PDB Short entry for 9XIA HEADER ISOMERASE(INTRAMOLECULAR OXIDOREDUCTASE)11-OCT-90 9XIA TITLE X-RAY ANALYSIS OF D-XYLOSE ISOMERASE AT 1.9 ANGSTROMS: NATIVE ENZYME TITLE 2 IN COMPLEX WITH SUBSTRATE AND WITH A MECHANISM-DESIGNED INACTIVATOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: XYLOSE ISOMERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 5.3.1.5; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES RUBIGINOSUS; SOURCE 3 ORGANISM_TAXID: 1929 KEYWDS ISOMERASE(INTRAMOLECULAR OXIDOREDUCTASE) EXPDTA X-RAY DIFFRACTION AUTHOR H.L.CARRELL,J.P.GLUSKER REVDAT 6 29-JUL-20 9XIA 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE ATOM REVDAT 5 13-JUL-11 9XIA 1 VERSN REVDAT 4 24-FEB-09 9XIA 1 VERSN REVDAT 3 01-APR-03 9XIA 1 JRNL REVDAT 2 15-JUL-92 9XIA 3 HET FORMUL HETATM REVDAT 1 15-OCT-91 9XIA 0 JRNL AUTH H.L.CARRELL,J.P.GLUSKER,V.BURGER,F.MANFRE,D.TRITSCH, JRNL AUTH 2 J.F.BIELLMANN JRNL TITL X-RAY ANALYSIS OF D-XYLOSE ISOMERASE AT 1.9 A: NATIVE ENZYME JRNL TITL 2 IN COMPLEX WITH SUBSTRATE AND WITH A MECHANISM-DESIGNED JRNL TITL 3 INACTIVATOR. JRNL REF PROC.NATL.ACAD.SCI.USA V. 86 4440 1989 JRNL REFN ISSN 0027-8424 JRNL PMID 2734296 JRNL DOI 10.1073/PNAS.86.12.4440 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.HENRICK,D.M.BLOW,H.L.CARRELL,J.P.GLUSKER REMARK 1 TITL COMPARISON OF BACKBONE STRUCTURES OF GLUCOSE ISOMERASE FROM REMARK 1 TITL 2 STREPTOMYCES AND ARTHROBACTER REMARK 1 REF PROTEIN ENG. V. 1 467 1987 REMARK 1 REFN ISSN 0269-2139 REMARK 1 REFERENCE 2 REMARK 1 AUTH H.L.CARRELL,B.H.RUBIN,T.J.HURLEY,J.P.GLUSKER REMARK 1 TITL X-RAY CRYSTAL STRUCTURE OF D-XYLOSE ISOMERASE AT 4-ANGSTROMS REMARK 1 TITL 2 RESOLUTION REMARK 1 REF J.BIOL.CHEM. V. 259 3230 1984 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 30250 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.141 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3047 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 299 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.023 ; NULL REMARK 3 ANGLE DISTANCE (A) : 0.045 ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9XIA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000180078. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 46.90000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 51.50000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.90000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.50000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.90000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.50000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.90000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 51.50000 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 300 REMARK: THE STRUCTURE OF THE MONOMER IS AN EIGHT-FOLD ALPHA-BETA REMARK 300 BARREL WITH AN EXTENDED C-TERMINAL LOOP WHICH FACILITATES REMARK 300 AGGREGATION OF MONOMERS TO TETRAMERS. TETRAMERS ARE REMARK 300 POSITIONED ON THE 222 SYMMETRY SITE AT THE ORIGIN OF THE REMARK 300 CELL. 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 33330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 46170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -161.0 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 -1.000000 0.000000 0.000000 93.80000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 100.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 93.80000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 103.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 100.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 103.00000 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 A 483 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 649 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 GLY A 388 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 NH1 ARG A 387 O HOH A 672 2.10 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 OD2 ASP A 28 O HOH A 595 3656 1.82 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 217 CD GLU A 217 OE1 -0.115 REMARK 500 GLU A 217 CD GLU A 217 OE2 -0.089 REMARK 500 ARG A 340 CZ ARG A 340 NH1 0.082 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 ASN A 2 CB - CA - C ANGL. DEV. = 15.6 DEGREES REMARK 500 TYR A 3 N - CA - CB ANGL. DEV. = -12.3 DEGREES REMARK 500 TYR A 3 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 TYR A 3 CB - CG - CD1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ASP A 24 CB - CA - C ANGL. DEV. = 16.1 DEGREES REMARK 500 ASP A 28 CB - CG - OD1 ANGL. DEV. = 10.0 DEGREES REMARK 500 ASP A 28 CB - CG - OD2 ANGL. DEV. = -9.6 DEGREES REMARK 500 ARG A 31 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ASP A 35 N - CA - CB ANGL. DEV. = -11.8 DEGREES REMARK 500 ASP A 35 CB - CG - OD1 ANGL. DEV. = -8.5 DEGREES REMARK 500 ASP A 35 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 42 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 42 NE - CZ - NH2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ASP A 56 CB - CG - OD1 ANGL. DEV. = 10.1 DEGREES REMARK 500 GLU A 67 CG - CD - OE2 ANGL. DEV. = -13.9 DEGREES REMARK 500 ARG A 68 CA - CB - CG ANGL. DEV. = 20.6 DEGREES REMARK 500 ARG A 68 NH1 - CZ - NH2 ANGL. DEV. = -12.3 DEGREES REMARK 500 ARG A 68 NE - CZ - NH2 ANGL. DEV. = 11.2 DEGREES REMARK 500 ARG A 74 NE - CZ - NH1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 74 NE - CZ - NH2 ANGL. DEV. = -10.9 DEGREES REMARK 500 ARG A 76 NH1 - CZ - NH2 ANGL. DEV. = 9.0 DEGREES REMARK 500 ARG A 76 NE - CZ - NH2 ANGL. DEV. = -11.8 DEGREES REMARK 500 PHE A 104 CB - CG - CD2 ANGL. DEV. = -4.6 DEGREES REMARK 500 ASP A 110 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 113 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 113 NE - CZ - NH2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 117 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG A 117 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 121 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP A 124 CB - CG - OD1 ANGL. DEV. = 11.1 DEGREES REMARK 500 ASP A 124 CB - CG - OD2 ANGL. DEV. = -6.7 DEGREES REMARK 500 GLU A 132 N - CA - CB ANGL. DEV. = -11.3 DEGREES REMARK 500 GLU A 144 OE1 - CD - OE2 ANGL. DEV. = -9.1 DEGREES REMARK 500 ARG A 152 NE - CZ - NH1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG A 152 NE - CZ - NH2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ASP A 163 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 TYR A 168 CB - CG - CD2 ANGL. DEV. = 4.2 DEGREES REMARK 500 TYR A 168 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 ASP A 175 CB - CG - OD1 ANGL. DEV. = -7.0 DEGREES REMARK 500 ILE A 176 O - C - N ANGL. DEV. = 10.5 DEGREES REMARK 500 GLU A 181 CB - CG - CD ANGL. DEV. = 23.7 DEGREES REMARK 500 ASP A 190 CB - CG - OD1 ANGL. DEV. = -7.1 DEGREES REMARK 500 VAL A 196 CA - CB - CG2 ANGL. DEV. = -9.5 DEGREES REMARK 500 GLU A 207 CG - CD - OE1 ANGL. DEV. = 12.8 DEGREES REMARK 500 ARG A 208 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 208 NE - CZ - NH2 ANGL. DEV. = -8.3 DEGREES REMARK 500 PHE A 242 CB - CG - CD2 ANGL. DEV. = -5.0 DEGREES REMARK 500 ASP A 245 CB - CG - OD2 ANGL. DEV. = 10.0 DEGREES REMARK 500 TYR A 254 CB - CG - CD1 ANGL. DEV. = -3.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 83 ANGLE DEVIATIONS. 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 THR A 17 -75.02 -85.33 REMARK 500 GLU A 186 109.25 77.20 REMARK 500 ASN A 247 -167.99 -170.63 REMARK 500 PHE A 357 -73.28 -155.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 42 0.13 SIDE CHAIN REMARK 500 ARG A 117 0.08 SIDE CHAIN REMARK 500 ARG A 321 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 391 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 181 OE2 REMARK 620 2 GLU A 217 OE2 103.1 REMARK 620 3 ASP A 245 OD1 86.2 105.2 REMARK 620 4 ASP A 287 OD2 166.5 88.8 96.9 REMARK 620 5 DFR A 389 O1 86.3 94.8 159.7 86.3 REMARK 620 6 DFR A 389 O5 87.2 158.8 93.8 79.5 67.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 390 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 217 OE1 REMARK 620 2 HIS A 220 NE2 80.8 REMARK 620 3 ASP A 255 OD1 165.3 94.9 REMARK 620 4 ASP A 255 OD2 112.2 92.8 53.7 REMARK 620 5 ASP A 257 OD2 85.8 161.8 95.0 80.8 REMARK 620 6 HOH A 408 O 102.1 104.6 92.5 143.6 90.2 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 THE STRUCTURE OF THE MONOMER IS AN EIGHT-FOLD ALPHA-BETA REMARK 700 BARREL WITH AN EXTENDED C-TERMINAL LOOP WHICH FACILITATES REMARK 700 AGGREGATION OF MONOMERS TO TETRAMERS. TETRAMERS ARE REMARK 700 POSITIONED ON THE 222 SYMMETRY SITE AT THE ORIGIN OF THE REMARK 700 CELL. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AMINO ACID SEQUENCE WAS TAKEN FROM INTERNATIONAL PATENT REMARK 999 APPLICATION NUMBER:PCT/US88/02765, INTERNATIONAL REMARK 999 PUBLICATION NUMBER:WO89/01520. IN THIS PATENT RESIDUE 41 REMARK 999 IS SPECIFIED AS ARG. HOWEVER, RESIDUE 41 APPEARS TO BE GLN REMARK 999 BASED ON THE CRYSTALLOGRAPHIC STUDY. IN THIS ENTRY RESIDUE REMARK 999 41 IS PRESENTED AS GLN. DBREF 9XIA A 2 388 UNP P24300 XYLA_STRRU 1 387 SEQADV 9XIA GLN A 41 UNP P24300 ARG 40 SEE REMARK 999 SEQRES 1 A 388 MET ASN TYR GLN PRO THR PRO GLU ASP ARG PHE THR PHE SEQRES 2 A 388 GLY LEU TRP THR VAL GLY TRP GLN GLY ARG ASP PRO PHE SEQRES 3 A 388 GLY ASP ALA THR ARG ARG ALA LEU ASP PRO VAL GLU SER SEQRES 4 A 388 VAL GLN ARG LEU ALA GLU LEU GLY ALA HIS GLY VAL THR SEQRES 5 A 388 PHE HIS ASP ASP ASP LEU ILE PRO PHE GLY SER SER ASP SEQRES 6 A 388 SER GLU ARG GLU GLU HIS VAL LYS ARG PHE ARG GLN ALA SEQRES 7 A 388 LEU ASP ASP THR GLY MET LYS VAL PRO MET ALA THR THR SEQRES 8 A 388 ASN LEU PHE THR HIS PRO VAL PHE LYS ASP GLY GLY PHE SEQRES 9 A 388 THR ALA ASN ASP ARG ASP VAL ARG ARG TYR ALA LEU ARG SEQRES 10 A 388 LYS THR ILE ARG ASN ILE ASP LEU ALA VAL GLU LEU GLY SEQRES 11 A 388 ALA GLU THR TYR VAL ALA TRP GLY GLY ARG GLU GLY ALA SEQRES 12 A 388 GLU SER GLY GLY ALA LYS ASP VAL ARG ASP ALA LEU ASP SEQRES 13 A 388 ARG MET LYS GLU ALA PHE ASP LEU LEU GLY GLU TYR VAL SEQRES 14 A 388 THR SER GLN GLY TYR ASP ILE ARG PHE ALA ILE GLU PRO SEQRES 15 A 388 LYS PRO ASN GLU PRO ARG GLY ASP ILE LEU LEU PRO THR SEQRES 16 A 388 VAL GLY HIS ALA LEU ALA PHE ILE GLU ARG LEU GLU ARG SEQRES 17 A 388 PRO GLU LEU TYR GLY VAL ASN PRO GLU VAL GLY HIS GLU SEQRES 18 A 388 GLN MET ALA GLY LEU ASN PHE PRO HIS GLY ILE ALA GLN SEQRES 19 A 388 ALA LEU TRP ALA GLY LYS LEU PHE HIS ILE ASP LEU ASN SEQRES 20 A 388 GLY GLN ASN GLY ILE LYS TYR ASP GLN ASP LEU ARG PHE SEQRES 21 A 388 GLY ALA GLY ASP LEU ARG ALA ALA PHE TRP LEU VAL ASP SEQRES 22 A 388 LEU LEU GLU SER ALA GLY TYR SER GLY PRO ARG HIS PHE SEQRES 23 A 388 ASP PHE LYS PRO PRO ARG THR GLU ASP PHE ASP GLY VAL SEQRES 24 A 388 TRP ALA SER ALA ALA GLY CYS MET ARG ASN TYR LEU ILE SEQRES 25 A 388 LEU LYS GLU ARG ALA ALA ALA PHE ARG ALA ASP PRO GLU SEQRES 26 A 388 VAL GLN GLU ALA LEU ARG ALA SER ARG LEU ASP GLU LEU SEQRES 27 A 388 ALA ARG PRO THR ALA ALA ASP GLY LEU GLN ALA LEU LEU SEQRES 28 A 388 ASP ASP ARG SER ALA PHE GLU GLU PHE ASP VAL ASP ALA SEQRES 29 A 388 ALA ALA ALA ARG GLY MET ALA PHE GLU ARG LEU ASP GLN SEQRES 30 A 388 LEU ALA MET ASP HIS LEU LEU GLY ALA ARG GLY HET DFR A 389 12 HET MN A 390 1 HET MN A 391 1 HETNAM DFR 3-DEOXY-3-METHYL-BETA-D-FRUCTOFURANOSE HETNAM MN MANGANESE (II) ION FORMUL 2 DFR C7 H14 O5 FORMUL 3 MN 2(MN 2+) FORMUL 5 HOH *299(H2 O) HELIX 1 1 THR A 6 ASP A 9 5 4 HELIX 2 2 LEU A 15 GLY A 19 1 5 HELIX 3 3 ASP A 35 GLY A 47 1 13 HELIX 4 4 ASP A 55 ILE A 59 1 5 HELIX 5 5 SER A 64 GLY A 83 1 20 HELIX 6 6 HIS A 96 LYS A 100 5 5 HELIX 7 7 ASP A 108 LEU A 129 1 22 HELIX 8 8 SER A 145 LYS A 149 5 5 HELIX 9 9 ASP A 150 GLY A 173 1 24 HELIX 10 10 THR A 195 GLU A 204 1 10 HELIX 11 11 ARG A 208 GLU A 210 5 3 HELIX 12 12 GLU A 217 MET A 223 1 7 HELIX 13 13 ASN A 227 ALA A 238 1 12 HELIX 14 14 ASP A 264 ALA A 278 1 15 HELIX 15 15 ASP A 295 ASP A 323 1 29 HELIX 16 16 ASP A 323 SER A 333 1 11 HELIX 17 17 ARG A 334 ALA A 339 1 6 HELIX 18 18 ASP A 345 ASP A 353 1 9 HELIX 19 19 ARG A 354 PHE A 357 5 4 HELIX 20 20 ASP A 361 ALA A 367 1 7 HELIX 21 21 ALA A 371 GLY A 385 1 15 SHEET 1 A 8 TYR A 212 VAL A 214 0 SHEET 2 A 8 ARG A 177 ILE A 180 1 O PHE A 178 N GLY A 213 SHEET 3 A 8 THR A 133 ALA A 136 1 N TYR A 134 O ARG A 177 SHEET 4 A 8 MET A 88 THR A 90 1 O ALA A 89 N VAL A 135 SHEET 5 A 8 GLY A 50 HIS A 54 1 O PHE A 53 N THR A 90 SHEET 6 A 8 PHE A 11 GLY A 14 1 O PHE A 11 N GLY A 50 SHEET 7 A 8 ARG A 284 PHE A 286 1 O ARG A 284 N THR A 12 SHEET 8 A 8 ASP A 245 LEU A 246 1 N LEU A 246 O HIS A 285 SHEET 1 B 2 GLY A 142 ALA A 143 0 SHEET 2 B 2 ASP A 190 ILE A 191 -1 O ASP A 190 N ALA A 143 LINK NE2 HIS A 54 C7 DFR A 389 1555 1555 1.78 LINK OE2 GLU A 181 MN MN A 391 1555 1555 2.29 LINK OE1 GLU A 217 MN MN A 390 1555 1555 2.20 LINK OE2 GLU A 217 MN MN A 391 1555 1555 2.35 LINK NE2 HIS A 220 MN MN A 390 1555 1555 2.35 LINK OD1 ASP A 245 MN MN A 391 1555 1555 2.31 LINK OD1 ASP A 255 MN MN A 390 1555 1555 2.28 LINK OD2 ASP A 255 MN MN A 390 1555 1555 2.41 LINK OD2 ASP A 257 MN MN A 390 1555 1555 2.28 LINK OD2 ASP A 287 MN MN A 391 1555 1555 2.28 LINK O1 DFR A 389 MN MN A 391 1555 1555 2.45 LINK O5 DFR A 389 MN MN A 391 1555 1555 2.57 LINK MN MN A 390 O HOH A 408 1555 1555 2.36 CISPEP 1 GLU A 186 PRO A 187 0 7.23 CRYST1 93.800 100.000 103.000 90.00 90.00 90.00 I 2 2 2 8 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 0.010661 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009709 0.00000