HEADER HYDROLASE 05-NOV-14 4WVC TITLE CRYSTAL STRUCTURE OF GH63 MANNOSYLGLYCERATE HYDROLASE FROM THERMUS TITLE 2 THERMOPHILUS HB8 IN COMPLEX WITH TRIS AND D-GLYCERATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS HB8; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 GENE: TTHA0978; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-11A KEYWDS HYDROLASE, GH63, (ALPHA/ALPHA)6-BARREL EXPDTA X-RAY DIFFRACTION AUTHOR T.MIYAZAKI,M.ICHIKAWA,A.NISHIKAWA,T.TONOZUKA REVDAT 4 20-MAR-24 4WVC 1 REMARK REVDAT 3 05-FEB-20 4WVC 1 SOURCE JRNL REMARK REVDAT 2 22-APR-15 4WVC 1 JRNL REVDAT 1 11-MAR-15 4WVC 0 JRNL AUTH T.MIYAZAKI,M.ICHIKAWA,H.IINO,A.NISHIKAWA,T.TONOZUKA JRNL TITL CRYSTAL STRUCTURE AND SUBSTRATE-BINDING MODE OF GH63 JRNL TITL 2 MANNOSYLGLYCERATE HYDROLASE FROM THERMUS THERMOPHILUS HB8. JRNL REF J.STRUCT.BIOL. V. 190 21 2015 JRNL REFN ESSN 1095-8657 JRNL PMID 25712767 JRNL DOI 10.1016/J.JSB.2015.02.006 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 52252 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) : 0.247 REMARK 3 R VALUE (WORKING SET) : 0.245 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2809 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3662 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.2960 REMARK 3 BIN FREE R VALUE SET COUNT : 199 REMARK 3 BIN FREE R VALUE : 0.3340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6796 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 265 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.287 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.222 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.879 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.825 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7058 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6467 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9620 ; 1.394 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14801 ; 3.556 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 818 ; 5.671 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 372 ;33.787 ;22.016 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1049 ;14.946 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 79 ;15.827 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 954 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8007 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1824 ; 0.008 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3286 ; 1.609 ; 2.923 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3284 ; 1.609 ; 2.922 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4098 ; 2.515 ; 4.378 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4099 ; 2.515 ; 4.378 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3772 ; 1.678 ; 3.111 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3772 ; 1.677 ; 3.111 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5522 ; 2.731 ; 4.600 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 8688 ; 4.909 ;24.088 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 8628 ; 4.883 ;24.086 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 : 1.20 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 4WVC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000204572. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SCALEPACK REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55067 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 97.6 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.19000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.4M POTASSIUM SODIUM TARTRATE, 0.1M REMARK 280 HEPES-NAOH (PH 7.5), 50MM CALCIUM CHLORIDE, 10MM D-GLYCERATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-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 -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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 9200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL 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 -0.500000 -0.866025 0.000000 92.94000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 46.47000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 80.48840 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 9580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 92.94000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 46.47000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 80.48840 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 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 CL CL A 500 LIES ON A SPECIAL POSITION. REMARK 375 CL CL B 500 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 621 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 633 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 640 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 638 LIES ON A SPECIAL POSITION. 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 ALA A 2 REMARK 465 GLU A 91 REMARK 465 ALA A 92 REMARK 465 ARG A 93 REMARK 465 ALA A 94 REMARK 465 GLN A 95 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 VAL B 87 REMARK 465 TRP B 88 REMARK 465 GLY B 89 REMARK 465 ARG B 90 REMARK 465 GLU B 91 REMARK 465 ALA B 92 REMARK 465 ARG B 93 REMARK 465 ALA B 94 REMARK 465 GLN B 95 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 A 257 NE ARG B 222 1.97 REMARK 500 OG SER B 336 O PRO B 353 2.14 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 B 633 O HOH B 633 2655 0.70 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 B 278 CB - CG - OD1 ANGL. DEV. = 6.2 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 PRO A 29 32.49 -84.46 REMARK 500 ASP A 47 112.27 -165.55 REMARK 500 ASP A 147 59.36 -141.43 REMARK 500 TYR A 260 -125.01 44.65 REMARK 500 ASP A 338 116.75 -36.70 REMARK 500 TYR A 349 -102.75 71.67 REMARK 500 PRO B 29 32.31 -85.78 REMARK 500 ASP B 47 114.88 -166.56 REMARK 500 TYR B 260 -125.43 48.04 REMARK 500 ASP B 338 115.94 -37.11 REMARK 500 TYR B 349 -102.21 72.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DGY A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DGY B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Z07 RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITHOUT LIGAND AT 2.1-A RESOLUTION REMARK 900 RELATED ID: 4WVA RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH TRIS REMARK 900 RELATED ID: 4WVB RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH GLUCOSE DBREF 4WVC A 1 420 UNP Q5SJN0 Q5SJN0_THET8 1 420 DBREF 4WVC B 1 420 UNP Q5SJN0 Q5SJN0_THET8 1 420 SEQRES 1 A 420 MET ALA PRO LEU ARG THR LYS ALA VAL GLU VAL LEU GLN SEQRES 2 A 420 ARG ASN SER ARG GLY ALA PHE THR VAL PRO ALA HIS GLY SEQRES 3 A 420 LEU TYR PRO TYR GLN TRP LEU TRP ASP SER ALA PHE ILE SEQRES 4 A 420 ALA LEU GLY TRP THR GLN VAL ASP TRP GLU ARG ALA TRP SEQRES 5 A 420 GLN GLU LEU LEU CYS LEU PHE ASP TYR GLY GLN GLY PRO SEQRES 6 A 420 ASP GLY MET LEU PRO HIS ILE VAL PHE HIS GLU GLN SER SEQRES 7 A 420 ARG ASP TYR PHE PRO GLY PRO ASP VAL TRP GLY ARG GLU SEQRES 8 A 420 ALA ARG ALA GLN PRO ALA THR SER GLY ILE THR GLN PRO SEQRES 9 A 420 PRO VAL VAL ALA THR VAL VAL ARG TYR LEU TYR GLU LYS SEQRES 10 A 420 ASP PRO ASP ARG ASP ARG ALA ARG GLU ARG ALA ARG TYR SEQRES 11 A 420 LEU PHE PRO LYS LEU LEU ALA PHE HIS ARG TRP LEU TYR SEQRES 12 A 420 HIS ALA ARG ASP PRO TYR ARG THR GLY LEU VAL VAL ILE SEQRES 13 A 420 VAL HIS PRO TRP GLU SER GLY MET ASP ASN SER PRO ALA SEQRES 14 A 420 TRP ASP LYS PRO LEU SER ARG VAL PRO VAL GLU ASN LEU SEQRES 15 A 420 PRO PRO TYR GLU ARG ARG ASP VAL LYS HIS VAL ASN PRO SEQRES 16 A 420 GLU GLU ARG PRO ARG LYS GLU ASP TYR ASP ARG TYR LEU SEQRES 17 A 420 SER LEU LEU TYR LEU PHE ARG ARG LEU GLU TYR ASP PRO SEQRES 18 A 420 ARG GLU ILE TYR ARG GLN SER PRO PHE LYS VAL VAL ASP SEQRES 19 A 420 VAL GLY PHE ASN ALA ILE LEU GLN ARG ALA ASN ARG ASP SEQRES 20 A 420 LEU TYR ALA LEU ALA VAL LEU LEU GLN GLU ASP PRO TYR SEQRES 21 A 420 GLU ILE GLU GLU TRP ILE VAL ARG GLY GLU VAL GLY LEU SEQRES 22 A 420 GLU ALA LEU TRP ASP ARG GLU ALA GLY PHE TYR PHE SER SEQRES 23 A 420 TRP ASP LEU VAL ALA GLY GLU PRO ILE ALA VAL LYS THR SEQRES 24 A 420 SER ALA GLY PHE LEU PRO LEU PHE ALA GLY THR PRO HIS SEQRES 25 A 420 GLN GLY ARG ALA SER LEU LEU ALA GLN GLU ALA GLU ARG SEQRES 26 A 420 TRP GLY GLU LYS ALA ARG TYR LEU LEU PRO SER VAL ASP SEQRES 27 A 420 PRO THR SER PRO PHE PHE GLU PRO GLY ARG TYR TRP ARG SEQRES 28 A 420 GLY PRO VAL TRP ILE ASN VAL ASN TRP MET VAL ALA GLU SEQRES 29 A 420 GLY PHE ARG ASP TYR GLY PHE ALA ALA LEU ALA ALA ARG SEQRES 30 A 420 LEU LYS ALA ASP ALA LEU ALA LEU MET GLU ARG GLU GLY SEQRES 31 A 420 PHE ARG GLU TYR TYR ASP PRO LEU THR GLY GLN GLY ARG SEQRES 32 A 420 GLY GLY GLU GLY PHE SER TRP SER ALA ALA LEU ALA LEU SEQRES 33 A 420 PHE TRP THR ARG SEQRES 1 B 420 MET ALA PRO LEU ARG THR LYS ALA VAL GLU VAL LEU GLN SEQRES 2 B 420 ARG ASN SER ARG GLY ALA PHE THR VAL PRO ALA HIS GLY SEQRES 3 B 420 LEU TYR PRO TYR GLN TRP LEU TRP ASP SER ALA PHE ILE SEQRES 4 B 420 ALA LEU GLY TRP THR GLN VAL ASP TRP GLU ARG ALA TRP SEQRES 5 B 420 GLN GLU LEU LEU CYS LEU PHE ASP TYR GLY GLN GLY PRO SEQRES 6 B 420 ASP GLY MET LEU PRO HIS ILE VAL PHE HIS GLU GLN SER SEQRES 7 B 420 ARG ASP TYR PHE PRO GLY PRO ASP VAL TRP GLY ARG GLU SEQRES 8 B 420 ALA ARG ALA GLN PRO ALA THR SER GLY ILE THR GLN PRO SEQRES 9 B 420 PRO VAL VAL ALA THR VAL VAL ARG TYR LEU TYR GLU LYS SEQRES 10 B 420 ASP PRO ASP ARG ASP ARG ALA ARG GLU ARG ALA ARG TYR SEQRES 11 B 420 LEU PHE PRO LYS LEU LEU ALA PHE HIS ARG TRP LEU TYR SEQRES 12 B 420 HIS ALA ARG ASP PRO TYR ARG THR GLY LEU VAL VAL ILE SEQRES 13 B 420 VAL HIS PRO TRP GLU SER GLY MET ASP ASN SER PRO ALA SEQRES 14 B 420 TRP ASP LYS PRO LEU SER ARG VAL PRO VAL GLU ASN LEU SEQRES 15 B 420 PRO PRO TYR GLU ARG ARG ASP VAL LYS HIS VAL ASN PRO SEQRES 16 B 420 GLU GLU ARG PRO ARG LYS GLU ASP TYR ASP ARG TYR LEU SEQRES 17 B 420 SER LEU LEU TYR LEU PHE ARG ARG LEU GLU TYR ASP PRO SEQRES 18 B 420 ARG GLU ILE TYR ARG GLN SER PRO PHE LYS VAL VAL ASP SEQRES 19 B 420 VAL GLY PHE ASN ALA ILE LEU GLN ARG ALA ASN ARG ASP SEQRES 20 B 420 LEU TYR ALA LEU ALA VAL LEU LEU GLN GLU ASP PRO TYR SEQRES 21 B 420 GLU ILE GLU GLU TRP ILE VAL ARG GLY GLU VAL GLY LEU SEQRES 22 B 420 GLU ALA LEU TRP ASP ARG GLU ALA GLY PHE TYR PHE SER SEQRES 23 B 420 TRP ASP LEU VAL ALA GLY GLU PRO ILE ALA VAL LYS THR SEQRES 24 B 420 SER ALA GLY PHE LEU PRO LEU PHE ALA GLY THR PRO HIS SEQRES 25 B 420 GLN GLY ARG ALA SER LEU LEU ALA GLN GLU ALA GLU ARG SEQRES 26 B 420 TRP GLY GLU LYS ALA ARG TYR LEU LEU PRO SER VAL ASP SEQRES 27 B 420 PRO THR SER PRO PHE PHE GLU PRO GLY ARG TYR TRP ARG SEQRES 28 B 420 GLY PRO VAL TRP ILE ASN VAL ASN TRP MET VAL ALA GLU SEQRES 29 B 420 GLY PHE ARG ASP TYR GLY PHE ALA ALA LEU ALA ALA ARG SEQRES 30 B 420 LEU LYS ALA ASP ALA LEU ALA LEU MET GLU ARG GLU GLY SEQRES 31 B 420 PHE ARG GLU TYR TYR ASP PRO LEU THR GLY GLN GLY ARG SEQRES 32 B 420 GLY GLY GLU GLY PHE SER TRP SER ALA ALA LEU ALA LEU SEQRES 33 B 420 PHE TRP THR ARG HET CL A 500 1 HET TRS A 501 8 HET DGY A 502 7 HET CL B 500 1 HET TRS B 501 8 HET DGY B 502 7 HETNAM CL CHLORIDE ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM DGY (2R)-2,3-DIHYDROXYPROPANOIC ACID HETSYN TRS TRIS BUFFER FORMUL 3 CL 2(CL 1-) FORMUL 4 TRS 2(C4 H12 N O3 1+) FORMUL 5 DGY 2(C3 H6 O4) FORMUL 9 HOH *265(H2 O) HELIX 1 AA1 PRO A 3 SER A 16 1 14 HELIX 2 AA2 LEU A 33 THR A 44 1 12 HELIX 3 AA3 ASP A 47 GLN A 63 1 17 HELIX 4 AA4 GLY A 84 GLY A 89 1 6 HELIX 5 AA5 VAL A 106 ASP A 118 1 13 HELIX 6 AA6 ASP A 120 ASP A 147 1 28 HELIX 7 AA7 HIS A 158 GLY A 163 5 6 HELIX 8 AA8 SER A 167 ALA A 169 5 3 HELIX 9 AA9 TRP A 170 ARG A 176 1 7 HELIX 10 AB1 ARG A 188 VAL A 193 1 6 HELIX 11 AB2 ASN A 194 ARG A 198 5 5 HELIX 12 AB3 ARG A 200 LEU A 217 1 18 HELIX 13 AB4 ASP A 220 SER A 228 1 9 HELIX 14 AB5 ASP A 234 GLN A 256 1 23 HELIX 15 AB6 GLU A 261 LEU A 276 1 16 HELIX 16 AB7 THR A 299 PHE A 303 5 5 HELIX 17 AB8 LEU A 304 GLY A 309 1 6 HELIX 18 AB9 HIS A 312 ALA A 330 1 19 HELIX 19 AC1 TRP A 355 TYR A 369 1 15 HELIX 20 AC2 PHE A 371 GLY A 390 1 20 HELIX 21 AC3 PHE A 408 THR A 419 1 12 HELIX 22 AC4 LEU B 4 SER B 16 1 13 HELIX 23 AC5 LEU B 33 THR B 44 1 12 HELIX 24 AC6 ASP B 47 GLN B 63 1 17 HELIX 25 AC7 VAL B 106 ASP B 118 1 13 HELIX 26 AC8 ASP B 120 ASP B 147 1 28 HELIX 27 AC9 HIS B 158 SER B 162 5 5 HELIX 28 AD1 SER B 167 ALA B 169 5 3 HELIX 29 AD2 TRP B 170 ARG B 176 1 7 HELIX 30 AD3 ARG B 188 VAL B 193 1 6 HELIX 31 AD4 ASN B 194 ARG B 198 5 5 HELIX 32 AD5 ARG B 200 LEU B 217 1 18 HELIX 33 AD6 ASP B 220 SER B 228 1 9 HELIX 34 AD7 ASP B 234 GLN B 256 1 23 HELIX 35 AD8 GLU B 261 LEU B 276 1 16 HELIX 36 AD9 THR B 299 PHE B 303 5 5 HELIX 37 AE1 LEU B 304 GLY B 309 1 6 HELIX 38 AE2 HIS B 312 GLY B 327 1 16 HELIX 39 AE3 TRP B 355 TYR B 369 1 15 HELIX 40 AE4 PHE B 371 GLY B 390 1 20 HELIX 41 AE5 PHE B 408 THR B 419 1 12 SHEET 1 AA1 2 GLN A 31 TRP A 32 0 SHEET 2 AA1 2 ILE A 72 VAL A 73 -1 O VAL A 73 N GLN A 31 SHEET 1 AA2 3 VAL A 232 VAL A 233 0 SHEET 2 AA2 3 TRP A 287 ASP A 288 -1 O TRP A 287 N VAL A 233 SHEET 3 AA2 3 GLU A 293 PRO A 294 -1 O GLU A 293 N ASP A 288 SHEET 1 AA3 2 TRP A 277 ASP A 278 0 SHEET 2 AA3 2 PHE A 283 TYR A 284 -1 O PHE A 283 N ASP A 278 SHEET 1 AA4 2 TYR A 394 TYR A 395 0 SHEET 2 AA4 2 GLY A 402 ARG A 403 -1 O ARG A 403 N TYR A 394 SHEET 1 AA5 2 GLN B 31 TRP B 32 0 SHEET 2 AA5 2 ILE B 72 VAL B 73 -1 O VAL B 73 N GLN B 31 SHEET 1 AA6 3 VAL B 232 VAL B 233 0 SHEET 2 AA6 3 TRP B 287 ASP B 288 -1 O TRP B 287 N VAL B 233 SHEET 3 AA6 3 GLU B 293 PRO B 294 -1 O GLU B 293 N ASP B 288 SHEET 1 AA7 2 TRP B 277 ASP B 278 0 SHEET 2 AA7 2 PHE B 283 TYR B 284 -1 O PHE B 283 N ASP B 278 SHEET 1 AA8 2 TYR B 394 TYR B 395 0 SHEET 2 AA8 2 GLY B 402 ARG B 403 -1 O ARG B 403 N TYR B 394 CISPEP 1 PHE A 82 PRO A 83 0 7.33 CISPEP 2 LEU A 333 LEU A 334 0 12.50 CISPEP 3 PHE B 82 PRO B 83 0 4.76 CISPEP 4 LEU B 333 LEU B 334 0 11.68 SITE 1 AC1 3 HIS A 312 GLN A 313 HOH A 640 SITE 1 AC2 11 TYR A 28 TRP A 32 TRP A 34 ASP A 35 SITE 2 AC2 11 GLN A 103 GLY A 163 TYR A 349 GLU A 393 SITE 3 AC2 11 PHE A 408 TRP A 410 DGY A 502 SITE 1 AC3 9 TRP A 32 HIS A 71 TYR A 81 ASP A 165 SITE 2 AC3 9 ARG A 198 TYR A 349 TRS A 501 HOH A 658 SITE 3 AC3 9 HOH A 692 SITE 1 AC4 3 HIS B 312 GLN B 313 HOH B 638 SITE 1 AC5 11 TYR B 28 TRP B 32 TRP B 34 ASP B 35 SITE 2 AC5 11 GLN B 103 GLY B 163 TYR B 349 TRP B 350 SITE 3 AC5 11 GLU B 393 PHE B 408 DGY B 502 SITE 1 AC6 10 TRP B 32 HIS B 71 TYR B 81 TRP B 160 SITE 2 AC6 10 ASP B 165 ARG B 198 TYR B 204 TYR B 349 SITE 3 AC6 10 TRS B 501 HOH B 664 CRYST1 92.940 92.940 190.401 90.00 90.00 120.00 P 3 2 1 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 0.010760 0.006212 0.000000 0.00000 SCALE2 0.000000 0.012424 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005252 0.00000