HEADER SIGNALING PROTEIN 25-JAN-18 6FLG TITLE CRYSTAL STRUCTURE OF ZEBRAFISH SIRTUIN 5 IN COMPLEX WITH 3(S)- TITLE 2 (NAPHTHYLTHIO)SUCCINYL-CPS1 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT PROTEIN DEACYLASE SIRTUIN-5, MITOCHONDRIAL; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: REGULATORY PROTEIN SIR2 HOMOLOG 5; COMPND 5 EC: 3.5.1.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 3(S)-(NAPHTHYLTHIO)SUCCINYL-CPS1 PEPTIDE; COMPND 9 CHAIN: C; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: SIRT5, SI:CH211-121A2.1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; 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 SIRTUIN 5, INHIBITOR, DEACYLASE, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.PANNEK,C.STEEGBORN REVDAT 2 17-JAN-24 6FLG 1 LINK REVDAT 1 18-APR-18 6FLG 0 JRNL AUTH D.KALBAS,S.LIEBSCHER,T.NOWAK,M.MELESHIN,M.PANNEK,C.POPP, JRNL AUTH 2 Z.ALHALABI,F.BORDUSA,W.SIPPL,C.STEEGBORN,M.SCHUTKOWSKI JRNL TITL POTENT AND SELECTIVE INHIBITORS OF HUMAN SIRTUIN 5. JRNL REF J. MED. CHEM. V. 61 2460 2018 JRNL REFN ISSN 1520-4804 JRNL PMID 29494161 JRNL DOI 10.1021/ACS.JMEDCHEM.7B01648 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 24278 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) : 0.245 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.311 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1279 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1729 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.08 REMARK 3 BIN R VALUE (WORKING SET) : 0.4920 REMARK 3 BIN FREE R VALUE SET COUNT : 92 REMARK 3 BIN FREE R VALUE : 0.4990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4202 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 56 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 78.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.72000 REMARK 3 B22 (A**2) : 0.72000 REMARK 3 B33 (A**2) : -2.35000 REMARK 3 B12 (A**2) : 0.36000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.480 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.333 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.446 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.622 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4365 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4025 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5906 ; 1.331 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9332 ; 0.958 ; 3.004 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 537 ; 6.663 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 189 ;32.593 ;22.698 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 696 ;15.694 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;11.918 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 631 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4825 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 912 ; 0.001 ; 0.020 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): 2154 ; 3.379 ; 7.878 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2153 ; 3.379 ; 7.877 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2689 ; 5.727 ;11.809 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2690 ; 5.726 ;11.810 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2208 ; 3.034 ; 8.218 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2208 ; 3.034 ; 8.218 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3217 ; 5.127 ;12.200 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4593 ; 8.465 ;91.674 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4594 ; 8.464 ;91.679 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6FLG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1200008515. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUN-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 - 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918400 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25573 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 10.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 11.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.300 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: 4UTV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES 7.7, 20% PEG3350, PH 7.7, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 211.25333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 105.62667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 158.44000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 52.81333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 264.06667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 211.25333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 105.62667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 52.81333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 158.44000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 264.06667 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 537 LIES ON A SPECIAL POSITION. 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 22 REMARK 465 ILE A 23 REMARK 465 ASP A 24 REMARK 465 PRO A 25 REMARK 465 PHE A 26 REMARK 465 THR A 27 REMARK 465 LYS A 28 REMARK 465 MET A 29 REMARK 465 THR A 30 REMARK 465 ARG A 31 REMARK 465 PRO A 32 REMARK 465 SER A 33 REMARK 465 SER A 34 REMARK 465 ARG A 299 REMARK 465 HIS A 300 REMARK 465 GLU A 301 REMARK 465 SER A 302 REMARK 465 GLU A 303 REMARK 465 ALA A 304 REMARK 465 VAL A 305 REMARK 465 GLY B 22 REMARK 465 ILE B 23 REMARK 465 ASP B 24 REMARK 465 PRO B 25 REMARK 465 PHE B 26 REMARK 465 THR B 27 REMARK 465 LYS B 28 REMARK 465 MET B 29 REMARK 465 THR B 30 REMARK 465 ARG B 31 REMARK 465 PRO B 32 REMARK 465 ARG B 299 REMARK 465 HIS B 300 REMARK 465 GLU B 301 REMARK 465 SER B 302 REMARK 465 GLU B 303 REMARK 465 ALA B 304 REMARK 465 VAL B 305 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 67 -44.23 176.97 REMARK 500 ARG A 74 -118.41 40.63 REMARK 500 ALA A 78 -36.93 -38.78 REMARK 500 LEU A 81 -56.16 -127.91 REMARK 500 ALA A 82 47.36 -109.47 REMARK 500 SER A 164 -75.64 -72.13 REMARK 500 ASN A 189 55.76 -109.99 REMARK 500 CYS A 208 -64.24 -93.69 REMARK 500 LEU A 240 122.61 -170.44 REMARK 500 ARG B 74 -130.18 58.31 REMARK 500 ALA B 82 57.23 -98.93 REMARK 500 ASP B 90 65.92 -166.28 REMARK 500 PHE B 158 40.92 -107.49 REMARK 500 ASN B 171 104.46 -163.31 REMARK 500 ARG B 194 53.32 24.75 REMARK 500 CYS B 208 -72.07 -114.91 REMARK 500 HIS B 215 37.62 -83.73 REMARK 500 THR B 246 163.24 171.70 REMARK 500 PHE B 256 -56.88 -120.21 REMARK 500 PRO B 276 156.05 -46.64 REMARK 500 LYS B 282 -78.83 41.35 REMARK 500 GLU C 5 22.20 49.78 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 A 536 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH A 537 DISTANCE = 8.11 ANGSTROMS 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 162 SG REMARK 620 2 CYS A 165 SG 102.2 REMARK 620 3 CYS A 203 SG 101.1 113.5 REMARK 620 4 CYS A 208 SG 105.1 118.8 113.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 162 SG REMARK 620 2 CYS B 165 SG 117.3 REMARK 620 3 CYS B 203 SG 101.7 116.2 REMARK 620 4 CYS B 208 SG 90.7 123.6 102.7 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide GZB C 1 and VAL C 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide LEU C 3 and DQK C 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide DQK C 4 and GLU C 5 DBREF 6FLG A 28 305 UNP Q6DHI5 SIR5_DANRE 28 305 DBREF 6FLG B 28 305 UNP Q6DHI5 SIR5_DANRE 28 305 DBREF 6FLG C 1 8 PDB 6FLG 6FLG 1 8 SEQADV 6FLG GLY A 22 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG ILE A 23 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG ASP A 24 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG PRO A 25 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG PHE A 26 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG THR A 27 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG GLY B 22 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG ILE B 23 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG ASP B 24 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG PRO B 25 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG PHE B 26 UNP Q6DHI5 EXPRESSION TAG SEQADV 6FLG THR B 27 UNP Q6DHI5 EXPRESSION TAG SEQRES 1 A 284 GLY ILE ASP PRO PHE THR LYS MET THR ARG PRO SER SER SEQRES 2 A 284 ASP LEU THR ALA PHE ARG GLU HIS PHE ALA LYS ALA LYS SEQRES 3 A 284 HIS ILE ALA ILE ILE THR GLY ALA GLY VAL SER ALA GLU SEQRES 4 A 284 SER GLY VAL PRO THR PHE ARG GLY PRO GLY GLY PHE TRP SEQRES 5 A 284 ARG LYS TRP GLN ALA GLN ASP LEU ALA THR PRO GLU ALA SEQRES 6 A 284 PHE SER ARG ASP PRO SER LEU VAL TRP GLU PHE TYR HIS SEQRES 7 A 284 TYR ARG ARG GLU VAL MET ARG SER LYS MET PRO ASN PRO SEQRES 8 A 284 ALA HIS LEU ALA ILE ALA GLU CYS GLU ALA ARG LEU GLY SEQRES 9 A 284 GLN GLN GLY ARG SER VAL VAL ILE ILE THR GLN ASN ILE SEQRES 10 A 284 ASP GLU LEU HIS HIS ARG ALA GLY SER LYS HIS VAL TYR SEQRES 11 A 284 GLU ILE HIS GLY SER LEU PHE LYS THR ARG CYS MET SER SEQRES 12 A 284 CYS GLY GLU VAL LYS ALA ASN HIS LYS SER PRO ILE CYS SEQRES 13 A 284 PRO ALA LEU ASP GLY LYS GLY ALA PRO ASP PRO ASN THR SEQRES 14 A 284 LYS GLU ALA ARG ILE PRO VAL GLU LEU LEU PRO ARG CYS SEQRES 15 A 284 GLU ARG LYS SER CYS ASN GLY LEU LEU ARG PRO HIS VAL SEQRES 16 A 284 VAL TRP PHE GLY GLU THR LEU ASP SER ASP ILE LEU THR SEQRES 17 A 284 ALA VAL GLU ARG GLU LEU GLU LYS CYS ASP LEU CYS LEU SEQRES 18 A 284 VAL VAL GLY THR SER SER ILE VAL TYR PRO ALA ALA MET SEQRES 19 A 284 PHE ALA PRO GLN VAL ALA SER ARG GLY VAL PRO VAL ALA SEQRES 20 A 284 GLU PHE ASN MET GLU CYS THR PRO ALA THR GLN ARG PHE SEQRES 21 A 284 LYS TYR HIS PHE GLU GLY PRO CYS GLY SER THR LEU PRO SEQRES 22 A 284 PRO ALA LEU GLU ARG HIS GLU SER GLU ALA VAL SEQRES 1 B 284 GLY ILE ASP PRO PHE THR LYS MET THR ARG PRO SER SER SEQRES 2 B 284 ASP LEU THR ALA PHE ARG GLU HIS PHE ALA LYS ALA LYS SEQRES 3 B 284 HIS ILE ALA ILE ILE THR GLY ALA GLY VAL SER ALA GLU SEQRES 4 B 284 SER GLY VAL PRO THR PHE ARG GLY PRO GLY GLY PHE TRP SEQRES 5 B 284 ARG LYS TRP GLN ALA GLN ASP LEU ALA THR PRO GLU ALA SEQRES 6 B 284 PHE SER ARG ASP PRO SER LEU VAL TRP GLU PHE TYR HIS SEQRES 7 B 284 TYR ARG ARG GLU VAL MET ARG SER LYS MET PRO ASN PRO SEQRES 8 B 284 ALA HIS LEU ALA ILE ALA GLU CYS GLU ALA ARG LEU GLY SEQRES 9 B 284 GLN GLN GLY ARG SER VAL VAL ILE ILE THR GLN ASN ILE SEQRES 10 B 284 ASP GLU LEU HIS HIS ARG ALA GLY SER LYS HIS VAL TYR SEQRES 11 B 284 GLU ILE HIS GLY SER LEU PHE LYS THR ARG CYS MET SER SEQRES 12 B 284 CYS GLY GLU VAL LYS ALA ASN HIS LYS SER PRO ILE CYS SEQRES 13 B 284 PRO ALA LEU ASP GLY LYS GLY ALA PRO ASP PRO ASN THR SEQRES 14 B 284 LYS GLU ALA ARG ILE PRO VAL GLU LEU LEU PRO ARG CYS SEQRES 15 B 284 GLU ARG LYS SER CYS ASN GLY LEU LEU ARG PRO HIS VAL SEQRES 16 B 284 VAL TRP PHE GLY GLU THR LEU ASP SER ASP ILE LEU THR SEQRES 17 B 284 ALA VAL GLU ARG GLU LEU GLU LYS CYS ASP LEU CYS LEU SEQRES 18 B 284 VAL VAL GLY THR SER SER ILE VAL TYR PRO ALA ALA MET SEQRES 19 B 284 PHE ALA PRO GLN VAL ALA SER ARG GLY VAL PRO VAL ALA SEQRES 20 B 284 GLU PHE ASN MET GLU CYS THR PRO ALA THR GLN ARG PHE SEQRES 21 B 284 LYS TYR HIS PHE GLU GLY PRO CYS GLY SER THR LEU PRO SEQRES 22 B 284 PRO ALA LEU GLU ARG HIS GLU SER GLU ALA VAL SEQRES 1 C 8 GZB VAL LEU DQK GLU TYR GLY VAL HET GZB C 1 12 HET DQK C 4 27 HET ZN A 401 1 HET EDO A 402 4 HET DMS B 401 4 HET EPE B 402 15 HET ZN B 403 1 HET EDO B 404 4 HET EDO B 405 4 HETNAM GZB 2-BENZAMIDOETHANOIC ACID HETNAM DQK (2~{S})-4-[[(5~{S})-5-AZANYL-6-OXIDANYLIDENE- HETNAM 2 DQK HEXYL]AMINO]-2-NAPHTHALEN-2-YLSULFANYL-4- HETNAM 3 DQK OXIDANYLIDENE-BUTANOIC ACID HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM DMS DIMETHYL SULFOXIDE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN EDO ETHYLENE GLYCOL HETSYN EPE HEPES FORMUL 3 GZB C9 H9 N O3 FORMUL 3 DQK C20 H24 N2 O4 S FORMUL 4 ZN 2(ZN 2+) FORMUL 5 EDO 3(C2 H6 O2) FORMUL 6 DMS C2 H6 O S FORMUL 7 EPE C8 H18 N2 O4 S FORMUL 11 HOH *56(H2 O) HELIX 1 AA1 ASP A 35 ALA A 46 1 12 HELIX 2 AA2 GLY A 54 GLU A 60 1 7 HELIX 3 AA3 GLN A 77 LEU A 81 5 5 HELIX 4 AA4 THR A 83 ASP A 90 1 8 HELIX 5 AA5 ASP A 90 MET A 105 1 16 HELIX 6 AA6 ASN A 111 GLN A 126 1 16 HELIX 7 AA7 GLU A 140 GLY A 146 1 7 HELIX 8 AA8 CYS A 177 ASP A 181 5 5 HELIX 9 AA9 PRO A 196 LEU A 200 5 5 HELIX 10 AB1 ASP A 224 CYS A 238 1 15 HELIX 11 AB2 PRO A 252 MET A 255 5 4 HELIX 12 AB3 PHE A 256 SER A 262 1 7 HELIX 13 AB4 PRO A 288 LEU A 297 1 10 HELIX 14 AB5 ASP B 35 ALA B 46 1 12 HELIX 15 AB6 GLY B 54 SER B 61 1 8 HELIX 16 AB7 GLN B 77 ALA B 82 1 6 HELIX 17 AB8 THR B 83 ASP B 90 1 8 HELIX 18 AB9 ASP B 90 MET B 105 1 16 HELIX 19 AC1 ASN B 111 GLN B 126 1 16 HELIX 20 AC2 GLU B 140 ALA B 145 1 6 HELIX 21 AC3 ASP B 224 CYS B 238 1 15 HELIX 22 AC4 PRO B 252 MET B 255 5 4 HELIX 23 AC5 PHE B 256 ARG B 263 1 8 HELIX 24 AC6 PRO B 288 GLU B 298 1 11 HELIX 25 AC7 LEU C 3 VAL C 8 5 6 SHEET 1 AA1 6 VAL A 150 GLU A 152 0 SHEET 2 AA1 6 SER A 130 THR A 135 1 N THR A 135 O TYR A 151 SHEET 3 AA1 6 HIS A 48 THR A 53 1 N ILE A 51 O VAL A 132 SHEET 4 AA1 6 LEU A 240 VAL A 244 1 O LEU A 242 N ALA A 50 SHEET 5 AA1 6 VAL A 267 PHE A 270 1 O PHE A 270 N VAL A 243 SHEET 6 AA1 6 TYR A 283 HIS A 284 1 O TYR A 283 N GLU A 269 SHEET 1 AA2 3 VAL A 168 ALA A 170 0 SHEET 2 AA2 3 GLY A 155 CYS A 162 -1 N THR A 160 O LYS A 169 SHEET 3 AA2 3 LEU A 212 VAL A 216 -1 O HIS A 215 N LYS A 159 SHEET 1 AA3 6 VAL B 150 GLU B 152 0 SHEET 2 AA3 6 SER B 130 THR B 135 1 N ILE B 133 O TYR B 151 SHEET 3 AA3 6 HIS B 48 THR B 53 1 N ILE B 51 O VAL B 132 SHEET 4 AA3 6 LEU B 240 VAL B 244 1 O LEU B 242 N ILE B 52 SHEET 5 AA3 6 VAL B 267 ASN B 271 1 O ALA B 268 N VAL B 243 SHEET 6 AA3 6 TYR B 283 GLU B 286 1 O TYR B 283 N GLU B 269 SHEET 1 AA4 3 VAL B 168 ALA B 170 0 SHEET 2 AA4 3 GLY B 155 CYS B 162 -1 N THR B 160 O LYS B 169 SHEET 3 AA4 3 LEU B 212 VAL B 216 -1 O ARG B 213 N ARG B 161 SSBOND 1 CYS A 274 CYS B 274 1555 12554 2.03 LINK C GZB C 1 N VAL C 2 1555 1555 1.33 LINK C LEU C 3 N DQK C 4 1555 1555 1.34 LINK C DQK C 4 N GLU C 5 1555 1555 1.33 LINK SG CYS A 162 ZN ZN A 401 1555 1555 2.33 LINK SG CYS A 165 ZN ZN A 401 1555 1555 2.34 LINK SG CYS A 203 ZN ZN A 401 1555 1555 2.33 LINK SG CYS A 208 ZN ZN A 401 1555 1555 2.32 LINK SG CYS B 162 ZN ZN B 403 1555 1555 2.34 LINK SG CYS B 165 ZN ZN B 403 1555 1555 2.34 LINK SG CYS B 203 ZN ZN B 403 1555 1555 2.35 LINK SG CYS B 208 ZN ZN B 403 1555 1555 2.36 CISPEP 1 SER A 174 PRO A 175 0 -4.52 CISPEP 2 TYR A 251 PRO A 252 0 -0.97 CISPEP 3 SER B 174 PRO B 175 0 1.23 CISPEP 4 TYR B 251 PRO B 252 0 3.11 SITE 1 AC1 4 CYS A 162 CYS A 165 CYS A 203 CYS A 208 SITE 1 AC2 2 ILE A 176 ARG A 202 SITE 1 AC3 3 ALA A 145 ARG B 144 ALA B 145 SITE 1 AC4 12 THR A 229 GLU A 232 ALA B 78 ALA B 82 SITE 2 AC4 12 TYR B 98 ARG B 101 HIS B 154 VAL B 217 SITE 3 AC4 12 TRP B 218 PHE B 219 TYR B 251 EDO B 405 SITE 1 AC5 4 CYS B 162 CYS B 165 CYS B 203 CYS B 208 SITE 1 AC6 3 HIS B 99 GLU B 103 GLY B 182 SITE 1 AC7 3 GLN B 136 ASN B 137 EPE B 402 SITE 1 AC8 9 THR A 222 LEU A 223 LEU A 228 LEU B 228 SITE 2 AC8 9 GLU B 232 MET B 255 GLN B 259 LEU C 3 SITE 3 AC8 9 DQK C 4 SITE 1 AC9 17 THR A 65 TYR A 98 ARG A 101 GLN A 136 SITE 2 AC9 17 ASN A 137 ILE A 138 HIS A 154 VAL A 217 SITE 3 AC9 17 PHE A 219 GLU A 221 TYR A 251 GLN B 259 SITE 4 AC9 17 GZB C 1 VAL C 2 GLU C 5 TYR C 6 SITE 5 AC9 17 GLY C 7 SITE 1 AD1 16 THR A 65 TYR A 98 ARG A 101 GLN A 136 SITE 2 AD1 16 ASN A 137 ILE A 138 HIS A 154 VAL A 217 SITE 3 AD1 16 PHE A 219 GLU A 221 TYR A 251 VAL C 2 SITE 4 AD1 16 LEU C 3 TYR C 6 GLY C 7 VAL C 8 CRYST1 87.000 87.000 316.880 90.00 90.00 120.00 P 65 2 2 24 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 0.011494 0.006636 0.000000 0.00000 SCALE2 0.000000 0.013272 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003156 0.00000