HEADER HYDROLASE 06-OCT-10 3P48 TITLE STRUCTURE OF THE YEAST DUTPASE DUT1 IN COMPLEX WITH DUMPNPP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: DUTPASE, DUTP PYROPHOSPHATASE; COMPND 5 EC: 3.6.1.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BREWER'S YEAST,LAGER BEER YEAST,YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: DUT1, YBR252W, YBR1705; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS TRIMER, BETA BARREL, DUMPPNP PYROPHOSPHATASE, HYDROLASE, KEYWDS 2 PHOSPHOPROTEIN, STRUCTURAL GENOMICS, ONTARIO CENTRE FOR STRUCTURAL KEYWDS 3 PROTEOMICS, OCSP EXPDTA X-RAY DIFFRACTION AUTHOR P.PETIT,A.U.SINGER,E.EVDOKIMOVA,M.KUDRITSKA,A.M.EDWARDS,A.F.YAKUNIN, AUTHOR 2 A.SAVCHENKO,ONTARIO CENTRE FOR STRUCTURAL PROTEOMICS (OCSP) REVDAT 4 06-SEP-23 3P48 1 REMARK LINK REVDAT 3 24-JAN-18 3P48 1 AUTHOR REVDAT 2 10-OCT-12 3P48 1 JRNL VERSN REVDAT 1 27-OCT-10 3P48 0 JRNL AUTH A.TCHIGVINTSEV,A.U.SINGER,R.FLICK,P.PETIT,G.BROWN, JRNL AUTH 2 E.EVDOKIMOVA,A.SAVCHENKO,A.F.YAKUNIN JRNL TITL STRUCTURE AND ACTIVITY OF THE SACCHAROMYCES CEREVISIAE DUTP JRNL TITL 2 PYROPHOSPHATASE DUT1, AN ESSENTIAL HOUSEKEEPING ENZYME. JRNL REF BIOCHEM.J. V. 437 243 2011 JRNL REFN ISSN 0264-6021 JRNL PMID 21548881 JRNL DOI 10.1042/BJ20110304 REMARK 2 REMARK 2 RESOLUTION. 1.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 40218 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 2017 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 28.4777 - 3.5958 0.99 4062 227 0.1568 0.1752 REMARK 3 2 3.5958 - 2.8549 1.00 3902 210 0.1588 0.1860 REMARK 3 3 2.8549 - 2.4943 1.00 3878 210 0.1558 0.2031 REMARK 3 4 2.4943 - 2.2663 1.00 3809 211 0.1399 0.1782 REMARK 3 5 2.2663 - 2.1039 1.00 3842 190 0.1471 0.2010 REMARK 3 6 2.1039 - 1.9799 1.00 3851 168 0.1444 0.1974 REMARK 3 7 1.9799 - 1.8808 0.99 3804 196 0.1465 0.2011 REMARK 3 8 1.8808 - 1.7989 0.98 3735 191 0.1609 0.2213 REMARK 3 9 1.7989 - 1.7297 0.97 3675 217 0.1678 0.2412 REMARK 3 10 1.7297 - 1.6700 0.96 3643 197 0.1714 0.2405 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.89 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 38.12 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.55200 REMARK 3 B22 (A**2) : -1.90190 REMARK 3 B33 (A**2) : 2.45390 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.017 2969 REMARK 3 ANGLE : 1.656 4052 REMARK 3 CHIRALITY : 0.115 489 REMARK 3 PLANARITY : 0.008 501 REMARK 3 DIHEDRAL : 17.299 1151 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -16.1363 23.9835 -18.7383 REMARK 3 T TENSOR REMARK 3 T11: 0.0449 T22: 0.0424 REMARK 3 T33: 0.0382 T12: 0.0030 REMARK 3 T13: -0.0053 T23: 0.0126 REMARK 3 L TENSOR REMARK 3 L11: 0.4998 L22: 0.4653 REMARK 3 L33: 0.3971 L12: 0.0849 REMARK 3 L13: 0.1674 L23: 0.0202 REMARK 3 S TENSOR REMARK 3 S11: 0.0534 S12: 0.0237 S13: -0.0072 REMARK 3 S21: 0.0415 S22: -0.0234 S23: 0.0062 REMARK 3 S31: 0.0432 S32: 0.0516 S33: -0.0244 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3P48 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000061935. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-AUG-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40597 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.670 REMARK 200 RESOLUTION RANGE LOW (A) : 29.430 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : 0.03900 REMARK 200 FOR THE DATA SET : 28.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.23900 REMARK 200 R SYM FOR SHELL (I) : 0.21900 REMARK 200 FOR SHELL : 8.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3F4F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% JEFFAMINE ED-2001, 0.1M HEPES PH7, REMARK 280 3MM MGCL2, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 25.89200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.19050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.43400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.19050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.89200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.43400 REMARK 290 SMTRY3 4 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 MET A 1 REMARK 465 THR A 2 REMARK 465 ALA A 3 REMARK 465 THR A 4 REMARK 465 SER A 5 REMARK 465 ASP A 6 REMARK 465 GLU A 134 REMARK 465 SER A 135 REMARK 465 ALA A 136 REMARK 465 ARG A 137 REMARK 465 GLY A 138 REMARK 465 ALA A 139 REMARK 465 GLY A 140 REMARK 465 GLY A 141 REMARK 465 PHE A 142 REMARK 465 GLY A 143 REMARK 465 SER A 144 REMARK 465 THR A 145 REMARK 465 GLY A 146 REMARK 465 ASN A 147 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ALA B 3 REMARK 465 THR B 4 REMARK 465 SER B 5 REMARK 465 ASP B 6 REMARK 465 GLU B 133 REMARK 465 GLU B 134 REMARK 465 SER B 135 REMARK 465 ALA B 136 REMARK 465 ARG B 137 REMARK 465 GLY B 138 REMARK 465 ALA B 139 REMARK 465 GLY B 140 REMARK 465 GLY B 141 REMARK 465 PHE B 142 REMARK 465 GLY B 143 REMARK 465 SER B 144 REMARK 465 THR B 145 REMARK 465 GLY B 146 REMARK 465 ASN B 147 REMARK 465 MET C 1 REMARK 465 THR C 2 REMARK 465 ALA C 3 REMARK 465 THR C 4 REMARK 465 SER C 5 REMARK 465 GLU C 134 REMARK 465 SER C 135 REMARK 465 ALA C 136 REMARK 465 ARG C 137 REMARK 465 GLY C 138 REMARK 465 ALA C 139 REMARK 465 GLY C 140 REMARK 465 GLY C 141 REMARK 465 PHE C 142 REMARK 465 GLY C 143 REMARK 465 SER C 144 REMARK 465 THR C 145 REMARK 465 GLY C 146 REMARK 465 ASN C 147 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 O SER C 69 O HOH C 311 2.04 REMARK 500 O ASP C 130 O HOH C 277 2.19 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 ALA A 81 -125.43 50.33 REMARK 500 ALA B 81 -124.84 47.76 REMARK 500 LYS C 23 -62.17 -92.17 REMARK 500 ALA C 81 -123.77 45.82 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 MG A 149 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DUP A 148 O2G REMARK 620 2 DUP A 148 O1A 96.4 REMARK 620 3 DUP A 148 O2B 92.0 93.1 REMARK 620 4 HOH A 168 O 177.1 85.8 85.9 REMARK 620 5 HOH A 246 O 90.9 88.0 176.8 91.2 REMARK 620 6 HOH A 247 O 91.0 172.3 89.0 86.9 89.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 150 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DUP B 148 O1A REMARK 620 2 DUP B 148 O2B 90.6 REMARK 620 3 DUP B 148 O2G 98.5 91.4 REMARK 620 4 HOH B 248 O 172.4 92.1 88.5 REMARK 620 5 HOH B 249 O 84.8 88.8 176.6 88.2 REMARK 620 6 HOH B 250 O 87.2 177.7 88.1 90.1 91.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 148 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DUP B 149 O1A REMARK 620 2 DUP B 149 O2B 74.7 REMARK 620 3 HOH B 276 O 80.4 67.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP A 148 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 149 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP B 148 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP B 149 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 148 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3F4F RELATED DB: PDB REMARK 900 DUT1 IN COMPLEX WITH DUMP REMARK 900 RELATED ID: 3HHQ RELATED DB: PDB DBREF 3P48 A 1 147 UNP P33317 DUT_YEAST 1 147 DBREF 3P48 B 1 147 UNP P33317 DUT_YEAST 1 147 DBREF 3P48 C 1 147 UNP P33317 DUT_YEAST 1 147 SEQRES 1 A 147 MET THR ALA THR SER ASP LYS VAL LEU LYS ILE GLN LEU SEQRES 2 A 147 ARG SER ALA SER ALA THR VAL PRO THR LYS GLY SER ALA SEQRES 3 A 147 THR ALA ALA GLY TYR ASP ILE TYR ALA SER GLN ASP ILE SEQRES 4 A 147 THR ILE PRO ALA MET GLY GLN GLY MET VAL SER THR ASP SEQRES 5 A 147 ILE SER PHE THR VAL PRO VAL GLY THR TYR GLY ARG ILE SEQRES 6 A 147 ALA PRO ARG SER GLY LEU ALA VAL LYS ASN GLY ILE GLN SEQRES 7 A 147 THR GLY ALA GLY VAL VAL ASP ARG ASP TYR THR GLY GLU SEQRES 8 A 147 VAL LYS VAL VAL LEU PHE ASN HIS SER GLN ARG ASP PHE SEQRES 9 A 147 ALA ILE LYS LYS GLY ASP ARG VAL ALA GLN LEU ILE LEU SEQRES 10 A 147 GLU LYS ILE VAL ASP ASP ALA GLN ILE VAL VAL VAL ASP SEQRES 11 A 147 SER LEU GLU GLU SER ALA ARG GLY ALA GLY GLY PHE GLY SEQRES 12 A 147 SER THR GLY ASN SEQRES 1 B 147 MET THR ALA THR SER ASP LYS VAL LEU LYS ILE GLN LEU SEQRES 2 B 147 ARG SER ALA SER ALA THR VAL PRO THR LYS GLY SER ALA SEQRES 3 B 147 THR ALA ALA GLY TYR ASP ILE TYR ALA SER GLN ASP ILE SEQRES 4 B 147 THR ILE PRO ALA MET GLY GLN GLY MET VAL SER THR ASP SEQRES 5 B 147 ILE SER PHE THR VAL PRO VAL GLY THR TYR GLY ARG ILE SEQRES 6 B 147 ALA PRO ARG SER GLY LEU ALA VAL LYS ASN GLY ILE GLN SEQRES 7 B 147 THR GLY ALA GLY VAL VAL ASP ARG ASP TYR THR GLY GLU SEQRES 8 B 147 VAL LYS VAL VAL LEU PHE ASN HIS SER GLN ARG ASP PHE SEQRES 9 B 147 ALA ILE LYS LYS GLY ASP ARG VAL ALA GLN LEU ILE LEU SEQRES 10 B 147 GLU LYS ILE VAL ASP ASP ALA GLN ILE VAL VAL VAL ASP SEQRES 11 B 147 SER LEU GLU GLU SER ALA ARG GLY ALA GLY GLY PHE GLY SEQRES 12 B 147 SER THR GLY ASN SEQRES 1 C 147 MET THR ALA THR SER ASP LYS VAL LEU LYS ILE GLN LEU SEQRES 2 C 147 ARG SER ALA SER ALA THR VAL PRO THR LYS GLY SER ALA SEQRES 3 C 147 THR ALA ALA GLY TYR ASP ILE TYR ALA SER GLN ASP ILE SEQRES 4 C 147 THR ILE PRO ALA MET GLY GLN GLY MET VAL SER THR ASP SEQRES 5 C 147 ILE SER PHE THR VAL PRO VAL GLY THR TYR GLY ARG ILE SEQRES 6 C 147 ALA PRO ARG SER GLY LEU ALA VAL LYS ASN GLY ILE GLN SEQRES 7 C 147 THR GLY ALA GLY VAL VAL ASP ARG ASP TYR THR GLY GLU SEQRES 8 C 147 VAL LYS VAL VAL LEU PHE ASN HIS SER GLN ARG ASP PHE SEQRES 9 C 147 ALA ILE LYS LYS GLY ASP ARG VAL ALA GLN LEU ILE LEU SEQRES 10 C 147 GLU LYS ILE VAL ASP ASP ALA GLN ILE VAL VAL VAL ASP SEQRES 11 C 147 SER LEU GLU GLU SER ALA ARG GLY ALA GLY GLY PHE GLY SEQRES 12 C 147 SER THR GLY ASN HET DUP A 148 28 HET MG A 149 1 HET DUP B 148 28 HET DUP B 149 28 HET MG B 150 1 HET MG C 148 1 HETNAM DUP 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 4 DUP 3(C9 H16 N3 O13 P3) FORMUL 5 MG 3(MG 2+) FORMUL 10 HOH *405(H2 O) HELIX 1 1 ARG A 68 GLY A 76 1 9 HELIX 2 2 ARG B 68 GLY B 76 1 9 HELIX 3 3 ARG C 68 GLY C 76 1 9 SHEET 1 A 3 ILE A 53 THR A 56 0 SHEET 2 A 3 VAL A 8 LEU A 13 -1 N GLN A 12 O SER A 54 SHEET 3 A 3 GLN C 125 VAL C 128 1 O VAL C 127 N ILE A 11 SHEET 1 B 5 THR A 22 LYS A 23 0 SHEET 2 B 5 TYR A 31 TYR A 34 -1 O ASP A 32 N THR A 22 SHEET 3 B 5 ARG A 111 LYS A 119 -1 O LEU A 115 N TYR A 31 SHEET 4 B 5 THR A 61 ALA A 66 -1 N ALA A 66 O GLN A 114 SHEET 5 B 5 VAL A 83 VAL A 84 -1 O VAL A 84 N GLY A 63 SHEET 1 C 2 ILE A 39 ILE A 41 0 SHEET 2 C 2 PHE A 104 ILE A 106 -1 O PHE A 104 N ILE A 41 SHEET 1 D 3 GLY A 45 SER A 50 0 SHEET 2 D 3 LYS A 93 ASN A 98 -1 O VAL A 94 N VAL A 49 SHEET 3 D 3 ILE A 77 THR A 79 -1 N GLN A 78 O PHE A 97 SHEET 1 E 3 GLN A 125 VAL A 128 0 SHEET 2 E 3 VAL B 8 LEU B 13 1 O LEU B 9 N GLN A 125 SHEET 3 E 3 ILE B 53 THR B 56 -1 O SER B 54 N GLN B 12 SHEET 1 F 5 THR B 22 LYS B 23 0 SHEET 2 F 5 TYR B 31 TYR B 34 -1 O ASP B 32 N THR B 22 SHEET 3 F 5 ARG B 111 LYS B 119 -1 O LEU B 115 N TYR B 31 SHEET 4 F 5 THR B 61 ALA B 66 -1 N ALA B 66 O GLN B 114 SHEET 5 F 5 VAL B 83 VAL B 84 -1 O VAL B 84 N GLY B 63 SHEET 1 G 2 ILE B 39 ILE B 41 0 SHEET 2 G 2 PHE B 104 ILE B 106 -1 O PHE B 104 N ILE B 41 SHEET 1 H 3 GLN B 46 VAL B 49 0 SHEET 2 H 3 VAL B 94 ASN B 98 -1 O VAL B 94 N VAL B 49 SHEET 3 H 3 ILE B 77 GLY B 80 -1 N GLN B 78 O PHE B 97 SHEET 1 I 3 GLN B 125 VAL B 129 0 SHEET 2 I 3 VAL C 8 LEU C 13 1 O ILE C 11 N VAL B 129 SHEET 3 I 3 ILE C 53 THR C 56 -1 O SER C 54 N GLN C 12 SHEET 1 J 4 TYR C 31 TYR C 34 0 SHEET 2 J 4 ARG C 111 LYS C 119 -1 O LEU C 115 N TYR C 31 SHEET 3 J 4 THR C 61 ALA C 66 -1 N ALA C 66 O GLN C 114 SHEET 4 J 4 VAL C 83 VAL C 84 -1 O VAL C 84 N GLY C 63 SHEET 1 K 2 ILE C 39 ILE C 41 0 SHEET 2 K 2 PHE C 104 ILE C 106 -1 O PHE C 104 N ILE C 41 SHEET 1 L 3 GLY C 45 SER C 50 0 SHEET 2 L 3 LYS C 93 ASN C 98 -1 O VAL C 94 N VAL C 49 SHEET 3 L 3 ILE C 77 THR C 79 -1 N GLN C 78 O PHE C 97 LINK O2G DUP A 148 MG MG A 149 1555 1555 1.99 LINK O1A DUP A 148 MG MG A 149 1555 1555 2.00 LINK O2B DUP A 148 MG MG A 149 1555 1555 2.10 LINK MG MG A 149 O HOH A 168 1555 1555 2.11 LINK MG MG A 149 O HOH A 246 1555 1555 2.11 LINK MG MG A 149 O HOH A 247 1555 1555 2.09 LINK O1A DUP B 148 MG MG B 150 1555 1555 2.00 LINK O2B DUP B 148 MG MG B 150 1555 1555 2.01 LINK O2G DUP B 148 MG MG B 150 1555 1555 2.10 LINK O1A DUP B 149 MG MG C 148 1555 1555 2.13 LINK O2B DUP B 149 MG MG C 148 1555 1555 2.42 LINK MG MG B 150 O HOH B 248 1555 1555 2.10 LINK MG MG B 150 O HOH B 249 1555 1555 2.10 LINK MG MG B 150 O HOH B 250 1555 1555 2.18 LINK O HOH B 276 MG MG C 148 1555 1555 2.10 SITE 1 AC1 22 ARG A 68 SER A 69 GLY A 70 GLN A 114 SITE 2 AC1 22 MG A 149 HOH A 164 HOH A 168 HOH A 176 SITE 3 AC1 22 HOH A 178 HOH A 186 HOH A 211 HOH A 246 SITE 4 AC1 22 HOH A 247 HOH A 260 HOH A 406 LYS C 74 SITE 5 AC1 22 ALA C 81 GLY C 82 VAL C 83 ASP C 85 SITE 6 AC1 22 TYR C 88 LYS C 93 SITE 1 AC2 4 DUP A 148 HOH A 168 HOH A 246 HOH A 247 SITE 1 AC3 23 ALA A 81 GLY A 82 VAL A 83 ASP A 85 SITE 2 AC3 23 TYR A 88 VAL A 92 LYS A 93 ARG B 68 SITE 3 AC3 23 SER B 69 GLY B 70 GLN B 114 MG B 150 SITE 4 AC3 23 HOH B 161 HOH B 175 HOH B 180 HOH B 207 SITE 5 AC3 23 HOH B 214 HOH B 219 HOH B 248 HOH B 249 SITE 6 AC3 23 HOH B 250 HOH B 257 HOH B 396 SITE 1 AC4 18 ALA B 81 GLY B 82 VAL B 83 ASP B 85 SITE 2 AC4 18 TYR B 88 VAL B 92 LYS B 93 HOH B 190 SITE 3 AC4 18 HOH B 225 HOH B 234 HOH B 276 HOH B 377 SITE 4 AC4 18 MET C 48 ARG C 68 SER C 69 GLY C 70 SITE 5 AC4 18 GLN C 114 MG C 148 SITE 1 AC5 4 DUP B 148 HOH B 248 HOH B 249 HOH B 250 SITE 1 AC6 3 DUP B 149 HOH B 276 ASP C 32 CRYST1 51.784 58.868 112.381 90.00 90.00 90.00 P 21 21 21 12 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 0.019311 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016987 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008898 0.00000