HEADER LYASE 18-MAR-11 2YDA TITLE SULFOLOBUS SULFATARICUS 2-KETO-3-DEOXYGLUCONATE ALDOLASE Y103F,Y130F, TITLE 2 A198F VARIANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-KETO-3-DEOXY GLUCONATE ALDOLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: KDG ALDOLASE; COMPND 5 EC: 4.1.2.20; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SULFOLOBUS SOLFATARICUS; SOURCE 3 ORGANISM_TAXID: 2287; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET3A KEYWDS LYASE, TIM BARREL, BIOCATALYSIS EXPDTA X-RAY DIFFRACTION AUTHOR S.J.CRENNELL,S.F.ROYER,M.ANGELOPOULOU,D.W.HOUGH,M.J.DANSON,S.D.BULL REVDAT 2 20-DEC-23 2YDA 1 REMARK REVDAT 1 28-MAR-12 2YDA 0 JRNL AUTH S.F.ROYER,S.J.CRENNELL,M.ANGELOPOLOU,D.W.HOUGH,M.J.DANSON, JRNL AUTH 2 S.D.BULL JRNL TITL SULFOLOBUS SULFATARICUS 2-KETO-3-DEOXYGLUCONATE ALDOLASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.14 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 54226 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2895 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) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3849 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 204 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4649 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 354 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.03000 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): 0.133 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.128 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.722 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5047 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6856 ; 1.417 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 646 ; 6.050 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 226 ;38.122 ;24.779 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 955 ;13.994 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;16.757 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 773 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3737 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2353 ; 0.199 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3453 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 321 ; 0.150 ; 0.200 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): 90 ; 0.158 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 27 ; 0.170 ; 0.200 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): 3164 ; 0.938 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4972 ; 1.399 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2144 ; 2.467 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1854 ; 3.684 ; 4.500 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 : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2YDA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-MAR-11. REMARK 100 THE DEPOSITION ID IS D_1290047733. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56806 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.68000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BALBES REMARK 200 STARTING MODEL: PDB ENTRY 1W37 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 6.8, 13% PEG 4000, 8% REMARK 280 ISOPROPANOL. 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 166.00667 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 83.00333 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 124.50500 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 41.50167 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 207.50833 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 166.00667 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 83.00333 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 41.50167 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 124.50500 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 207.50833 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 42040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.5 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 0.500000 0.866025 0.000000 49.81000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -86.27345 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -41.50167 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, TYR 103 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN A, TYR 130 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ALA 198 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN B, TYR 103 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN B, TYR 130 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ALA 198 TO PHE 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 GLU A 294 REMARK 465 MET B 1 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 OE1 GLU B 270 NH1 ARG B 273 2.02 REMARK 500 NZ LYS A 155 OG1 THR A 157 2.09 REMARK 500 OD1 ASP B 64 O HOH B 2054 2.13 REMARK 500 NZ LYS B 155 OG1 THR B 157 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 GLU B 159 N GLU B 159 CA 0.995 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 ILE B 158 CA - C - N ANGL. DEV. = 13.7 DEGREES REMARK 500 ILE B 158 O - C - N ANGL. DEV. = -13.2 DEGREES REMARK 500 GLU B 159 N - CA - CB ANGL. DEV. = -38.9 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 PHE A 103 -63.76 74.62 REMARK 500 ASN A 160 95.74 -164.08 REMARK 500 PHE B 103 -61.67 72.16 REMARK 500 ASN B 160 89.76 174.59 REMARK 500 LYS B 218 65.37 -106.51 REMARK 500 REMARK 500 REMARK: NULL 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 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1294 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1295 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EPE A 1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1295 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1299 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W3N RELATED DB: PDB REMARK 900 SULFOLOBUS SOLFATARICUS 2-KETO-3-DEOXYGLUCONATE (KDG) ALDOLASE REMARK 900 COMPLEX WITH D-KDG REMARK 900 RELATED ID: 1W37 RELATED DB: PDB REMARK 900 2-KETO-3-DEOXYGLUCONATE(KDG) ALDOLASE OF SULFOLOBUS SOLFATARICUS REMARK 900 RELATED ID: 1W3I RELATED DB: PDB REMARK 900 SULFOLOBUS SOLFATARICUS 2-KETO-3-DEOXYGLUCONATE (KDG) ALDOLASE REMARK 900 COMPLEX WITH PYRUVATE REMARK 900 RELATED ID: 1W3T RELATED DB: PDB REMARK 900 SULFOLOBUS SOLFATARICUS 2-KETO-3-DEOXYGLUCONATE (KDG) ALDOLASE REMARK 900 COMPLEX WITH D-KDGAL, D-GLYCERALDEHYDE AND PYRUVATE DBREF 2YDA A 1 294 UNP O54288 O54288_SULSO 1 294 DBREF 2YDA B 1 294 UNP O54288 O54288_SULSO 1 294 SEQADV 2YDA PHE A 103 UNP O54288 TYR 103 ENGINEERED MUTATION SEQADV 2YDA PHE A 130 UNP O54288 TYR 130 ENGINEERED MUTATION SEQADV 2YDA PHE A 198 UNP O54288 ALA 198 ENGINEERED MUTATION SEQADV 2YDA PHE B 103 UNP O54288 TYR 103 ENGINEERED MUTATION SEQADV 2YDA PHE B 130 UNP O54288 TYR 130 ENGINEERED MUTATION SEQADV 2YDA PHE B 198 UNP O54288 ALA 198 ENGINEERED MUTATION SEQRES 1 A 294 MET PRO GLU ILE ILE THR PRO ILE ILE THR PRO PHE THR SEQRES 2 A 294 LYS ASP ASN ARG ILE ASP LYS GLU LYS LEU LYS ILE HIS SEQRES 3 A 294 ALA GLU ASN LEU ILE ARG LYS GLY ILE ASP LYS LEU PHE SEQRES 4 A 294 VAL ASN GLY THR THR GLY LEU GLY PRO SER LEU SER PRO SEQRES 5 A 294 GLU GLU LYS LEU GLU ASN LEU LYS ALA VAL TYR ASP VAL SEQRES 6 A 294 THR ASN LYS ILE ILE PHE GLN VAL GLY GLY LEU ASN LEU SEQRES 7 A 294 ASP ASP ALA ILE ARG LEU ALA LYS LEU SER LYS ASP PHE SEQRES 8 A 294 ASP ILE VAL GLY ILE ALA SER TYR ALA PRO TYR PHE TYR SEQRES 9 A 294 PRO ARG MET SER GLU LYS HIS LEU VAL LYS TYR PHE LYS SEQRES 10 A 294 THR LEU CYS GLU VAL SER PRO HIS PRO VAL TYR LEU PHE SEQRES 11 A 294 ASN TYR PRO THR ALA THR GLY LYS ASP ILE ASP ALA LYS SEQRES 12 A 294 VAL ALA LYS GLU ILE GLY CYS PHE THR GLY VAL LYS ASP SEQRES 13 A 294 THR ILE GLU ASN ILE ILE HIS THR LEU ASP TYR LYS ARG SEQRES 14 A 294 LEU ASN PRO ASN MET LEU VAL TYR SER GLY SER ASP MET SEQRES 15 A 294 LEU ILE ALA THR VAL ALA SER THR GLY LEU ASP GLY ASN SEQRES 16 A 294 VAL ALA PHE GLY SER ASN TYR LEU PRO GLU VAL THR VAL SEQRES 17 A 294 THR ILE LYS LYS LEU ALA MET GLU ARG LYS ILE ASP GLU SEQRES 18 A 294 ALA LEU LYS LEU GLN PHE LEU HIS ASP GLU VAL ILE GLU SEQRES 19 A 294 ALA SER ARG ILE PHE GLY SER LEU SER SER ASN TYR VAL SEQRES 20 A 294 LEU THR LYS TYR PHE GLN GLY TYR ASP LEU GLY TYR PRO SEQRES 21 A 294 ARG PRO PRO ILE PHE PRO LEU ASP ASP GLU GLU GLU ARG SEQRES 22 A 294 GLN LEU ILE LYS LYS VAL GLU GLY ILE ARG ALA LYS LEU SEQRES 23 A 294 VAL GLU LEU LYS ILE LEU LYS GLU SEQRES 1 B 294 MET PRO GLU ILE ILE THR PRO ILE ILE THR PRO PHE THR SEQRES 2 B 294 LYS ASP ASN ARG ILE ASP LYS GLU LYS LEU LYS ILE HIS SEQRES 3 B 294 ALA GLU ASN LEU ILE ARG LYS GLY ILE ASP LYS LEU PHE SEQRES 4 B 294 VAL ASN GLY THR THR GLY LEU GLY PRO SER LEU SER PRO SEQRES 5 B 294 GLU GLU LYS LEU GLU ASN LEU LYS ALA VAL TYR ASP VAL SEQRES 6 B 294 THR ASN LYS ILE ILE PHE GLN VAL GLY GLY LEU ASN LEU SEQRES 7 B 294 ASP ASP ALA ILE ARG LEU ALA LYS LEU SER LYS ASP PHE SEQRES 8 B 294 ASP ILE VAL GLY ILE ALA SER TYR ALA PRO TYR PHE TYR SEQRES 9 B 294 PRO ARG MET SER GLU LYS HIS LEU VAL LYS TYR PHE LYS SEQRES 10 B 294 THR LEU CYS GLU VAL SER PRO HIS PRO VAL TYR LEU PHE SEQRES 11 B 294 ASN TYR PRO THR ALA THR GLY LYS ASP ILE ASP ALA LYS SEQRES 12 B 294 VAL ALA LYS GLU ILE GLY CYS PHE THR GLY VAL LYS ASP SEQRES 13 B 294 THR ILE GLU ASN ILE ILE HIS THR LEU ASP TYR LYS ARG SEQRES 14 B 294 LEU ASN PRO ASN MET LEU VAL TYR SER GLY SER ASP MET SEQRES 15 B 294 LEU ILE ALA THR VAL ALA SER THR GLY LEU ASP GLY ASN SEQRES 16 B 294 VAL ALA PHE GLY SER ASN TYR LEU PRO GLU VAL THR VAL SEQRES 17 B 294 THR ILE LYS LYS LEU ALA MET GLU ARG LYS ILE ASP GLU SEQRES 18 B 294 ALA LEU LYS LEU GLN PHE LEU HIS ASP GLU VAL ILE GLU SEQRES 19 B 294 ALA SER ARG ILE PHE GLY SER LEU SER SER ASN TYR VAL SEQRES 20 B 294 LEU THR LYS TYR PHE GLN GLY TYR ASP LEU GLY TYR PRO SEQRES 21 B 294 ARG PRO PRO ILE PHE PRO LEU ASP ASP GLU GLU GLU ARG SEQRES 22 B 294 GLN LEU ILE LYS LYS VAL GLU GLY ILE ARG ALA LYS LEU SEQRES 23 B 294 VAL GLU LEU LYS ILE LEU LYS GLU HET GOL A1294 6 HET GOL A1295 6 HET EPE A1296 15 HET GOL B1295 6 HET GOL B1296 6 HET GOL B1297 6 HET IPA B1298 4 HET IPA B1299 4 HETNAM GOL GLYCEROL HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM IPA ISOPROPYL ALCOHOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EPE HEPES HETSYN IPA 2-PROPANOL FORMUL 3 GOL 5(C3 H8 O3) FORMUL 5 EPE C8 H18 N2 O4 S FORMUL 9 IPA 2(C3 H8 O) FORMUL 11 HOH *354(H2 O) HELIX 1 1 ASP A 19 LYS A 33 1 15 HELIX 2 2 LEU A 46 LEU A 50 5 5 HELIX 3 3 SER A 51 ASP A 64 1 14 HELIX 4 4 ASN A 77 SER A 88 1 12 HELIX 5 5 LYS A 89 PHE A 91 5 3 HELIX 6 6 SER A 108 SER A 123 1 16 HELIX 7 7 TYR A 132 GLY A 137 1 6 HELIX 8 8 ASP A 141 GLY A 149 1 9 HELIX 9 9 ASN A 160 ASN A 171 1 12 HELIX 10 10 SER A 180 MET A 182 5 3 HELIX 11 11 LEU A 183 THR A 190 1 8 HELIX 12 12 PHE A 198 TYR A 202 5 5 HELIX 13 13 LEU A 203 GLU A 216 1 14 HELIX 14 14 LYS A 218 ILE A 238 1 21 HELIX 15 15 GLY A 240 GLY A 254 1 15 HELIX 16 16 ASP A 268 LEU A 289 1 22 HELIX 17 17 ASP B 19 LYS B 33 1 15 HELIX 18 18 LEU B 46 LEU B 50 5 5 HELIX 19 19 SER B 51 ASP B 64 1 14 HELIX 20 20 ASN B 77 SER B 88 1 12 HELIX 21 21 LYS B 89 PHE B 91 5 3 HELIX 22 22 SER B 108 SER B 123 1 16 HELIX 23 23 TYR B 132 GLY B 137 1 6 HELIX 24 24 ASP B 141 GLY B 149 1 9 HELIX 25 25 ASN B 160 ASN B 171 1 12 HELIX 26 26 SER B 180 MET B 182 5 3 HELIX 27 27 LEU B 183 THR B 190 1 8 HELIX 28 28 PHE B 198 TYR B 202 5 5 HELIX 29 29 LEU B 203 GLU B 216 1 14 HELIX 30 30 LYS B 218 ILE B 238 1 21 HELIX 31 31 GLY B 240 GLY B 254 1 15 HELIX 32 32 ASP B 268 LEU B 289 1 22 SHEET 1 AA 9 GLU A 3 PRO A 7 0 SHEET 2 AA 9 GLY A 194 VAL A 196 1 O ASN A 195 N ILE A 5 SHEET 3 AA 9 LEU A 175 SER A 178 1 O SER A 178 N VAL A 196 SHEET 4 AA 9 GLY A 153 ASP A 156 1 O VAL A 154 N TYR A 177 SHEET 5 AA 9 VAL A 127 ASN A 131 1 O LEU A 129 N LYS A 155 SHEET 6 AA 9 GLY A 95 TYR A 99 1 O ILE A 96 N TYR A 128 SHEET 7 AA 9 ILE A 69 GLN A 72 1 O PHE A 71 N ALA A 97 SHEET 8 AA 9 LYS A 37 VAL A 40 1 O LEU A 38 N ILE A 70 SHEET 9 AA 9 GLU A 3 PRO A 7 1 O THR A 6 N PHE A 39 SHEET 1 BA 9 GLU B 3 PRO B 7 0 SHEET 2 BA 9 GLY B 194 VAL B 196 1 O ASN B 195 N ILE B 5 SHEET 3 BA 9 LEU B 175 SER B 178 1 O SER B 178 N VAL B 196 SHEET 4 BA 9 PHE B 151 ASP B 156 1 O THR B 152 N LEU B 175 SHEET 5 BA 9 VAL B 127 ASN B 131 1 O VAL B 127 N THR B 152 SHEET 6 BA 9 GLY B 95 TYR B 99 1 O ILE B 96 N TYR B 128 SHEET 7 BA 9 ILE B 69 GLN B 72 1 O PHE B 71 N ALA B 97 SHEET 8 BA 9 LYS B 37 VAL B 40 1 O LEU B 38 N ILE B 70 SHEET 9 BA 9 GLU B 3 PRO B 7 1 O THR B 6 N PHE B 39 SSBOND 1 CYS A 120 CYS A 150 1555 1555 2.06 SSBOND 2 CYS B 120 CYS B 150 1555 1555 2.05 CISPEP 1 PRO A 262 PRO A 263 0 10.52 CISPEP 2 PRO B 262 PRO B 263 0 14.81 SITE 1 AC1 7 LYS A 14 ASP A 15 LEU A 170 ASN A 171 SITE 2 AC1 7 PRO A 172 ASN A 173 MET A 174 SITE 1 AC2 11 LEU A 50 PRO A 52 GLY A 75 LEU A 76 SITE 2 AC2 11 ASN A 77 ASP A 80 TYR A 102 HOH A2046 SITE 3 AC2 11 HOH A2049 HOH A2061 HOH B2041 SITE 1 AC3 6 ARG A 32 TYR A 63 ASP A 64 THR A 66 SITE 2 AC3 6 ASN A 67 HOH A2057 SITE 1 AC4 8 ARG A 106 MET A 107 SER A 108 HIS A 111 SITE 2 AC4 8 GLY B 240 SER B 241 LEU B 242 SER B 243 SITE 1 AC5 1 HOH B2181 SITE 1 AC6 4 LYS B 114 LYS B 117 THR B 118 GLU B 121 SITE 1 AC7 6 ILE A 162 SER B 180 ASP B 181 MET B 182 SITE 2 AC7 6 PHE B 198 ARG B 237 SITE 1 AC8 2 ASP B 90 LYS B 218 CRYST1 99.620 99.620 249.010 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 0.010038 0.005796 0.000000 0.00000 SCALE2 0.000000 0.011591 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004016 0.00000