HEADER HYDROLASE/HYDROLASE INHIBITOR 22-JAN-19 6NR0 TITLE SIRT2(56-356) WITH COVALENT INTERMEDIATE BETWEEN MECHANISM-BASED TITLE 2 INHIBITOR GLUCOSE-TM-1BETA AND 1'-SH ADP-RIBOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: REGULATORY PROTEIN SIR2 HOMOLOG 2,SIR2-LIKE PROTEIN 2; COMPND 5 EC: 3.5.1.-; COMPND 6 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 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS INHIBITOR, INTERMEDIATE, DEACYLASE, HYDROLASE, HYDROLASE-HYDROLASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.R.PRICE,J.HONG REVDAT 3 11-OCT-23 6NR0 1 REMARK REVDAT 2 27-OCT-21 6NR0 1 JRNL REVDAT 1 22-JAN-20 6NR0 0 JRNL AUTH J.Y.HONG,I.R.PRICE,J.J.BAI,H.LIN JRNL TITL A GLYCOCONJUGATED SIRT2 INHIBITOR WITH AQUEOUS SOLUBILITY JRNL TITL 2 ALLOWS STRUCTURE-BASED DESIGN OF SIRT2 INHIBITORS. JRNL REF ACS CHEM.BIOL. V. 14 1802 2019 JRNL REFN ESSN 1554-8937 JRNL PMID 31373792 JRNL DOI 10.1021/ACSCHEMBIO.9B00384 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 24105 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.840 REMARK 3 FREE R VALUE TEST SET COUNT : 1889 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 63.6900 - 5.7600 0.97 1865 160 0.2143 0.2298 REMARK 3 2 5.7600 - 4.5700 0.97 1803 159 0.1841 0.2197 REMARK 3 3 4.5700 - 3.9900 0.97 1832 151 0.1777 0.1968 REMARK 3 4 3.9900 - 3.6300 0.96 1769 151 0.2055 0.2155 REMARK 3 5 3.6300 - 3.3700 0.96 1797 149 0.2238 0.2738 REMARK 3 6 3.3700 - 3.1700 0.95 1764 151 0.2481 0.3046 REMARK 3 7 3.1700 - 3.0100 0.94 1747 155 0.2514 0.3014 REMARK 3 8 3.0100 - 2.8800 0.93 1702 154 0.2533 0.2837 REMARK 3 9 2.8800 - 2.7700 0.90 1645 145 0.2493 0.2895 REMARK 3 10 2.7700 - 2.6700 0.89 1651 138 0.2537 0.3488 REMARK 3 11 2.6700 - 2.5900 0.84 1593 128 0.2680 0.3250 REMARK 3 12 2.5900 - 2.5200 0.83 1524 123 0.2901 0.3967 REMARK 3 13 2.5200 - 2.4500 0.83 1524 125 0.3015 0.3572 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.356 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.165 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 4934 REMARK 3 ANGLE : 1.340 6659 REMARK 3 CHIRALITY : 0.278 712 REMARK 3 PLANARITY : 0.007 841 REMARK 3 DIHEDRAL : 25.061 1881 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN 'A' AND (RESID 57 THROUGH 180 OR REMARK 3 RESID 182 THROUGH 291 OR RESID 304 REMARK 3 THROUGH 339 OR RESID 341 THROUGH 355 OR REMARK 3 RESID 401 OR (RESID 403 AND (NAME N OR REMARK 3 NAME C OR NAME O OR NAME C1 OR NAME C10 REMARK 3 OR NAME C11 OR NAME C12 OR NAME C13 OR REMARK 3 NAME C14 OR NAME C15 OR NAME C16 OR NAME REMARK 3 C2 OR NAME C20 OR NAME C21 OR NAME C22 OR REMARK 3 NAME C23 OR NAME C24 OR NAME C25 OR NAME REMARK 3 C26 OR NAME C27 OR NAME C28 OR NAME C3 OR REMARK 3 NAME C4 OR NAME C5 OR NAME C6 OR NAME C7 REMARK 3 OR NAME C8 OR NAME C9 OR NAME N1 OR NAME REMARK 3 N5 OR NAME O4 )) OR RESID 404)) REMARK 3 SELECTION : (CHAIN 'B' AND (RESID 57 THROUGH 180 OR REMARK 3 RESID 182 THROUGH 291 OR RESID 304 REMARK 3 THROUGH 339 OR RESID 341 THROUGH 355 OR REMARK 3 RESID 401 OR (RESID 403 AND (NAME N OR REMARK 3 NAME C OR NAME O OR NAME C1 OR NAME C10 REMARK 3 OR NAME C11 OR NAME C12 OR NAME C13 OR REMARK 3 NAME C14 OR NAME C15 OR NAME C16 OR NAME REMARK 3 C2 OR NAME C20 OR NAME C21 OR NAME C22 OR REMARK 3 NAME C23 OR NAME C24 OR NAME C25 OR NAME REMARK 3 C26 OR NAME C27 OR NAME C28 OR NAME C3 OR REMARK 3 NAME C4 OR NAME C5 OR NAME C6 OR NAME C7 REMARK 3 OR NAME C8 OR NAME C9 OR NAME N1 OR NAME REMARK 3 N5 OR NAME O4 )) OR RESID 404)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6NR0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000239131. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9765 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25380 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 63.693 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.03585 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.38840 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.060 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 (%): 55.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MIXED SOLUTION OF 0.44 MM PROTEIN (IN REMARK 280 BUFFER OF 20 MM TRIS/HCL PH 7.5, 160 MM NACL) 2.5 MM NAD+, 2.5 REMARK 280 MM GLUCOSE-TM-1BETA WITH AN EQUAL VOLUME OF WELL SOLUTION OF 2 M REMARK 280 (NH4)2SO4, 80 MM NA ACETATE/HCL PH 5.0, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z+1/2 REMARK 290 4555 -X+1/2,Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 35.29797 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.42000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 56.93000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.29797 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.42000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 56.93000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 38 REMARK 465 ASP A 39 REMARK 465 PHE A 40 REMARK 465 LEU A 41 REMARK 465 ARG A 42 REMARK 465 ASN A 43 REMARK 465 LEU A 44 REMARK 465 PHE A 45 REMARK 465 SER A 46 REMARK 465 GLN A 47 REMARK 465 THR A 48 REMARK 465 LEU A 49 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 SER A 293 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 SER A 356 REMARK 465 MET B 38 REMARK 465 ASP B 39 REMARK 465 PHE B 40 REMARK 465 LEU B 41 REMARK 465 ARG B 42 REMARK 465 ASN B 43 REMARK 465 LEU B 44 REMARK 465 PHE B 45 REMARK 465 SER B 46 REMARK 465 GLN B 47 REMARK 465 THR B 48 REMARK 465 LEU B 49 REMARK 465 SER B 50 REMARK 465 LEU B 51 REMARK 465 GLY B 52 REMARK 465 SER B 53 REMARK 465 GLN B 54 REMARK 465 LYS B 55 REMARK 465 GLU B 56 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 SER B 356 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 HD1 HIS A 187 HO3N KXG A 403 1.22 REMARK 500 HD1 HIS A 187 O3D KXG A 403 1.33 REMARK 500 OD1 ASP A 95 HG SER A 98 1.44 REMARK 500 HG SER A 207 O HOH A 502 1.45 REMARK 500 HZ2 LYS A 312 O HOH A 505 1.49 REMARK 500 O HOH A 522 O HOH A 535 1.95 REMARK 500 O HOH A 530 O HOH B 555 2.06 REMARK 500 ND1 HIS A 187 O3D KXG A 403 2.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU B 74 HZ2 LYS B 210 4545 1.56 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 ARG A 57 70.62 48.76 REMARK 500 SER A 100 -57.19 76.80 REMARK 500 CYS A 200 -69.32 -104.46 REMARK 500 GLN A 225 18.49 59.39 REMARK 500 ASP A 231 44.55 -80.37 REMARK 500 TYR A 315 -27.04 -145.66 REMARK 500 ALA A 354 35.30 -90.34 REMARK 500 SER B 100 -55.09 80.57 REMARK 500 CYS B 200 -74.73 -108.13 REMARK 500 PRO B 230 150.27 -49.06 REMARK 500 GLN B 292 -161.87 -78.68 REMARK 500 GLN B 292 -162.38 -78.09 REMARK 500 TYR B 315 -26.13 -146.40 REMARK 500 ASP B 353 30.35 -72.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 565 DISTANCE = 6.47 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 KXJ A 402 REMARK 610 KXJ B 402 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 CYS A 200 SG 109.3 REMARK 620 3 CYS A 221 SG 121.2 117.6 REMARK 620 4 CYS A 224 SG 87.4 101.2 114.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 168 OD1 REMARK 620 2 KXG B 403 O2N 104.5 REMARK 620 3 KXG B 403 O3D 137.5 88.0 REMARK 620 4 HOH B 554 O 111.7 141.9 73.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 195 SG REMARK 620 2 CYS B 200 SG 98.1 REMARK 620 3 CYS B 221 SG 135.5 98.2 REMARK 620 4 CYS B 224 SG 101.3 94.2 118.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 405 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 288 OE2 REMARK 620 2 HOH B 501 O 55.2 REMARK 620 N 1 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residues KXJ A 402 and KXG A REMARK 800 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residues KXJ B 402 and KXG B REMARK 800 403 DBREF 6NR0 A 38 356 UNP Q8IXJ6 SIR2_HUMAN 1 319 DBREF 6NR0 B 38 356 UNP Q8IXJ6 SIR2_HUMAN 1 319 SEQRES 1 A 319 MET ASP PHE LEU ARG ASN LEU PHE SER GLN THR LEU SER SEQRES 2 A 319 LEU GLY SER GLN LYS GLU ARG LEU LEU ASP GLU LEU THR SEQRES 3 A 319 LEU GLU GLY VAL ALA ARG TYR MET GLN SER GLU ARG CYS SEQRES 4 A 319 ARG ARG VAL ILE CYS LEU VAL GLY ALA GLY ILE SER THR SEQRES 5 A 319 SER ALA GLY ILE PRO ASP PHE ARG SER PRO SER THR GLY SEQRES 6 A 319 LEU TYR ASP ASN LEU GLU LYS TYR HIS LEU PRO TYR PRO SEQRES 7 A 319 GLU ALA ILE PHE GLU ILE SER TYR PHE LYS LYS HIS PRO SEQRES 8 A 319 GLU PRO PHE PHE ALA LEU ALA LYS GLU LEU TYR PRO GLY SEQRES 9 A 319 GLN PHE LYS PRO THR ILE CYS HIS TYR PHE MET ARG LEU SEQRES 10 A 319 LEU LYS ASP LYS GLY LEU LEU LEU ARG CYS TYR THR GLN SEQRES 11 A 319 ASN ILE ASP THR LEU GLU ARG ILE ALA GLY LEU GLU GLN SEQRES 12 A 319 GLU ASP LEU VAL GLU ALA HIS GLY THR PHE TYR THR SER SEQRES 13 A 319 HIS CYS VAL SER ALA SER CYS ARG HIS GLU TYR PRO LEU SEQRES 14 A 319 SER TRP MET LYS GLU LYS ILE PHE SER GLU VAL THR PRO SEQRES 15 A 319 LYS CYS GLU ASP CYS GLN SER LEU VAL LYS PRO ASP ILE SEQRES 16 A 319 VAL PHE PHE GLY GLU SER LEU PRO ALA ARG PHE PHE SER SEQRES 17 A 319 CYS MET GLN SER ASP PHE LEU LYS VAL ASP LEU LEU LEU SEQRES 18 A 319 VAL MET GLY THR SER LEU GLN VAL GLN PRO PHE ALA SER SEQRES 19 A 319 LEU ILE SER LYS ALA PRO LEU SER THR PRO ARG LEU LEU SEQRES 20 A 319 ILE ASN LYS GLU LYS ALA GLY GLN SER ASP PRO PHE LEU SEQRES 21 A 319 GLY MET ILE MET GLY LEU GLY GLY GLY MET ASP PHE ASP SEQRES 22 A 319 SER LYS LYS ALA TYR ARG ASP VAL ALA TRP LEU GLY GLU SEQRES 23 A 319 CYS ASP GLN GLY CYS LEU ALA LEU ALA GLU LEU LEU GLY SEQRES 24 A 319 TRP LYS LYS GLU LEU GLU ASP LEU VAL ARG ARG GLU HIS SEQRES 25 A 319 ALA SER ILE ASP ALA GLN SER SEQRES 1 B 319 MET ASP PHE LEU ARG ASN LEU PHE SER GLN THR LEU SER SEQRES 2 B 319 LEU GLY SER GLN LYS GLU ARG LEU LEU ASP GLU LEU THR SEQRES 3 B 319 LEU GLU GLY VAL ALA ARG TYR MET GLN SER GLU ARG CYS SEQRES 4 B 319 ARG ARG VAL ILE CYS LEU VAL GLY ALA GLY ILE SER THR SEQRES 5 B 319 SER ALA GLY ILE PRO ASP PHE ARG SER PRO SER THR GLY SEQRES 6 B 319 LEU TYR ASP ASN LEU GLU LYS TYR HIS LEU PRO TYR PRO SEQRES 7 B 319 GLU ALA ILE PHE GLU ILE SER TYR PHE LYS LYS HIS PRO SEQRES 8 B 319 GLU PRO PHE PHE ALA LEU ALA LYS GLU LEU TYR PRO GLY SEQRES 9 B 319 GLN PHE LYS PRO THR ILE CYS HIS TYR PHE MET ARG LEU SEQRES 10 B 319 LEU LYS ASP LYS GLY LEU LEU LEU ARG CYS TYR THR GLN SEQRES 11 B 319 ASN ILE ASP THR LEU GLU ARG ILE ALA GLY LEU GLU GLN SEQRES 12 B 319 GLU ASP LEU VAL GLU ALA HIS GLY THR PHE TYR THR SER SEQRES 13 B 319 HIS CYS VAL SER ALA SER CYS ARG HIS GLU TYR PRO LEU SEQRES 14 B 319 SER TRP MET LYS GLU LYS ILE PHE SER GLU VAL THR PRO SEQRES 15 B 319 LYS CYS GLU ASP CYS GLN SER LEU VAL LYS PRO ASP ILE SEQRES 16 B 319 VAL PHE PHE GLY GLU SER LEU PRO ALA ARG PHE PHE SER SEQRES 17 B 319 CYS MET GLN SER ASP PHE LEU LYS VAL ASP LEU LEU LEU SEQRES 18 B 319 VAL MET GLY THR SER LEU GLN VAL GLN PRO PHE ALA SER SEQRES 19 B 319 LEU ILE SER LYS ALA PRO LEU SER THR PRO ARG LEU LEU SEQRES 20 B 319 ILE ASN LYS GLU LYS ALA GLY GLN SER ASP PRO PHE LEU SEQRES 21 B 319 GLY MET ILE MET GLY LEU GLY GLY GLY MET ASP PHE ASP SEQRES 22 B 319 SER LYS LYS ALA TYR ARG ASP VAL ALA TRP LEU GLY GLU SEQRES 23 B 319 CYS ASP GLN GLY CYS LEU ALA LEU ALA GLU LEU LEU GLY SEQRES 24 B 319 TRP LYS LYS GLU LEU GLU ASP LEU VAL ARG ARG GLU HIS SEQRES 25 B 319 ALA SER ILE ASP ALA GLN SER HET ZN A 401 1 HET KXJ A 402 34 HET KXG A 403 56 HET NA A 404 1 HET NA A 405 1 HET SO4 A 406 5 HET GOL A 407 12 HET ZN B 401 1 HET KXJ B 402 35 HET KXG B 403 56 HET NA B 404 1 HET NA B 405 1 HET SO4 B 406 5 HET GOL B 407 14 HET GOL B 408 12 HET GOL B 409 12 HETNAM ZN ZINC ION HETNAM KXJ N~2~-[3-(2-HYDROXYETHOXY)PROPANOYL]-N-PHENYL-N~6~- HETNAM 2 KXJ TETRADECANETHIOYL-L-LYSINAMIDE HETNAM KXG [[(2~{R},3~{S},4~{R},5~{R})-5-(6-AMINOPURIN-9-YL)-3,4- HETNAM 2 KXG BIS(OXIDANYL)OXOLAN-2-YL]METHOXY-OXIDANYL-PHOSPHORYL] HETNAM 3 KXG [(3~{S},4~{R},5~{R})-3,4-BIS(OXIDANYL)-5-SULFANYL- HETNAM 4 KXG OXOLAN-2-YL]METHYL HYDROGEN PHOSPHATE HETNAM NA SODIUM ION HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ZN 2(ZN 2+) FORMUL 4 KXJ 2(C31 H53 N3 O4 S) FORMUL 5 KXG 2(C15 H23 N5 O13 P2 S) FORMUL 6 NA 4(NA 1+) FORMUL 8 SO4 2(O4 S 2-) FORMUL 9 GOL 4(C3 H8 O3) FORMUL 19 HOH *134(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 GLY A 102 HIS A 111 5 10 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 SER A 215 1 10 HELIX 11 AB2 PRO A 240 VAL A 254 1 15 HELIX 12 AB3 SER A 271 ALA A 276 1 6 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 LEU B 103 HIS B 111 5 9 HELIX 18 AB9 TYR B 114 PHE B 119 5 6 HELIX 19 AC1 GLU B 120 HIS B 127 1 8 HELIX 20 AC2 PRO B 128 TYR B 139 1 12 HELIX 21 AC3 THR B 146 LYS B 158 1 13 HELIX 22 AC4 THR B 171 ALA B 176 1 6 HELIX 23 AC5 GLU B 179 GLU B 181 5 3 HELIX 24 AC6 LEU B 206 SER B 215 1 10 HELIX 25 AC7 PRO B 240 VAL B 254 1 15 HELIX 26 AC8 SER B 271 ALA B 276 1 6 HELIX 27 AC9 GLU B 323 LEU B 335 1 13 HELIX 28 AD1 TRP B 337 ASP B 353 1 17 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 LEU A 257 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 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 CYS B 164 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 256 N ILE B 80 SHEET 5 AA3 6 ARG B 282 ASN B 286 1 O LEU B 283 N LEU B 257 SHEET 6 AA3 6 ASP B 317 LEU B 321 1 O TRP B 320 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 ASP B 231 N THR B 192 LINK C6 KXJ A 402 O2D KXG A 403 1555 1555 1.45 LINK C6 KXJ B 402 O2D KXG B 403 1555 1555 1.46 LINK SG CYS A 195 ZN ZN A 401 1555 1555 2.34 LINK SG CYS A 200 ZN ZN A 401 1555 1555 2.32 LINK SG CYS A 221 ZN ZN A 401 1555 1555 2.34 LINK SG CYS A 224 ZN ZN A 401 1555 1555 2.32 LINK OE1 GLU A 288 NA NA A 404 1555 1555 2.34 LINK OD1 ASN B 168 NA NA B 404 1555 1555 2.72 LINK SG CYS B 195 ZN ZN B 401 1555 1555 2.33 LINK SG CYS B 200 ZN ZN B 401 1555 1555 2.33 LINK SG CYS B 221 ZN ZN B 401 1555 1555 2.30 LINK SG CYS B 224 ZN ZN B 401 1555 1555 2.32 LINK OE2 GLU B 288 NA NA B 405 1555 1555 2.24 LINK O2N KXG B 403 NA NA B 404 1555 1555 2.68 LINK O3D KXG B 403 NA NA B 404 1555 1555 2.97 LINK NA NA B 404 O HOH B 554 1555 1555 2.85 LINK NA NA B 405 O HOH B 501 1555 1555 2.48 CISPEP 1 GLN A 267 PRO A 268 0 5.29 CISPEP 2 GLN B 267 PRO B 268 0 9.63 SITE 1 AC1 4 CYS A 195 CYS A 200 CYS A 221 CYS A 224 SITE 1 AC2 2 GLU A 288 KXG A 403 SITE 1 AC3 2 GLY A 306 ASP A 308 SITE 1 AC4 3 ARG A 78 LEU A 162 LYS A 253 SITE 1 AC5 2 TRP A 320 LEU A 321 SITE 1 AC6 4 CYS B 195 CYS B 200 CYS B 221 CYS B 224 SITE 1 AC7 6 ALA B 85 PHE B 96 GLN B 167 ASN B 168 SITE 2 AC7 6 KXG B 403 HOH B 554 SITE 1 AC8 3 GLU B 288 KXG B 403 HOH B 501 SITE 1 AC9 7 GLN A 292 HOH A 531 ARG B 97 TYR B 104 SITE 2 AC9 7 GLU B 116 GLN B 265 HOH B 524 SITE 1 AD1 2 TRP B 320 LEU B 321 SITE 1 AD2 4 GLU B 333 GLY B 336 LYS B 338 LYS B 339 SITE 1 AD3 32 GLY A 84 ALA A 85 GLY A 86 THR A 89 SITE 2 AD3 32 ASP A 95 PHE A 96 ARG A 97 PHE A 119 SITE 3 AD3 32 LEU A 138 PRO A 140 GLN A 167 HIS A 187 SITE 4 AD3 32 ILE A 232 VAL A 233 PHE A 235 GLY A 236 SITE 5 AD3 32 GLU A 237 SER A 238 LEU A 239 GLY A 261 SITE 6 AD3 32 THR A 262 SER A 263 GLN A 267 PRO A 268 SITE 7 AD3 32 ASN A 286 LYS A 287 GLU A 288 GLY A 322 SITE 8 AD3 32 GLU A 323 CYS A 324 NA A 404 HOH A 536 SITE 1 AD4 33 GLY B 84 ALA B 85 GLY B 86 THR B 89 SITE 2 AD4 33 ASP B 95 PHE B 96 ARG B 97 SER B 98 SITE 3 AD4 33 PHE B 119 PHE B 131 LEU B 134 LEU B 138 SITE 4 AD4 33 GLN B 167 HIS B 187 ILE B 232 VAL B 233 SITE 5 AD4 33 PHE B 235 GLY B 236 GLU B 237 GLY B 261 SITE 6 AD4 33 THR B 262 SER B 263 VAL B 266 GLN B 267 SITE 7 AD4 33 PRO B 268 ASN B 286 LYS B 287 GLU B 288 SITE 8 AD4 33 GLY B 322 GLU B 323 CYS B 324 NA B 404 SITE 9 AD4 33 NA B 405 CRYST1 82.310 76.840 114.461 90.00 95.87 90.00 I 1 2 1 8 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 0.012149 0.000000 0.001250 0.00000 SCALE2 0.000000 0.013014 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008783 0.00000