HEADER HYDROLASE 09-AUG-11 3VGE TITLE CRYSTAL STRUCTURE OF GLYCOSYLTREHALOSE TREHALOHYDROLASE (D252S) COMPND MOL_ID: 1; COMPND 2 MOLECULE: MALTO-OLIGOSYLTREHALOSE TREHALOHYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MTHASE, 4-ALPHA-D-((1->4)-ALPHA-D-GLUCANO)TREHALOSE COMPND 5 TREHALOHYDROLASE, GLYCOSYLTREHALOSE TREHALOHYDROLASE, GTHASE, COMPND 6 MALTOOLIGOSYL TREHALOSE TREHALOHYDROLASE; COMPND 7 EC: 3.2.1.141; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SULFOLOBUS SOLFATARICUS; SOURCE 3 ORGANISM_TAXID: 2287; SOURCE 4 GENE: TREZ; SOURCE 5 EXPRESSION_SYSTEM: PICHIA JADINII; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4903; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGUSS2 KEYWDS ALPHA/BETA BARREL, TREHALOSE, TREHALOHYDROLASE, ALPHA-AMYLASE, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.OKAZAKI,T.TAMADA,M.D.FEESE,M.KATO,Y.MIURA,T.KOMEDA,K.KOBAYASHI, AUTHOR 2 K.KONDO,R.KUROKI REVDAT 4 16-OCT-24 3VGE 1 REMARK REVDAT 3 08-NOV-23 3VGE 1 REMARK SEQADV REVDAT 2 22-NOV-17 3VGE 1 REMARK REVDAT 1 20-JUN-12 3VGE 0 JRNL AUTH N.OKAZAKI,T.TAMADA,M.D.FEESE,M.KATO,Y.MIURA,T.KOMEDA, JRNL AUTH 2 K.KOBAYASHI,K.KONDO,M.BLABER,R.KUROKI JRNL TITL SUBSTRATE RECOGNITION MECHANISM OF A GLYCOSYLTREHALOSE JRNL TITL 2 TREHALOHYDROLASE FROM SULFOLOBUS SOLFATARICUS KM1. JRNL REF PROTEIN SCI. V. 21 539 2012 JRNL REFN ISSN 0961-8368 JRNL PMID 22334583 JRNL DOI 10.1002/PRO.2039 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 26037 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1384 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) : 2.71 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.78 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1704 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 106 REMARK 3 BIN FREE R VALUE : 0.2950 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4552 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 165 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.10000 REMARK 3 B22 (A**2) : 3.10000 REMARK 3 B33 (A**2) : -4.66000 REMARK 3 B12 (A**2) : 1.55000 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): 0.368 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.253 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.175 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.997 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4719 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6364 ; 1.961 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 554 ; 7.437 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 244 ;38.370 ;24.426 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 812 ;21.290 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;19.905 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 651 ; 0.140 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3632 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2756 ; 0.846 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4457 ; 1.683 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1963 ; 2.719 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1907 ; 4.546 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 557 REMARK 3 ORIGIN FOR THE GROUP (A): 11.6172 33.4469 22.4289 REMARK 3 T TENSOR REMARK 3 T11: 0.0083 T22: 0.1086 REMARK 3 T33: 0.0381 T12: 0.0243 REMARK 3 T13: 0.0032 T23: 0.0109 REMARK 3 L TENSOR REMARK 3 L11: 0.3205 L22: 0.0243 REMARK 3 L33: 0.6792 L12: 0.0134 REMARK 3 L13: 0.1424 L23: 0.0019 REMARK 3 S TENSOR REMARK 3 S11: 0.0243 S12: -0.0036 S13: -0.0039 REMARK 3 S21: 0.0035 S22: -0.0057 S23: -0.0120 REMARK 3 S31: -0.0115 S32: -0.0816 S33: -0.0186 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 U VALUES REMARK 4 REMARK 4 3VGE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000095011. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAR-02 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 : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27427 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 94.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.19300 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: MOLREP REMARK 200 STARTING MODEL: 1EH9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.1M SODIUM CITRATE, 0.1M HEPES, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 188.29600 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 94.14800 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 94.14800 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 188.29600 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 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 0.00000 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 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 A2111 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 THR A 1 REMARK 465 PHE A 2 REMARK 465 LEU A 558 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 NH2 ARG A 394 OE1 GLU A 472 2.08 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 A 544 CG GLU A 544 CD 0.103 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 182 CB - CG - CD1 ANGL. DEV. = -10.3 DEGREES REMARK 500 ASP A 288 CB - CG - OD2 ANGL. DEV. = -5.7 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 17 54.10 -160.58 REMARK 500 LYS A 30 -37.45 -149.91 REMARK 500 ASN A 49 31.20 -99.89 REMARK 500 ARG A 53 -7.79 81.68 REMARK 500 ASP A 61 -58.07 -25.56 REMARK 500 SER A 71 132.49 -34.05 REMARK 500 TYR A 73 127.97 -175.58 REMARK 500 SER A 88 93.10 -60.98 REMARK 500 LYS A 89 58.72 -98.02 REMARK 500 ASP A 149 136.73 -170.13 REMARK 500 VAL A 155 -2.21 -146.88 REMARK 500 ASP A 223 -169.02 -116.49 REMARK 500 ALA A 253 69.26 34.03 REMARK 500 ARG A 278 -168.68 -107.99 REMARK 500 VAL A 342 -60.92 65.30 REMARK 500 TYR A 372 146.98 -172.17 REMARK 500 VAL A 379 -61.05 -101.68 REMARK 500 MET A 415 117.34 -34.94 REMARK 500 ASP A 430 45.92 -156.05 REMARK 500 TRP A 467 14.48 58.28 REMARK 500 CYS A 491 -15.03 75.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE A 112 THR A 113 -145.46 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 FLC A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1107 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EH9 RELATED DB: PDB REMARK 900 RELATED ID: 3VGC RELATED DB: PDB REMARK 900 RELATED ID: 3VGD RELATED DB: PDB REMARK 900 RELATED ID: 3VGF RELATED DB: PDB REMARK 900 RELATED ID: 3VGG RELATED DB: PDB REMARK 900 RELATED ID: 3VGH RELATED DB: PDB DBREF 3VGE A 1 558 UNP Q55088 TREZ_SULSF 2 559 SEQADV 3VGE SER A 252 UNP Q55088 ASP 253 ENGINEERED MUTATION SEQRES 1 A 558 THR PHE ALA TYR LYS ILE ASP GLY ASN GLU VAL ILE PHE SEQRES 2 A 558 THR LEU TRP ALA PRO TYR GLN LYS SER VAL LYS LEU LYS SEQRES 3 A 558 VAL LEU GLU LYS GLY LEU TYR GLU MET GLU ARG ASP GLU SEQRES 4 A 558 LYS GLY TYR PHE THR ILE THR LEU ASN ASN VAL LYS VAL SEQRES 5 A 558 ARG ASP ARG TYR LYS TYR VAL LEU ASP ASP ALA SER GLU SEQRES 6 A 558 ILE PRO ASP PRO ALA SER ARG TYR GLN PRO GLU GLY VAL SEQRES 7 A 558 HIS GLY PRO SER GLN ILE ILE GLN GLU SER LYS GLU PHE SEQRES 8 A 558 ASN ASN GLU THR PHE LEU LYS LYS GLU ASP LEU ILE ILE SEQRES 9 A 558 TYR GLU ILE HIS VAL GLY THR PHE THR PRO GLU GLY THR SEQRES 10 A 558 PHE GLU GLY VAL ILE ARG LYS LEU ASP TYR LEU LYS ASP SEQRES 11 A 558 LEU GLY ILE THR ALA ILE GLU ILE MET PRO ILE ALA GLN SEQRES 12 A 558 PHE PRO GLY LYS ARG ASP TRP GLY TYR ASP GLY VAL TYR SEQRES 13 A 558 LEU TYR ALA VAL GLN ASN SER TYR GLY GLY PRO GLU GLY SEQRES 14 A 558 PHE ARG LYS LEU VAL ASP GLU ALA HIS LYS LYS GLY LEU SEQRES 15 A 558 GLY VAL ILE LEU ASP VAL VAL TYR ASN HIS VAL GLY PRO SEQRES 16 A 558 GLU GLY ASN TYR MET VAL LYS LEU GLY PRO TYR PHE SER SEQRES 17 A 558 GLN LYS TYR LYS THR PRO TRP GLY LEU THR PHE ASN PHE SEQRES 18 A 558 ASP ASP ALA GLU SER ASP GLU VAL ARG LYS PHE ILE LEU SEQRES 19 A 558 GLU ASN VAL GLU TYR TRP ILE LYS GLU TYR ASN VAL ASP SEQRES 20 A 558 GLY PHE ARG LEU SER ALA VAL HIS ALA ILE ILE ASP THR SEQRES 21 A 558 SER PRO LYS HIS ILE LEU GLU GLU ILE ALA ASP VAL VAL SEQRES 22 A 558 HIS LYS TYR ASN ARG ILE VAL ILE ALA GLU SER ASP LEU SEQRES 23 A 558 ASN ASP PRO ARG VAL VAL ASN PRO LYS GLU LYS CYS GLY SEQRES 24 A 558 TYR ASN ILE ASP ALA GLN TRP VAL ASP ASP PHE HIS HIS SEQRES 25 A 558 SER ILE HIS ALA TYR LEU THR GLY GLU ARG GLN GLY TYR SEQRES 26 A 558 TYR THR ASP PHE GLY ASN LEU ASP ASP ILE VAL LYS SER SEQRES 27 A 558 TYR LYS ASP VAL PHE VAL TYR ASP GLY LYS TYR SER ASN SEQRES 28 A 558 PHE ARG ARG LYS THR HIS GLY GLU PRO VAL GLY GLU LEU SEQRES 29 A 558 ASP GLY CYS ASN PHE VAL VAL TYR ILE GLN ASN HIS ASP SEQRES 30 A 558 GLN VAL GLY ASN ARG GLY LYS GLY GLU ARG ILE ILE LYS SEQRES 31 A 558 LEU VAL ASP ARG GLU SER TYR LYS ILE ALA ALA ALA LEU SEQRES 32 A 558 TYR LEU LEU SER PRO TYR ILE PRO MET ILE PHE MET GLY SEQRES 33 A 558 GLU GLU TYR GLY GLU GLU ASN PRO PHE TYR PHE PHE SER SEQRES 34 A 558 ASP PHE SER ASP SER LYS LEU ILE GLN GLY VAL ARG GLU SEQRES 35 A 558 GLY ARG LYS LYS GLU ASN GLY GLN ASP THR ASP PRO GLN SEQRES 36 A 558 ASP GLU SER THR PHE ASN ALA SER LYS LEU SER TRP LYS SEQRES 37 A 558 ILE ASP GLU GLU ILE PHE SER PHE TYR LYS ILE LEU ILE SEQRES 38 A 558 LYS MET ARG LYS GLU LEU SER ILE ALA CYS ASP ARG ARG SEQRES 39 A 558 VAL ASN VAL VAL ASN GLY GLU ASN TRP LEU ILE ILE LYS SEQRES 40 A 558 GLY ARG GLU TYR PHE SER LEU TYR VAL PHE SER LYS SER SEQRES 41 A 558 SER ILE GLU VAL LYS TYR SER GLY THR LEU LEU LEU SER SEQRES 42 A 558 SER ASN ASN SER PHE PRO GLN HIS ILE GLU GLU GLY LYS SEQRES 43 A 558 TYR GLU PHE ASP LYS GLY PHE ALA LEU TYR LYS LEU HET FLC A1001 13 HET GOL A1101 6 HET GOL A1102 6 HET GOL A1103 6 HET GOL A1104 6 HET GOL A1105 6 HET GOL A1106 6 HET GOL A1107 6 HETNAM FLC CITRATE ANION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FLC C6 H5 O7 3- FORMUL 3 GOL 7(C3 H8 O3) FORMUL 10 HOH *165(H2 O) HELIX 1 1 LYS A 98 LEU A 102 5 5 HELIX 2 2 THR A 117 GLY A 132 1 16 HELIX 3 3 ASN A 162 TYR A 164 5 3 HELIX 4 4 GLY A 165 LYS A 180 1 16 HELIX 5 5 TYR A 199 LEU A 203 5 5 HELIX 6 6 GLU A 225 ASN A 245 1 21 HELIX 7 7 ALA A 253 ILE A 257 5 5 HELIX 8 8 HIS A 264 TYR A 276 1 13 HELIX 9 9 ASP A 288 VAL A 292 5 5 HELIX 10 10 PRO A 294 CYS A 298 5 5 HELIX 11 11 VAL A 307 GLY A 320 1 14 HELIX 12 12 GLN A 323 PHE A 329 5 7 HELIX 13 13 ASN A 331 VAL A 342 1 12 HELIX 14 14 ASP A 365 CYS A 367 5 3 HELIX 15 15 ASN A 375 ASN A 381 1 7 HELIX 16 16 ARG A 387 LEU A 391 5 5 HELIX 17 17 ASP A 393 LEU A 406 1 14 HELIX 18 18 GLY A 416 GLY A 420 5 5 HELIX 19 19 ASP A 433 GLY A 449 1 17 HELIX 20 20 GLU A 457 ALA A 462 1 6 HELIX 21 21 ASP A 470 LEU A 487 1 18 SHEET 1 A 4 TYR A 4 ASP A 7 0 SHEET 2 A 4 GLU A 10 TRP A 16 -1 O GLU A 10 N ASP A 7 SHEET 3 A 4 TYR A 42 LEU A 47 -1 O LEU A 47 N VAL A 11 SHEET 4 A 4 GLU A 36 ARG A 37 -1 N GLU A 36 O THR A 44 SHEET 1 B 4 GLY A 31 GLU A 34 0 SHEET 2 B 4 LYS A 24 VAL A 27 -1 N VAL A 27 O GLY A 31 SHEET 3 B 4 ARG A 55 VAL A 59 -1 O LYS A 57 N LYS A 26 SHEET 4 B 4 GLU A 65 ILE A 66 -1 O ILE A 66 N TYR A 58 SHEET 1 C 4 GLY A 31 GLU A 34 0 SHEET 2 C 4 LYS A 24 VAL A 27 -1 N VAL A 27 O GLY A 31 SHEET 3 C 4 ARG A 55 VAL A 59 -1 O LYS A 57 N LYS A 26 SHEET 4 C 4 SER A 82 GLN A 83 -1 O SER A 82 N TYR A 56 SHEET 1 D 9 ILE A 104 ILE A 107 0 SHEET 2 D 9 ALA A 135 ILE A 138 1 O GLU A 137 N TYR A 105 SHEET 3 D 9 GLY A 183 VAL A 188 1 O ILE A 185 N ILE A 138 SHEET 4 D 9 GLY A 248 LEU A 251 1 O ARG A 250 N VAL A 188 SHEET 5 D 9 ILE A 279 ALA A 282 1 O ILE A 281 N PHE A 249 SHEET 6 D 9 ALA A 304 TRP A 306 1 O ALA A 304 N ALA A 282 SHEET 7 D 9 PHE A 369 VAL A 371 1 O VAL A 370 N GLN A 305 SHEET 8 D 9 ILE A 410 PHE A 414 1 O ILE A 410 N PHE A 369 SHEET 9 D 9 ILE A 104 ILE A 107 1 N GLU A 106 O ILE A 413 SHEET 1 E 2 ALA A 142 GLN A 143 0 SHEET 2 E 2 TYR A 156 VAL A 160 -1 O ALA A 159 N GLN A 143 SHEET 1 F 2 PHE A 207 THR A 213 0 SHEET 2 F 2 GLY A 216 PHE A 219 -1 O GLY A 216 N THR A 213 SHEET 1 G 2 LYS A 348 SER A 350 0 SHEET 2 G 2 LYS A 355 HIS A 357 -1 O LYS A 355 N SER A 350 SHEET 1 H 6 ASN A 496 ASN A 499 0 SHEET 2 H 6 TRP A 503 LYS A 507 -1 O LYS A 507 N ASN A 496 SHEET 3 H 6 PHE A 512 VAL A 516 -1 O SER A 513 N ILE A 506 SHEET 4 H 6 GLY A 552 TYR A 556 -1 O ALA A 554 N LEU A 514 SHEET 5 H 6 GLY A 528 SER A 533 -1 N LEU A 531 O LEU A 555 SHEET 6 H 6 HIS A 541 ILE A 542 -1 O ILE A 542 N GLY A 528 SHEET 1 I 2 SER A 520 VAL A 524 0 SHEET 2 I 2 GLY A 545 PHE A 549 -1 O GLY A 545 N VAL A 524 SSBOND 1 CYS A 298 CYS A 298 1555 4555 2.10 SSBOND 2 CYS A 367 CYS A 491 1555 1555 2.12 SITE 1 AC1 8 GLN A 323 ARG A 382 GLY A 383 LYS A 384 SITE 2 AC1 8 ASN A 448 GOL A1104 HOH A2094 HOH A2095 SITE 1 AC2 4 GLU A 115 GLY A 116 SER A 163 PHE A 460 SITE 1 AC3 6 ARG A 123 LYS A 124 TRP A 467 SER A 537 SITE 2 AC3 6 GLU A 548 HOH A2009 SITE 1 AC4 7 LYS A 99 VAL A 292 ILE A 302 ASP A 303 SITE 2 AC4 7 ASN A 368 HOH A2145 HOH A2146 SITE 1 AC5 6 GLN A 323 TYR A 325 ARG A 382 FLC A1001 SITE 2 AC5 6 HOH A2046 HOH A2057 SITE 1 AC6 4 TYR A 127 LYS A 519 GLU A 548 HOH A2020 SITE 1 AC7 4 ILE A 85 SER A 88 ARG A 171 GLU A 243 SITE 1 AC8 6 TRP A 215 ARG A 250 SER A 252 GLU A 283 SITE 2 AC8 6 HIS A 376 ASP A 377 CRYST1 78.506 78.506 282.444 90.00 90.00 120.00 P 32 2 1 6 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 0.012738 0.007354 0.000000 0.00000 SCALE2 0.000000 0.014708 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003541 0.00000