HEADER HYDROLASE 07-AUG-09 3ILS TITLE THE THIOESTERASE DOMAIN FROM PKSA COMPND MOL_ID: 1; COMPND 2 MOLECULE: AFLATOXIN BIOSYNTHESIS POLYKETIDE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PKSA THIOESTERASE DOMAIN RESIDUES 1845-2109; COMPND 5 SYNONYM: PKS; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS PARASITICUS; SOURCE 3 ORGANISM_TAXID: 5067; SOURCE 4 GENE: PKSA, PKSL1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS A/B HYDROLASE, THIOESTERASE, NORSOLORINIC ACID, AFLATOXIN, PKSA, KEYWDS 2 POLYKETIDE, ACYLTRANSFERASE, MULTIFUNCTIONAL ENZYME, KEYWDS 3 PHOSPHOPANTETHEINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.P.KORMAN REVDAT 4 21-FEB-24 3ILS 1 REMARK REVDAT 3 01-NOV-17 3ILS 1 REMARK REVDAT 2 19-MAY-10 3ILS 1 JRNL REVDAT 1 07-APR-10 3ILS 0 JRNL AUTH T.P.KORMAN,J.M.CRAWFORD,J.W.LABONTE,A.G.NEWMAN,J.WONG, JRNL AUTH 2 C.A.TOWNSEND,S.C.TSAI JRNL TITL STRUCTURE AND FUNCTION OF AN ITERATIVE POLYKETIDE SYNTHASE JRNL TITL 2 THIOESTERASE DOMAIN CATALYZING CLAISEN CYCLIZATION IN JRNL TITL 3 AFLATOXIN BIOSYNTHESIS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 6246 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20332208 JRNL DOI 10.1073/PNAS.0913531107 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 305.00 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 33560 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1662 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2042 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 171 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.44000 REMARK 3 B22 (A**2) : 0.73200 REMARK 3 B33 (A**2) : -5.17200 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.005 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.445 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.552 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.133 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 39.88 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3ILS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054570. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-07; 23-FEB-07 REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : SSRL; ALS REMARK 200 BEAMLINE : BL9-2; 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9648, 0.98, 0.9802; 1.0 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111); DOUBLE REMARK 200 CRYSTAL SI(111) REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210; MARMOSAIC 325 REMARK 200 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35395 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM ACETATE, 0.1 M SODIUM REMARK 280 CITRATE, 30% PEG 4K, PH 5.6, VAPOR DIFFUSION, TEMPERATURE 298K 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 33.46700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 33.96250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.47050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 33.96250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.46700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.47050 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: 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 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 GLN A1858 149.84 -170.29 REMARK 500 MET A1862 -41.31 73.99 REMARK 500 ASP A1903 62.45 -152.82 REMARK 500 SER A1937 -126.83 55.50 REMARK 500 ASP A1964 71.78 41.97 REMARK 500 GLN A1969 148.72 -172.18 REMARK 500 REMARK 500 REMARK: NULL DBREF 3ILS A 1845 2109 UNP Q12053 PKSL1_ASPPA 1845 2109 SEQRES 1 A 265 LEU LYS PRO TYR CYS ARG PRO SER THR SER VAL VAL LEU SEQRES 2 A 265 GLN GLY LEU PRO MET VAL ALA ARG LYS THR LEU PHE MET SEQRES 3 A 265 LEU PRO ASP GLY GLY GLY SER ALA PHE SER TYR ALA SER SEQRES 4 A 265 LEU PRO ARG LEU LYS SER ASP THR ALA VAL VAL GLY LEU SEQRES 5 A 265 ASN CYS PRO TYR ALA ARG ASP PRO GLU ASN MET ASN CYS SEQRES 6 A 265 THR HIS GLY ALA MET ILE GLU SER PHE CYS ASN GLU ILE SEQRES 7 A 265 ARG ARG ARG GLN PRO ARG GLY PRO TYR HIS LEU GLY GLY SEQRES 8 A 265 TRP SER SER GLY GLY ALA PHE ALA TYR VAL VAL ALA GLU SEQRES 9 A 265 ALA LEU VAL ASN GLN GLY GLU GLU VAL HIS SER LEU ILE SEQRES 10 A 265 ILE ILE ASP ALA PRO ILE PRO GLN ALA MET GLU GLN LEU SEQRES 11 A 265 PRO ARG ALA PHE TYR GLU HIS CYS ASN SER ILE GLY LEU SEQRES 12 A 265 PHE ALA THR GLN PRO GLY ALA SER PRO ASP GLY SER THR SEQRES 13 A 265 GLU PRO PRO SER TYR LEU ILE PRO HIS PHE THR ALA VAL SEQRES 14 A 265 VAL ASP VAL MET LEU ASP TYR LYS LEU ALA PRO LEU HIS SEQRES 15 A 265 ALA ARG ARG MET PRO LYS VAL GLY ILE VAL TRP ALA ALA SEQRES 16 A 265 ASP THR VAL MET ASP GLU ARG ASP ALA PRO LYS MET LYS SEQRES 17 A 265 GLY MET HIS PHE MET ILE GLN LYS ARG THR GLU PHE GLY SEQRES 18 A 265 PRO ASP GLY TRP ASP THR ILE MET PRO GLY ALA SER PHE SEQRES 19 A 265 ASP ILE VAL ARG ALA ASP GLY ALA ASN HIS PHE THR LEU SEQRES 20 A 265 MET GLN LYS GLU HIS VAL SER ILE ILE SER ASP LEU ILE SEQRES 21 A 265 ASP ARG VAL MET ALA FORMUL 2 HOH *171(H2 O) HELIX 1 1 SER A 1877 ALA A 1882 5 6 HELIX 2 2 ASP A 1903 MET A 1907 5 5 HELIX 3 3 THR A 1910 GLN A 1926 1 17 HELIX 4 4 SER A 1937 GLN A 1953 1 17 HELIX 5 5 PRO A 1975 ILE A 1985 1 11 HELIX 6 6 TYR A 2005 MET A 2017 1 13 HELIX 7 7 GLY A 2068 MET A 2073 1 6 HELIX 8 8 PHE A 2089 GLN A 2093 5 5 HELIX 9 9 VAL A 2097 MET A 2108 1 12 SHEET 1 A 7 THR A1853 GLN A1858 0 SHEET 2 A 7 THR A1891 ASN A1897 -1 O VAL A1893 N GLN A1858 SHEET 3 A 7 LYS A1866 LEU A1871 1 N LEU A1868 O ALA A1892 SHEET 4 A 7 TYR A1931 TRP A1936 1 O GLY A1934 N LEU A1871 SHEET 5 A 7 VAL A1957 ILE A1963 1 O ILE A1963 N GLY A1935 SHEET 6 A 7 LYS A2032 ASP A2040 1 O GLY A2034 N ILE A1962 SHEET 7 A 7 PHE A2078 ASN A2087 1 O ASP A2079 N VAL A2033 CISPEP 1 GLY A 1929 PRO A 1930 0 -7.27 CRYST1 66.934 66.941 67.925 90.00 90.00 90.00 P 21 21 21 4 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 0.014940 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014939 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014722 0.00000