HEADER HYDROLASE 22-MAR-04 1V03 TITLE CRYSTAL STRUCTURE OF THE SORGHUM BICOLOR DHURRINASE 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DHURRINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DHURRINASE-1; COMPND 5 EC: 3.2.1.21; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SORGHUM BICOLOR MILO; SOURCE 3 ORGANISM_COMMON: SORGHUM; SOURCE 4 ORGANISM_TAXID: 4558; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, BETA-GLUCOSIDASE, DHURRIN HYDROLYSIS, PEST DEFENSE, FAMILY KEYWDS 2 GH1 EXPDTA X-RAY DIFFRACTION AUTHOR J.MORINIERE,L.VERDOUCQ,D.R.BEVAN,A.ESEN,B.HENRISSAT,M.CZJZEK REVDAT 5 13-DEC-23 1V03 1 HETSYN REVDAT 4 29-JUL-20 1V03 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 24-FEB-09 1V03 1 VERSN REVDAT 2 17-MAR-05 1V03 1 JRNL REVDAT 1 20-MAY-04 1V03 0 JRNL AUTH L.VERDOUCQ,J.MORINIERE,D.R.BEVAN,A.ESEN,A.VASELLA, JRNL AUTH 2 B.HENRISSAT,M.CZJZEK JRNL TITL STRUCTURAL DETERMINANTS OF SUBSTRATE SPECIFICITY IN FAMILY 1 JRNL TITL 2 BETA-GLUCOSIDASES: NOVEL INSIGHTS FROM THE CRYSTAL STRUCTURE JRNL TITL 3 OF SORGHUM DHURRINASE-1, A PLANT BETA-GLUCOSIDASE WITH JRNL TITL 4 STRICT SPECIFICITY, IN COMPLEX WITH ITS NATURAL SUBSTRATE JRNL REF J.BIOL.CHEM. V. 279 31796 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 15148317 JRNL DOI 10.1074/JBC.M402918200 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 141.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 81445 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4294 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5934 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 310 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3898 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 600 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.89 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.102 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.102 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.452 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4037 ; 0.017 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5482 ; 1.529 ; 1.941 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 486 ; 5.849 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 562 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3166 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2125 ; 0.243 ; 0.300 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): 840 ; 0.205 ; 0.500 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): 30 ; 0.144 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 48 ; 0.253 ; 0.500 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): 2420 ; 1.422 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3898 ; 2.332 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1617 ; 1.702 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1584 ; 2.570 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1V03 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-MAR-04. REMARK 100 THE DEPOSITION ID IS D_1290014843. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 85811 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 39.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.32800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1E1E REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 79.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M NH4(SO4)2, 0.1 M HEPERS PH 7.5, REMARK 280 50 MM NACL, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 3 2 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+3/4,X+1/4,-Z+1/4 REMARK 290 14555 -Y+3/4,-X+3/4,-Z+3/4 REMARK 290 15555 Y+1/4,-X+1/4,Z+3/4 REMARK 290 16555 -Y+1/4,X+3/4,Z+1/4 REMARK 290 17555 X+3/4,Z+1/4,-Y+1/4 REMARK 290 18555 -X+1/4,Z+3/4,Y+1/4 REMARK 290 19555 -X+3/4,-Z+3/4,-Y+3/4 REMARK 290 20555 X+1/4,-Z+1/4,Y+3/4 REMARK 290 21555 Z+3/4,Y+1/4,-X+1/4 REMARK 290 22555 Z+1/4,-Y+1/4,X+3/4 REMARK 290 23555 -Z+1/4,Y+3/4,X+1/4 REMARK 290 24555 -Z+3/4,-Y+3/4,-X+3/4 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 97.74500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 97.74500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 97.74500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 97.74500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 97.74500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 97.74500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 97.74500 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 97.74500 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 97.74500 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 97.74500 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 97.74500 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 97.74500 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 97.74500 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 97.74500 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 97.74500 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 97.74500 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 97.74500 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 97.74500 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 146.61750 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 48.87250 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 48.87250 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 146.61750 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 146.61750 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 146.61750 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 48.87250 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 48.87250 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 146.61750 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 48.87250 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 146.61750 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 48.87250 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 146.61750 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 48.87250 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 48.87250 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 48.87250 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 146.61750 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 48.87250 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 146.61750 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 146.61750 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 146.61750 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 48.87250 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 48.87250 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 146.61750 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 146.61750 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 48.87250 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 48.87250 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 48.87250 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 48.87250 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 146.61750 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 48.87250 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 146.61750 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 48.87250 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 146.61750 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 146.61750 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 146.61750 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 146.61750 REMARK 350 BIOMT2 2 0.000000 0.000000 -1.000000 146.61750 REMARK 350 BIOMT3 2 0.000000 -1.000000 0.000000 146.61750 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 A2033 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE CHAIN A: GLU 240 ASP 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 -50 REMARK 465 ALA A -49 REMARK 465 LEU A -48 REMARK 465 LEU A -47 REMARK 465 LEU A -46 REMARK 465 ALA A -45 REMARK 465 SER A -44 REMARK 465 ALA A -43 REMARK 465 ILE A -42 REMARK 465 ASN A -41 REMARK 465 HIS A -40 REMARK 465 THR A -39 REMARK 465 ALA A -38 REMARK 465 HIS A -37 REMARK 465 PRO A -36 REMARK 465 ALA A -35 REMARK 465 GLY A -34 REMARK 465 LEU A -33 REMARK 465 ARG A -32 REMARK 465 SER A -31 REMARK 465 HIS A -30 REMARK 465 PRO A -29 REMARK 465 ASN A -28 REMARK 465 ASN A -27 REMARK 465 GLU A -26 REMARK 465 SER A -25 REMARK 465 PHE A -24 REMARK 465 SER A -23 REMARK 465 ARG A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 LEU A -19 REMARK 465 CYS A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 PRO A -15 REMARK 465 GLN A -14 REMARK 465 ASN A -13 REMARK 465 ILE A -12 REMARK 465 SER A -11 REMARK 465 LYS A -10 REMARK 465 ARG A -9 REMARK 465 ARG A -8 REMARK 465 SER A -7 REMARK 465 ASN A -6 REMARK 465 LEU A -5 REMARK 465 SER A -4 REMARK 465 PHE A -3 REMARK 465 ARG A -2 REMARK 465 PRO A -1 REMARK 465 ARG A 0 REMARK 465 ALA A 1 REMARK 465 GLN A 2 REMARK 465 THR A 3 REMARK 465 ILE A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 SER A 8 REMARK 465 ALA A 9 REMARK 465 GLY A 10 REMARK 465 ALA A 498 REMARK 465 LYS A 499 REMARK 465 LYS A 500 REMARK 465 VAL A 501 REMARK 465 GLU A 502 REMARK 465 ASN A 503 REMARK 465 ASN A 504 REMARK 465 LYS A 505 REMARK 465 ILE A 506 REMARK 465 LEU A 507 REMARK 465 THR A 508 REMARK 465 PRO A 509 REMARK 465 ALA A 510 REMARK 465 GLY A 511 REMARK 465 GLN A 512 REMARK 465 LEU A 513 REMARK 465 ASN A 514 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 68 CB CG CD NE CZ NH1 NH2 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 HOH A 2572 O HOH A 2575 1.81 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 O HOH A 2005 O HOH A 2166 24555 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 MET A 407 SD MET A 407 CE -0.370 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 ASP A 165 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 305 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 305 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 324 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 446 CB - CG - OD2 ANGL. DEV. = 5.5 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 ALA A 74 -120.89 57.95 REMARK 500 TRP A 144 1.18 84.84 REMARK 500 ASP A 145 68.37 -102.58 REMARK 500 TYR A 154 10.31 -158.60 REMARK 500 PRO A 217 46.91 -84.29 REMARK 500 HIS A 247 -22.02 -140.29 REMARK 500 CYS A 283 -70.38 -101.89 REMARK 500 ARG A 305 -119.39 53.99 REMARK 500 GLU A 460 59.89 -93.31 REMARK 500 TRP A 461 -130.03 47.33 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 A2021 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH A2022 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A2065 DISTANCE = 6.07 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 9-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 10-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V02 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SORGHUM BICOLOR DHURRINASE 1 DBREF 1V03 A -50 514 UNP Q41290 Q41290 1 565 SEQADV 1V03 GLU A 152 UNP Q41290 ASP 203 CONFLICT SEQADV 1V03 ARG A 161 UNP Q41290 GLU 212 CONFLICT SEQADV 1V03 ILE A 162 UNP Q41290 ASP 213 CONFLICT SEQADV 1V03 ILE A 163 UNP Q41290 TYR 214 CONFLICT SEQADV 1V03 ASP A 189 UNP Q41290 GLU 240 ENGINEERED MUTATION SEQRES 1 A 565 MET ALA LEU LEU LEU ALA SER ALA ILE ASN HIS THR ALA SEQRES 2 A 565 HIS PRO ALA GLY LEU ARG SER HIS PRO ASN ASN GLU SER SEQRES 3 A 565 PHE SER ARG HIS HIS LEU CYS SER SER PRO GLN ASN ILE SEQRES 4 A 565 SER LYS ARG ARG SER ASN LEU SER PHE ARG PRO ARG ALA SEQRES 5 A 565 GLN THR ILE SER SER GLU SER ALA GLY ILE HIS ARG LEU SEQRES 6 A 565 SER PRO TRP GLU ILE PRO ARG ARG ASP TRP PHE PRO PRO SEQRES 7 A 565 SER PHE LEU PHE GLY ALA ALA THR SER ALA TYR GLN ILE SEQRES 8 A 565 GLU GLY ALA TRP ASN GLU ASP GLY LYS GLY PRO SER THR SEQRES 9 A 565 TRP ASP HIS PHE CYS HIS ASN PHE PRO GLU TRP ILE VAL SEQRES 10 A 565 ASP ARG SER ASN GLY ASP VAL ALA ALA ASP SER TYR HIS SEQRES 11 A 565 MET TYR ALA GLU ASP VAL ARG LEU LEU LYS GLU MET GLY SEQRES 12 A 565 MET ASP ALA TYR ARG PHE SER ILE SER TRP PRO ARG ILE SEQRES 13 A 565 LEU PRO LYS GLY THR LEU ALA GLY GLY ILE ASN GLU LYS SEQRES 14 A 565 GLY VAL GLU TYR TYR ASN LYS LEU ILE ASP LEU LEU LEU SEQRES 15 A 565 GLU ASN GLY ILE GLU PRO TYR ILE THR ILE PHE HIS TRP SEQRES 16 A 565 ASP THR PRO GLN ALA LEU VAL GLU ALA TYR GLY GLY PHE SEQRES 17 A 565 LEU ASP GLU ARG ILE ILE LYS ASP TYR THR ASP PHE ALA SEQRES 18 A 565 LYS VAL CYS PHE GLU LYS PHE GLY LYS THR VAL LYS ASN SEQRES 19 A 565 TRP LEU THR PHE ASN ASP PRO GLU THR PHE CYS SER VAL SEQRES 20 A 565 SER TYR GLY THR GLY VAL LEU ALA PRO GLY ARG CYS SER SEQRES 21 A 565 PRO GLY VAL SER CYS ALA VAL PRO THR GLY ASN SER LEU SEQRES 22 A 565 SER GLU PRO TYR ILE VAL ALA HIS ASN LEU LEU ARG ALA SEQRES 23 A 565 HIS ALA GLU THR VAL ASP ILE TYR ASN LYS TYR HIS LYS SEQRES 24 A 565 GLY ALA ASP GLY ARG ILE GLY LEU ALA LEU ASN VAL PHE SEQRES 25 A 565 GLY ARG VAL PRO TYR THR ASN THR PHE LEU ASP GLN GLN SEQRES 26 A 565 ALA GLN GLU ARG SER MET ASP LYS CYS LEU GLY TRP PHE SEQRES 27 A 565 LEU GLU PRO VAL VAL ARG GLY ASP TYR PRO PHE SER MET SEQRES 28 A 565 ARG VAL SER ALA ARG ASP ARG VAL PRO TYR PHE LYS GLU SEQRES 29 A 565 LYS GLU GLN GLU LYS LEU VAL GLY SER TYR ASP MET ILE SEQRES 30 A 565 GLY ILE ASN TYR TYR THR SER THR PHE SER LYS HIS ILE SEQRES 31 A 565 ASP LEU SER PRO ASN ASN SER PRO VAL LEU ASN THR ASP SEQRES 32 A 565 ASP ALA TYR ALA SER GLN GLU THR LYS GLY PRO ASP GLY SEQRES 33 A 565 ASN ALA ILE GLY PRO PRO THR GLY ASN ALA TRP ILE ASN SEQRES 34 A 565 MET TYR PRO LYS GLY LEU HIS ASP ILE LEU MET THR MET SEQRES 35 A 565 LYS ASN LYS TYR GLY ASN PRO PRO MET TYR ILE THR GLU SEQRES 36 A 565 ASN GLY MET GLY ASP ILE ASP LYS GLY ASP LEU PRO LYS SEQRES 37 A 565 PRO VAL ALA LEU GLU ASP HIS THR ARG LEU ASP TYR ILE SEQRES 38 A 565 GLN ARG HIS LEU SER VAL LEU LYS GLN SER ILE ASP LEU SEQRES 39 A 565 GLY ALA ASP VAL ARG GLY TYR PHE ALA TRP SER LEU LEU SEQRES 40 A 565 ASP ASN PHE GLU TRP SER SER GLY TYR THR GLU ARG PHE SEQRES 41 A 565 GLY ILE VAL TYR VAL ASP ARG GLU ASN GLY CYS GLU ARG SEQRES 42 A 565 THR MET LYS ARG SER ALA ARG TRP LEU GLN GLU PHE ASN SEQRES 43 A 565 GLY ALA ALA LYS LYS VAL GLU ASN ASN LYS ILE LEU THR SEQRES 44 A 565 PRO ALA GLY GLN LEU ASN HET BGC A1498 12 HET CCN A1499 3 HET IPH A1500 7 HETNAM BGC BETA-D-GLUCOPYRANOSE HETNAM CCN ACETONITRILE HETNAM IPH PHENOL HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE FORMUL 2 BGC C6 H12 O6 FORMUL 3 CCN C2 H3 N FORMUL 4 IPH C6 H6 O FORMUL 5 HOH *600(H2 O) HELIX 1 1 SER A 15 ILE A 19 5 5 HELIX 2 2 ARG A 21 PHE A 25 5 5 HELIX 3 3 SER A 36 GLU A 41 1 6 HELIX 4 4 SER A 52 PHE A 61 1 10 HELIX 5 5 PRO A 62 ILE A 65 5 4 HELIX 6 6 ASP A 76 GLY A 92 1 17 HELIX 7 7 SER A 101 LEU A 106 1 6 HELIX 8 8 THR A 110 GLY A 114 5 5 HELIX 9 9 ASN A 116 ASN A 133 1 18 HELIX 10 10 PRO A 147 GLY A 155 1 9 HELIX 11 11 GLY A 156 GLU A 160 5 5 HELIX 12 12 ARG A 161 GLY A 178 1 18 HELIX 13 13 ASP A 189 TYR A 198 1 10 HELIX 14 14 SER A 223 HIS A 247 1 25 HELIX 15 15 THR A 269 GLY A 294 1 26 HELIX 16 16 PRO A 297 ARG A 305 1 9 HELIX 17 17 ASP A 306 VAL A 308 5 3 HELIX 18 18 LYS A 312 VAL A 320 1 9 HELIX 19 19 LEU A 349 ALA A 354 5 6 HELIX 20 20 PRO A 381 LYS A 394 1 14 HELIX 21 21 PRO A 416 GLU A 422 1 7 HELIX 22 22 ASP A 423 LEU A 443 1 21 HELIX 23 23 GLU A 460 GLY A 464 5 5 HELIX 24 24 ARG A 476 GLY A 479 5 4 HELIX 25 25 LYS A 485 ASN A 495 1 11 SHEET 1 AA10 LEU A 30 ALA A 34 0 SHEET 2 AA10 VAL A 447 TRP A 453 1 O ARG A 448 N LEU A 30 SHEET 3 AA10 MET A 400 GLU A 404 1 O MET A 400 N ARG A 448 SHEET 4 AA10 MET A 325 ASN A 329 1 O ILE A 326 N TYR A 401 SHEET 5 AA10 ARG A 253 ASN A 259 1 O LEU A 256 N GLY A 327 SHEET 6 AA10 ASN A 183 ASN A 188 1 O TRP A 184 N GLY A 255 SHEET 7 AA10 GLU A 136 PHE A 142 1 O ILE A 139 N LEU A 185 SHEET 8 AA10 ALA A 95 SER A 99 1 O TYR A 96 N TYR A 138 SHEET 9 AA10 LEU A 30 ALA A 34 1 O ALA A 33 N ARG A 97 SHEET 10 AA10 LEU A 30 ALA A 34 0 SHEET 1 AB 3 GLY A 262 PRO A 265 0 SHEET 2 AB 3 SER A 333 HIS A 338 1 O THR A 334 N VAL A 264 SHEET 3 AB 3 ALA A 356 GLU A 359 -1 O SER A 357 N LYS A 337 SHEET 1 AC 2 ASP A 409 ILE A 410 0 SHEET 2 AC 2 GLU A 467 ARG A 468 -1 O ARG A 468 N ASP A 409 SHEET 1 AD 2 VAL A 472 VAL A 474 0 SHEET 2 AD 2 ARG A 482 MET A 484 -1 O THR A 483 N TYR A 473 SSBOND 1 CYS A 208 CYS A 214 1555 1555 2.03 LINK O1 BGC A1498 C2 CCN A1499 1555 1555 1.42 LINK C2 CCN A1499 C4 IPH A1500 1555 1555 1.59 CISPEP 1 ALA A 204 PRO A 205 0 6.75 CISPEP 2 TRP A 453 SER A 454 0 6.02 CRYST1 195.490 195.490 195.490 90.00 90.00 90.00 P 41 3 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 0.005115 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005115 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005115 0.00000