEQRES 2 A 307 THR LEU GLU GLY VAL ALA ARG TYR MET GLN SER GLU ARG SEQRES 3 A 307 CYS ARG ARG VAL ILE CYS LEU VAL GLY ALA GLY ILE SER SEQRES 4 A 307 THR SER ALA GLY ILE PRO ASP PHE ARG SER PRO SER THR SEQRES 5 A 307 GLY LEU TYR ASP ASN LEU GLU LYS TYR HIS LEU PRO TYR SEQRES 6 A 307 PRO GLU ALA ILE PHE GLU ILE SER TYR PHE LYS LYS HIS SEQRES 7 A 307 PRO GLU PRO PHE PHE ALA LEU ALA LYS GLU LEU TYR PRO SEQRES 8 A 307 GLY GLN PHE LYS PRO THR ILE CYS HIS TYR PHE MET ARG SEQRES 9 A 307 LEU LEU LYS ASP LYS GLY LEU LEU LEU ARG CYS TYR THR SEQRES 10 A 307 GLN ASN ILE ASP THR LEU GLU ARG ILE ALA GLY LEU GLU SEQRES 11 A 307 GLN GLU ASP LEU VAL GLU ALA HIS GLY THR PHE TYR THR SEQRES 12 A 307 SER HIS CYS VAL SER ALA SER CYS ARG HIS GLU TYR PRO SEQRES 13 A 307 LEU SER TRP MET LYS GLU LYS ILE PHE SER GLU VAL THR SEQRES 14 A 307 PRO LYS CYS GLU ASP CYS GLN SER LEU VAL LYS PRO ASP SEQRES 15 A 307 ILE VAL PHE PHE GLY GLU SER LEU PRO ALA ARG PHE PHE SEQRES 16 A 307 SER CYS MET GLN SER ASP PHE LEU LYS VAL ASP LEU LEU SEQRES 17 A 307 LEU VAL MET GLY THR SER LEU GLN VAL GLN PRO PHE ALA SEQRES 18 A 307 SER LEU ILE SER LYS ALA PRO LEU SER THR PRO ARG LEU SEQRES 19 A 307 LEU ILE ASN LYS GLU LYS ALA GLY GLN SER ASP PRO PHE SEQRES 20 A 307 LEU GLY MET ILE MET GLY LEU GLY GLY GLY MET ASP PHE SEQRES 21 A 307 ASP SER LYS LYS ALA TYR ARG ASP VAL ALA TRP LEU GLY SEQRES 22 A 307 GLU CYS ASP GLN GLY CYS LEU ALA LEU ALA GLU LEU LEU SEQRES 23 A 307 GLY TRP LYS LYS GLU LEU GLU ASP LEU VAL ARG ARG GLU SEQRES 24 A 307 HIS ALA SER ILE ASP ALA GLN SER SEQRES 1 C 7 ALA PRO ARG LYS GLN LEU ALA HET EDO A 401 4 HET EDO A 402 4 HET EDO A 403 4 HET EDO A 404 4 HET EDO A 405 4 HET ZN A 406 1 HET MYR C 101 15 HETNAM EDO 1,2-ETHANEDIOL HETNAM ZN ZINC ION HETNAM MYR MYRISTIC ACID HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 5(C2 H6 O2) FORMUL 8 ZN ZN 2+ FORMUL 9 MYR C14 H28 O2 FORMUL 10 HOH *174(H2 O) HELIX 1 AA1 THR A 63 GLN A 72 1 10 HELIX 2 AA2 ALA A 85 GLY A 92 5 8 HELIX 3 AA3 TYR A 114 PHE A 119 5 6 HELIX 4 AA4 GLU A 120 HIS A 127 1 8 HELIX 5 AA5 PRO A 128 TYR A 139 1 12 HELIX 6 AA6 THR A 146 LYS A 158 1 13 HELIX 7 AA7 THR A 171 ALA A 176 1 6 HELIX 8 AA8 GLU A 179 GLU A 181 5 3 HELIX 9 AA9 LEU A 206 GLU A 216 1 11 HELIX 10 AB1 PRO A 240 PHE A 251 1 12 HELIX 11 AB2 PRO A 268 ALA A 276 5 9 HELIX 12 AB3 GLU A 323 LEU A 335 1 13 HELIX 13 AB4 TRP A 337 ALA A 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 THR A 166 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 256 N ILE A 80 SHEET 5 AA1 6 ARG A 282 ASN A 286 1 O ILE A 285 N VAL A 259 SHEET 6 AA1 6 ASP A 317 LEU A 321 1 O TRP A 320 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 LYS A 229 N HIS A 194 LINK NZ LYS C 9 C1 MYR C 101 1555 1555 1.45 LINK SG CYS A 195 ZN ZN A 406 1555 1555 2.30 LINK SG CYS A 200 ZN ZN A 406 1555 1555 2.27 LINK SG CYS A 221 ZN ZN A 406 1555 1555 2.35 LINK SG CYS A 224 ZN ZN A 406 1555 1555 2.37 CISPEP 1 GLN A 267 PRO A 268 0 -4.27 CRYST1 36.152 73.504 55.731 90.00 94.09 90.00 P 1 21 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 0.027661 0.000000 0.001976 0.00000 SCALE2 0.000000 0.013605 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017989 0.00000 CONECT 1072 2338 CONECT 1102 2338 CONECT 1267 2338 CONECT 1290 2338 CONECT 2302 2339 CONECT 2318 2319 2320 CONECT 2319 2318 CONECT 2320 2318 2321 CONECT 2321 2320 CONECT 2322 2323 2324 CONECT 2323 2322 CONECT 2324 2322 2325 CONECT 2325 2324 CONECT 2326 2327 2328 CONECT 2327 2326 CONECT 2328 2326 2329 CONECT 2329 2328 CONECT 2330 2331 2332 CONECT 2331 2330 CONECT 2332 2330 2333 CONECT 2333 2332 CONECT 2334 2335 2336 CONECT 2335 2334 CONECT 2336 2334 2337 CONECT 2337 2336 CONECT 2338 1072 1102 1267 1290 CONECT 2339 2302 2340 2341 CONECT 2340 2339 CONECT 2341 2339 2342 CONECT 2342 2341 2343 CONECT 2343 2342 2344 CONECT 2344 2343 2345 CONECT 2345 2344 2346 CONECT 2346 2345 2347 CONECT 2347 2346 2348 CONECT 2348 2347 2349 CONECT 2349 2348 2350 CONECT 2350 2349 2351 CONECT 2351 2350 2352 CONECT 2352 2351 2353 CONECT 2353 2352 MASTER 393 0 7 13 9 0 0 6 2480 2 41 25 END