HEADER HYDROLASE/LECTIN 14-FEB-03 1OD8 TITLE XYLANASE XYN10A FROM STREPTOMYCES LIVIDANS IN COMPLEX WITH XYLOBIO- TITLE 2 ISOFAGOMINE LACTAM COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-1,4-BETA-XYLANASE A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC MODULE, RESIDUES 42-354; COMPND 5 SYNONYM: XYLANASE A; COMPND 6 EC: 3.2.1.8; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES LIVIDANS; SOURCE 3 ORGANISM_TAXID: 1916; SOURCE 4 EXPRESSION_SYSTEM: STREPTOMYCES LIVIDANS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 1916; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: IAF 19 KEYWDS HYDROLASE/LECTIN, GLYCOSIDE HYDROLASE FAMILY 10, XYLANASE, XYLAN KEYWDS 2 DEGRADATION, TRANSITION STATE MIMIC, ISOFAGOMINE LACTAM, HYDROLASE, KEYWDS 3 LECTIN, HYDROLASE-LECTIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.M.GLOSTER,S.ROBERTS,G.J.DAVIES REVDAT 5 13-DEC-23 1OD8 1 HETSYN LINK REVDAT 4 29-JUL-20 1OD8 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 24-FEB-09 1OD8 1 VERSN REVDAT 2 25-APR-03 1OD8 1 REMARK HET HETNAM HETSYN REVDAT 2 2 1 FORMUL SSBOND LINK TER REVDAT 2 3 1 HETATM ANISOU CONECT REVDAT 1 08-APR-03 1OD8 0 JRNL AUTH T.M.GLOSTER,S.J.WILLIAMS,C.TARLING,S.ROBERTS,C.DUPONT, JRNL AUTH 2 P.JODOIN,F.SHARECK,S.G.WITHERS,G.J.DAVIES JRNL TITL A XYLOBIOSE-DERIVED ISOFAGOMINE LACTAM GLYCOSIDASE INHIBITOR JRNL TITL 2 BINDS AS ITS AMIDE TAUTOMER JRNL REF CHEM.COMMUN.(CAMB.) V. 8 944 2003 JRNL REFN ISSN 1359-7345 JRNL PMID 12744311 JRNL DOI 10.1039/B301829F REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.03 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) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 112969 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) : 0.104 REMARK 3 R VALUE (WORKING SET) : 0.103 REMARK 3 FREE R VALUE : 0.126 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5945 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) : 1.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7089 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2580 REMARK 3 BIN FREE R VALUE SET COUNT : 360 REMARK 3 BIN FREE R VALUE : 0.2860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2324 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 629 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.11000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.15000 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): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.022 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.014 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.283 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.985 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.981 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2504 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2146 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3410 ; 1.689 ; 1.924 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4996 ; 0.850 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 305 ; 6.229 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 380 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2824 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 538 ; 0.000 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1550 ; 0.318 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 7907 ; 0.455 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 5148 ; 0.298 ; 0.200 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): 4 ; 0.614 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): 4 ; 0.335 ; 0.200 REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 235 ; 0.382 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 249 ; 0.427 ; 0.200 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): 1525 ; 2.030 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2459 ; 2.810 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 974 ; 3.441 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 942 ; 4.558 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1OD8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-FEB-03. REMARK 100 THE DEPOSITION ID IS D_1290011727. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : TORROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 121638 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.05 REMARK 200 R MERGE FOR SHELL (I) : 0.44100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1E0X REMARK 200 REMARK 200 REMARK: STRUCTURE ISOMORPHOUS WITH STARTING ENTRY REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MG/ML PROTEIN, 16% PEG 5K MME, 100 REMARK 280 MM IMIDAZOLE, PH 7.5, 5% ISOPROPANOL, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 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 32.90700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.86850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.93900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.86850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.90700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 22.93900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 CONTRIBUTES TO HYDROLYSE HEMICELLULOSE, THE MAJOR REMARK 400 COMPONENT OF PLANT CELL-WALLS. XLNA AND XLNB SEEM TO ACT REMARK 400 SEQUENTIALLY ON THE SUBSTRATE TO YIELD XYLOBIOSE AND XYLOSE. 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 ALA A 1 REMARK 465 ASP A 304 REMARK 465 SER A 305 REMARK 465 SER A 306 REMARK 465 GLU A 307 REMARK 465 PRO A 308 REMARK 465 PRO A 309 REMARK 465 ALA A 310 REMARK 465 ASP A 311 REMARK 465 GLY A 312 REMARK 465 GLY A 313 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 194 CG CD OE1 NE2 REMARK 470 GLY A 303 CA C O 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 152 CD GLU A 152 OE2 0.379 REMARK 500 GLU A 152 CD GLU A 152 OE2 1.955 REMARK 500 ASN A 187 CA ASN A 187 CB -0.178 REMARK 500 ASN A 187 CA ASN A 187 CB 0.213 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 GLU A 152 OE1 - CD - OE2 ANGL. DEV. = -97.4 DEGREES REMARK 500 GLU A 152 OE1 - CD - OE2 ANGL. DEV. = 17.7 DEGREES REMARK 500 GLU A 152 CG - CD - OE2 ANGL. DEV. = -31.9 DEGREES REMARK 500 ASN A 187 CB - CA - C ANGL. DEV. = 14.7 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 ASN A 45 -22.24 -141.37 REMARK 500 GLU A 236 40.44 -146.20 REMARK 500 VAL A 268 -78.88 -100.54 REMARK 500 THR A 279 60.42 33.12 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 GLU A 152 0.21 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2092 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A2244 DISTANCE = 6.11 ANGSTROMS 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 NA A1312 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 187 OD1 REMARK 620 2 ASN A 187 ND2 67.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 298 OD2 REMARK 620 2 HOH A2303 O 121.1 REMARK 620 N 1 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 10-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 11-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1E0V RELATED DB: PDB REMARK 900 XYLANASE 10A FROM SREPTOMYCES LIVIDANS. CELLOBIOSYL-ENZYME REMARK 900 INTERMEDIATE AT 1.7 A REMARK 900 RELATED ID: 1E0W RELATED DB: PDB REMARK 900 XYLANASE 10A FROM SREPTOMYCES LIVIDANS. NATIVE STRUCTURE AT 1.2 REMARK 900 ANGSTROM RESOLUTION REMARK 900 RELATED ID: 1E0X RELATED DB: PDB REMARK 900 XYLANASE 10A FROM SREPTOMYCES LIVIDANS. XYLOBIOSYL-ENZYME REMARK 900 INTERMEDIATE AT 1.65 A REMARK 900 RELATED ID: 1KNL RELATED DB: PDB REMARK 900 STREPTOMYCES LIVIDANS XYLAN BINDING DOMAIN CBM13 REMARK 900 RELATED ID: 1KNM RELATED DB: PDB REMARK 900 STREPTOMYCES LIVIDANS XYLAN BINDING DOMAIN CBM13 IN COMPLEX WITH REMARK 900 LACTOSE REMARK 900 RELATED ID: 1MC9 RELATED DB: PDB REMARK 900 STREPROMYCES LIVIDANS XYLAN BINDING DOMAIN CBM13 IN COMPLEXWITH REMARK 900 XYLOPENTAOSE REMARK 900 RELATED ID: 1XAS RELATED DB: PDB REMARK 900 1,4-BETA-D-XYLAN XYLANOHYDROLASE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE FIRST 41 RESIDUES IN THE DATABASE CORRESPOND REMARK 999 TO THE SIGNAL PEPTIDE. THE NUMBERING USED IN THE REMARK 999 PDB FILE IS AFTER CLEAVAGE OF THE SIGNAL PEPTIDE. REMARK 999 RESIDUE 1 AND THE LAST 11 RESIDUES ARE TOO DISORDERED REMARK 999 TO BE BUILT IN DENSITY DBREF 1OD8 A 1 313 UNP P26514 XYNA_STRLI 42 354 SEQRES 1 A 313 ALA GLU SER THR LEU GLY ALA ALA ALA ALA GLN SER GLY SEQRES 2 A 313 ARG TYR PHE GLY THR ALA ILE ALA SER GLY ARG LEU SER SEQRES 3 A 313 ASP SER THR TYR THR SER ILE ALA GLY ARG GLU PHE ASN SEQRES 4 A 313 MET VAL THR ALA GLU ASN GLU MET LYS ILE ASP ALA THR SEQRES 5 A 313 GLU PRO GLN ARG GLY GLN PHE ASN PHE SER SER ALA ASP SEQRES 6 A 313 ARG VAL TYR ASN TRP ALA VAL GLN ASN GLY LYS GLN VAL SEQRES 7 A 313 ARG GLY HIS THR LEU ALA TRP HIS SER GLN GLN PRO GLY SEQRES 8 A 313 TRP MET GLN SER LEU SER GLY SER ALA LEU ARG GLN ALA SEQRES 9 A 313 MET ILE ASP HIS ILE ASN GLY VAL MET ALA HIS TYR LYS SEQRES 10 A 313 GLY LYS ILE VAL GLN TRP ASP VAL VAL ASN GLU ALA PHE SEQRES 11 A 313 ALA ASP GLY SER SER GLY ALA ARG ARG ASP SER ASN LEU SEQRES 12 A 313 GLN ARG SER GLY ASN ASP TRP ILE GLU VAL ALA PHE ARG SEQRES 13 A 313 THR ALA ARG ALA ALA ASP PRO SER ALA LYS LEU CYS TYR SEQRES 14 A 313 ASN ASP TYR ASN VAL GLU ASN TRP THR TRP ALA LYS THR SEQRES 15 A 313 GLN ALA MET TYR ASN MET VAL ARG ASP PHE LYS GLN ARG SEQRES 16 A 313 GLY VAL PRO ILE ASP CYS VAL GLY PHE GLN SER HIS PHE SEQRES 17 A 313 ASN SER GLY SER PRO TYR ASN SER ASN PHE ARG THR THR SEQRES 18 A 313 LEU GLN ASN PHE ALA ALA LEU GLY VAL ASP VAL ALA ILE SEQRES 19 A 313 THR GLU LEU ASP ILE GLN GLY ALA PRO ALA SER THR TYR SEQRES 20 A 313 ALA ASN VAL THR ASN ASP CYS LEU ALA VAL SER ARG CYS SEQRES 21 A 313 LEU GLY ILE THR VAL TRP GLY VAL ARG ASP SER ASP SER SEQRES 22 A 313 TRP ARG SER GLU GLN THR PRO LEU LEU PHE ASN ASN ASP SEQRES 23 A 313 GLY SER LYS LYS ALA ALA TYR THR ALA VAL LEU ASP ALA SEQRES 24 A 313 LEU ASN GLY GLY ASP SER SER GLU PRO PRO ALA ASP GLY SEQRES 25 A 313 GLY HET NA A1303 1 HET NA A1304 1 HET NA A1305 1 HET XDL A1306 8 HET XYP A1307 10 HET IMD A1308 5 HET IMD A1309 5 HET XDL A1310 8 HET XYP A1311 10 HET NA A1312 1 HETNAM NA SODIUM ION HETNAM XDL XYLOSE-DERIVED ISOFAGOMINE LACTAM HETNAM XYP BETA-D-XYLOPYRANOSE HETNAM IMD IMIDAZOLE HETSYN XDL (3S)-3-HYDROXYPIPERIDIN-2-ONE HETSYN XYP BETA-D-XYLOSE; D-XYLOSE; XYLOSE FORMUL 2 NA 4(NA 1+) FORMUL 5 XDL 2(C5 H9 N O2) FORMUL 6 XYP 2(C5 H10 O5) FORMUL 7 IMD 2(C3 H5 N2 1+) FORMUL 12 HOH *629(H2 O) HELIX 1 1 THR A 4 GLN A 11 1 8 HELIX 2 2 ALA A 21 LEU A 25 5 5 HELIX 3 3 ASP A 27 PHE A 38 1 12 HELIX 4 4 LYS A 48 GLU A 53 1 6 HELIX 5 5 PHE A 61 ASN A 74 1 14 HELIX 6 6 PRO A 90 SER A 95 1 6 HELIX 7 7 SER A 97 TYR A 116 1 20 HELIX 8 8 SER A 141 SER A 146 1 6 HELIX 9 9 ASP A 149 ASP A 162 1 14 HELIX 10 10 TRP A 179 GLY A 196 1 18 HELIX 11 11 ASN A 217 ALA A 227 1 11 HELIX 12 12 PRO A 243 ALA A 256 1 14 HELIX 13 13 ASP A 270 SER A 273 5 4 HELIX 14 14 ARG A 275 THR A 279 5 5 HELIX 15 15 LYS A 290 ASN A 301 1 12 SHEET 1 AA11 TYR A 15 ILE A 20 0 SHEET 2 AA11 CYS A 260 VAL A 265 1 O LEU A 261 N TYR A 15 SHEET 3 AA11 ASP A 231 ILE A 239 1 O VAL A 232 N LEU A 261 SHEET 4 AA11 CYS A 201 PHE A 204 1 O VAL A 202 N ALA A 233 SHEET 5 AA11 LYS A 166 ASP A 171 1 O TYR A 169 N GLY A 203 SHEET 6 AA11 GLN A 122 ASN A 127 1 O TRP A 123 N CYS A 168 SHEET 7 AA11 GLN A 77 ALA A 84 1 O GLY A 80 N ASP A 124 SHEET 8 AA11 MET A 40 ALA A 43 1 O VAL A 41 N ARG A 79 SHEET 9 AA11 TYR A 15 ILE A 20 1 O THR A 18 N THR A 42 SHEET 10 AA11 CYS A 260 VAL A 265 1 O LEU A 261 N TYR A 15 SHEET 11 AA11 TYR A 15 ILE A 20 1 O TYR A 15 N ILE A 263 SSBOND 1 CYS A 168 CYS A 201 1555 1555 2.02 SSBOND 2 CYS A 254 CYS A 260 1555 1555 2.07 LINK C4 XDL A1306 O1 XYP A1307 1555 1555 1.43 LINK C4 XDL A1310 O1 XYP A1311 1555 1555 1.44 LINK OE1 GLU A 2 NA NA A1305 1555 1555 2.10 LINK OD1BASN A 187 NA NA A1312 1545 1555 2.16 LINK ND2BASN A 187 NA NA A1312 1545 1555 1.83 LINK OD2BASP A 298 NA NA A1303 1555 1555 1.86 LINK O GLY A 302 NA NA A1304 1555 1555 1.92 LINK NA NA A1303 O HOH A2303 1555 1555 2.42 CISPEP 1 HIS A 81 THR A 82 0 -0.90 CRYST1 65.814 45.878 85.737 90.00 90.00 90.00 P 21 21 21 4 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 0.015194 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021797 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011663 0.00000