HEADER HYDROLASE 11-FEB-11 3QPA TITLE STRUCTURE OF FUSARIUM SOLANI CUTINASE EXPRESSED IN PICHIA PASTORIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: CUTINASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 32-228; COMPND 5 SYNONYM: CUTIN HYDROLASE 1; COMPND 6 EC: 3.1.1.74; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NECTRIA HAEMATOCOCCA; SOURCE 3 ORGANISM_TAXID: 660122; SOURCE 4 STRAIN: 77-13-4 / FGSC 9596 / MPVI; SOURCE 5 GENE: CUT1, CUTA, NECHADRAFT_81019; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS ALPHA-BETA HYDROLASE FOLD, ESTERASE, HYDROLASE, CUTIN, MONO-ETHYL KEYWDS 2 PHOSPHORYLATED SERINE RESIDUE, SECRETED EXPDTA X-RAY DIFFRACTION AUTHOR A.LU,Y.GOSSER,J.K.MONTCLARE,Z.LIU,X.KONG REVDAT 3 13-SEP-23 3QPA 1 REMARK REVDAT 2 14-MAR-12 3QPA 1 AUTHOR REVDAT 1 29-FEB-12 3QPA 0 JRNL AUTH A.LU,Y.GOSSER,J.K.MONTCLARE,Z.LIU,X.KONG JRNL TITL STRUCTURE OF FUSARIUM SOLANI CUTINASE EXPRESSED IN PICHIA JRNL TITL 2 PASTORIS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 0.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.1_357) 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) : 0.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 13.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 141550 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.110 REMARK 3 R VALUE (WORKING SET) : 0.110 REMARK 3 FREE R VALUE : 0.117 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 7113 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 13.6922 - 2.6359 0.88 4156 212 0.1724 0.1702 REMARK 3 2 2.6359 - 2.0946 0.98 4554 267 0.1298 0.1233 REMARK 3 3 2.0946 - 1.8305 0.99 4596 248 0.1230 0.1264 REMARK 3 4 1.8305 - 1.6635 1.00 4635 227 0.1126 0.1146 REMARK 3 5 1.6635 - 1.5444 1.00 4608 264 0.1025 0.1136 REMARK 3 6 1.5444 - 1.4535 0.99 4616 204 0.0995 0.1039 REMARK 3 7 1.4535 - 1.3808 0.99 4659 217 0.0989 0.1149 REMARK 3 8 1.3808 - 1.3207 0.99 4585 216 0.0922 0.0951 REMARK 3 9 1.3207 - 1.2699 0.99 4567 243 0.0845 0.0980 REMARK 3 10 1.2699 - 1.2261 0.99 4543 251 0.0815 0.0873 REMARK 3 11 1.2261 - 1.1878 0.98 4576 224 0.0777 0.0847 REMARK 3 12 1.1878 - 1.1539 0.98 4546 263 0.0719 0.0806 REMARK 3 13 1.1539 - 1.1235 0.98 4470 267 0.0702 0.0821 REMARK 3 14 1.1235 - 1.0961 0.98 4526 216 0.0716 0.0773 REMARK 3 15 1.0961 - 1.0712 0.98 4494 251 0.0730 0.0802 REMARK 3 16 1.0712 - 1.0484 0.97 4486 253 0.0760 0.0776 REMARK 3 17 1.0484 - 1.0274 0.97 4460 234 0.0783 0.0907 REMARK 3 18 1.0274 - 1.0081 0.97 4490 250 0.0784 0.1044 REMARK 3 19 1.0081 - 0.9901 0.97 4467 249 0.0791 0.0861 REMARK 3 20 0.9901 - 0.9733 0.97 4411 246 0.0800 0.0862 REMARK 3 21 0.9733 - 0.9576 0.96 4511 217 0.0848 0.0955 REMARK 3 22 0.9576 - 0.9429 0.96 4391 243 0.0865 0.0893 REMARK 3 23 0.9429 - 0.9290 0.96 4474 242 0.0889 0.1061 REMARK 3 24 0.9290 - 0.9159 0.96 4406 225 0.0922 0.1066 REMARK 3 25 0.9159 - 0.9035 0.96 4387 241 0.0981 0.1042 REMARK 3 26 0.9035 - 0.8918 0.95 4374 234 0.1018 0.1191 REMARK 3 27 0.8918 - 0.8807 0.95 4397 219 0.1053 0.1219 REMARK 3 28 0.8807 - 0.8700 0.95 4414 230 0.1153 0.1367 REMARK 3 29 0.8700 - 0.8599 0.95 4344 231 0.1156 0.1328 REMARK 3 30 0.8599 - 0.8503 0.93 4294 229 0.1220 0.1231 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 : 0.39 REMARK 3 B_SOL : 48.16 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.080 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 7.290 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) : 0.52510 REMARK 3 B22 (A**2) : -0.65440 REMARK 3 B33 (A**2) : 0.12930 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.27090 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 : 0.010 1572 REMARK 3 ANGLE : 1.499 2155 REMARK 3 CHIRALITY : 0.087 244 REMARK 3 PLANARITY : 0.009 291 REMARK 3 DIHEDRAL : 11.642 607 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 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3QPA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063931. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-FEB-10 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 : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.77009 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 141550 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.850 REMARK 200 RESOLUTION RANGE LOW (A) : 13.690 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.0 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 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1CEX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% (W/V) PEG6000, 0.1M CITRIC ACID, REMARK 280 PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 33.08250 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: 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: 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 HG1 THR A 43 HH22 ARG A 166 1655 1.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 LEU A 133 CB - CA - C ANGL. DEV. = -11.4 DEGREES 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 SER A 30 56.77 -142.01 REMARK 500 SER A 30 54.30 -140.84 REMARK 500 MIR A 120 -119.94 62.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CEX RELATED DB: PDB REMARK 900 ORIGINAL STRUCTURE OF F. SOLANI CUTINASE ENZYME EXPRESSED IN E. REMARK 900 COLI. REMARK 900 RELATED ID: 3QPC RELATED DB: PDB REMARK 900 RELATED ID: 3QPD RELATED DB: PDB DBREF 3QPA A 16 212 UNP C7ZGJ1 C7ZGJ1_NECH7 32 228 SEQRES 1 A 197 GLY ARG THR THR ARG ASP ASP LEU ILE ASN GLY ASN SER SEQRES 2 A 197 ALA SER CYS ALA ASP VAL ILE PHE ILE TYR ALA ARG GLY SEQRES 3 A 197 SER THR GLU THR GLY ASN LEU GLY THR LEU GLY PRO SER SEQRES 4 A 197 ILE ALA SER ASN LEU GLU SER ALA PHE GLY LYS ASP GLY SEQRES 5 A 197 VAL TRP ILE GLN GLY VAL GLY GLY ALA TYR ARG ALA THR SEQRES 6 A 197 LEU GLY ASP ASN ALA LEU PRO ARG GLY THR SER SER ALA SEQRES 7 A 197 ALA ILE ARG GLU MET LEU GLY LEU PHE GLN GLN ALA ASN SEQRES 8 A 197 THR LYS CYS PRO ASP ALA THR LEU ILE ALA GLY GLY TYR SEQRES 9 A 197 MIR GLN GLY ALA ALA LEU ALA ALA ALA SER ILE GLU ASP SEQRES 10 A 197 LEU ASP SER ALA ILE ARG ASP LYS ILE ALA GLY THR VAL SEQRES 11 A 197 LEU PHE GLY TYR THR LYS ASN LEU GLN ASN ARG GLY ARG SEQRES 12 A 197 ILE PRO ASN TYR PRO ALA ASP ARG THR LYS VAL PHE CYS SEQRES 13 A 197 ASN THR GLY ASP LEU VAL CYS THR GLY SER LEU ILE VAL SEQRES 14 A 197 ALA ALA PRO HIS LEU ALA TYR GLY PRO ASP ALA ARG GLY SEQRES 15 A 197 PRO ALA PRO GLU PHE LEU ILE GLU LYS VAL ARG ALA VAL SEQRES 16 A 197 ARG GLY MODRES 3QPA MIR A 120 SER MONOETHYLPHOSPHORYLSERINE HET MIR A 120 21 HETNAM MIR MONOETHYLPHOSPHORYLSERINE HETSYN MIR O-[(S)-ETHOXY(HYDROXY)PHOSPHORYL]-L-SERINE FORMUL 1 MIR C5 H12 N O6 P FORMUL 2 HOH *327(H2 O) HELIX 1 1 LEU A 51 GLY A 64 1 14 HELIX 2 2 THR A 80 LEU A 86 5 7 HELIX 3 3 SER A 91 CYS A 109 1 19 HELIX 4 4 MIR A 120 LEU A 133 1 14 HELIX 5 5 ASP A 134 ASP A 139 1 6 HELIX 6 6 PRO A 163 ASP A 165 5 3 HELIX 7 7 ASP A 175 GLY A 180 5 6 HELIX 8 8 ALA A 185 ALA A 190 5 6 HELIX 9 9 TYR A 191 GLY A 197 1 7 HELIX 10 10 GLY A 197 GLY A 212 1 16 SHEET 1 A 5 VAL A 68 GLY A 72 0 SHEET 2 A 5 VAL A 34 ALA A 39 1 N PHE A 36 O TRP A 69 SHEET 3 A 5 THR A 113 TYR A 119 1 O GLY A 117 N ALA A 39 SHEET 4 A 5 ILE A 141 PHE A 147 1 O PHE A 147 N GLY A 118 SHEET 5 A 5 THR A 167 PHE A 170 1 O PHE A 170 N LEU A 146 SSBOND 1 CYS A 31 CYS A 109 1555 1555 2.06 SSBOND 2 CYS A 171 CYS A 178 1555 1555 2.08 CISPEP 1 GLY A 16 ARG A 17 0 -0.34 CRYST1 35.006 66.165 36.755 90.00 93.93 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 0.028567 0.000000 0.001962 0.00000 SCALE2 0.000000 0.015114 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027271 0.00000