HEADER HYDROLASE 13-DEC-10 2Y24 TITLE STRUCTURAL BASIS FOR SUBSTRATE RECOGNITION BY ERWINIA CHRYSANTHEMI GH5 TITLE 2 GLUCURONOXYLANASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: XYLANASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 31-413; COMPND 5 SYNONYM: GLUCURONOXYLAN XYLANOHYDROLASE, XYN A; COMPND 6 EC: 3.2.1.8, 3.2.1.136; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ERWINIA CHRYSANTHEMI; SOURCE 3 ORGANISM_TAXID: 556; SOURCE 4 STRAIN: D1; SOURCE 5 EXPRESSION_SYSTEM: BACILLUS SUBTILIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 1423; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: A164DELTA5; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PDG268NEO KEYWDS HYDROLASE, GLUCURONOXYLAN-SPECIFIC XYLANASE, GH5 FAMILY, KEYWDS 2 ALDOTETRAOURONIC ACID EXPDTA X-RAY DIFFRACTION AUTHOR L.URBANIKOVA,M.VRSANSKA,K.B.KROGH,T.HOFF,P.BIELY REVDAT 5 20-DEC-23 2Y24 1 HETSYN LINK REVDAT 4 29-JUL-20 2Y24 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 17-JUL-19 2Y24 1 REMARK REVDAT 2 21-DEC-11 2Y24 1 JRNL REMARK VERSN REVDAT 1 01-JUN-11 2Y24 0 JRNL AUTH L.URBANIKOVA,M.VRSANSKA,K.B.KROGH,T.HOFF,P.BIELY JRNL TITL STRUCTURAL BASIS FOR SUBSTRATE RECOGNITION BY ERWINIA JRNL TITL 2 CHRYSANTHEMI GH30 GLUCURONOXYLANASE. JRNL REF FEBS J. V. 278 2105 2011 JRNL REFN ISSN 1742-464X JRNL PMID 21501386 JRNL DOI 10.1111/J.1742-4658.2011.08127.X REMARK 2 REMARK 2 RESOLUTION. 1.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 66696 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) : 0.122 REMARK 3 R VALUE (WORKING SET) : 0.120 REMARK 3 FREE R VALUE : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3543 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) : 1.39 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.42 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4809 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.1720 REMARK 3 BIN FREE R VALUE SET COUNT : 250 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2963 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 571 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.03000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.056 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.056 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.035 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.948 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3183 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2121 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4313 ; 1.973 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5228 ; 2.391 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 388 ; 6.841 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 133 ;38.771 ;25.188 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 527 ;13.475 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;21.946 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 477 ; 0.139 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3468 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 602 ; 0.002 ; 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): 1930 ; 2.168 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 790 ; 0.951 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3125 ; 2.974 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1253 ; 4.516 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1188 ; 5.962 ; 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): 5304 ; 2.051 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 2Y24 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1290046669. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-09 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 : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.81230 REMARK 200 MONOCHROMATOR : SI )111), HORIZONTALLY FOCUSSING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH SX-165 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70207 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.390 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.300 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 8.500 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 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: PDB ENTRY 1NOF REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CO-CRYSTALLIZATION USING 0.1 M REMARK 280 IMIDAZOLE - DL-MALIC ACID BUFFER, PH 7.5 AND 20% PEG 1500 AS REMARK 280 PRECIPITANT SOLUTION 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 112.19733 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 56.09867 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 56.09867 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 112.19733 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: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 A1664 LIES ON A SPECIAL POSITION. 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 O HOH A 1106 O HOH A 1150 0.62 REMARK 500 O HOH A 1133 O HOH A 1196 0.68 REMARK 500 O HOH A 1466 O HOH A 1553 0.87 REMARK 500 O HOH A 1103 O HOH A 1358 1.05 REMARK 500 O HOH A 1112 O HOH A 1276 1.06 REMARK 500 O HOH A 1107 O HOH A 1208 1.10 REMARK 500 O HOH A 1313 O HOH A 1514 1.35 REMARK 500 O HOH A 1335 O HOH A 1454 1.42 REMARK 500 O HOH A 1447 O HOH A 1488 1.46 REMARK 500 O HOH A 1657 O HOH A 1658 1.68 REMARK 500 O HOH A 1142 O HOH A 1318 1.68 REMARK 500 O HOH A 1355 O HOH A 1483 1.80 REMARK 500 OD1 ASN A 38 O HOH A 1101 1.84 REMARK 500 O HOH A 1331 O HOH A 1535 1.90 REMARK 500 OE1 GLN A 45 O HOH A 1102 1.92 REMARK 500 O HOH A 1116 O HOH A 1549 1.95 REMARK 500 O HOH A 1553 O HOH A 1662 2.01 REMARK 500 OH TYR A 139 O HOH A 1103 2.03 REMARK 500 O HOH A 1101 O HOH A 1147 2.05 REMARK 500 O HOH A 1437 O HOH A 1503 2.09 REMARK 500 O HOH A 1536 O HOH A 1574 2.10 REMARK 500 C8 PG4 A 1005 O HOH A 1361 2.12 REMARK 500 O HOH A 1151 O HOH A 1492 2.15 REMARK 500 NZ LYS A 107 O HOH A 1104 2.17 REMARK 500 O LEU A 196 O HOH A 1105 2.19 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 A 1604 O HOH A 1604 4645 1.97 REMARK 500 O HOH A 1647 O HOH A 1647 6554 2.00 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 SER A 221 CB SER A 221 OG -0.105 REMARK 500 GLU A 270 CB GLU A 270 CG 0.134 REMARK 500 GLU A 270 CG GLU A 270 CD 0.095 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 ARG A 81 NE - CZ - NH1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG A 81 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 99 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 99 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 319 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 VAL A 411 CA - CB - CG1 ANGL. DEV. = 10.4 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 TYR A 41 -124.68 -118.67 REMARK 500 GLN A 163 135.94 -171.54 REMARK 500 ASP A 257 95.53 -4.33 REMARK 500 TRP A 289 -150.94 -71.64 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 A1667 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A1668 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH A1669 DISTANCE = 6.77 ANGSTROMS REMARK 525 HOH A1670 DISTANCE = 6.82 ANGSTROMS REMARK 525 HOH A1671 DISTANCE = 6.96 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 B-D-XYLOPYRANOSYL-1,4-[4-O-METHYL-A-D-GLUCURONOSYL-1, REMARK 600 2]-B-D-XYLOPYRANOSYL-1,4-D-XYLOSE (RESIDUES 1001-1004): REMARK 600 OLIGOMER COMPOSED OF 3 XYLOSE MONOMERS AND METHYL GLUCURONIC REMARK 600 ACID BOUND AT MIDDLE XYLOSE UNIT REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AB" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NOF RELATED DB: PDB REMARK 900 THE FIRST CRYSTALLOGRAPHIC STRUCTURE OF A XYLANASE FROMGLYCOSYL REMARK 900 HYDROLASE FAMILY 5: IMPLICATIONS FOR CATALYSIS DBREF 2Y24 A 31 413 UNP Q46961 Q46961_ERWCH 31 413 SEQRES 1 A 383 ASP THR VAL LYS ILE ASP ALA ASN VAL ASN TYR GLN ILE SEQRES 2 A 383 ILE GLN GLY PHE GLY GLY MET SER GLY VAL GLY TRP ILE SEQRES 3 A 383 ASN ASP LEU THR THR GLU GLN ILE ASN THR ALA TYR GLY SEQRES 4 A 383 SER GLY VAL GLY GLN ILE GLY LEU SER ILE MET ARG VAL SEQRES 5 A 383 ARG ILE ASP PRO ASP SER SER LYS TRP ASN ILE GLN LEU SEQRES 6 A 383 PRO SER ALA ARG GLN ALA VAL SER LEU GLY ALA LYS ILE SEQRES 7 A 383 MET ALA THR PRO TRP SER PRO PRO ALA TYR MET LYS SER SEQRES 8 A 383 ASN ASN SER LEU ILE ASN GLY GLY ARG LEU LEU PRO ALA SEQRES 9 A 383 ASN TYR SER ALA TYR THR SER HIS LEU LEU ASP PHE SER SEQRES 10 A 383 LYS TYR MET GLN THR ASN GLY ALA PRO LEU TYR ALA ILE SEQRES 11 A 383 SER ILE GLN ASN GLU PRO ASP TRP LYS PRO ASP TYR GLU SEQRES 12 A 383 SER CYS GLU TRP SER GLY ASP GLU PHE LYS SER TYR LEU SEQRES 13 A 383 LYS SER GLN GLY SER LYS PHE GLY SER LEU LYS VAL ILE SEQRES 14 A 383 VAL ALA GLU SER LEU GLY PHE ASN PRO ALA LEU THR ASP SEQRES 15 A 383 PRO VAL LEU LYS ASP SER ASP ALA SER LYS TYR VAL SER SEQRES 16 A 383 ILE ILE GLY GLY HIS LEU TYR GLY THR THR PRO LYS PRO SEQRES 17 A 383 TYR PRO LEU ALA GLN ASN ALA GLY LYS GLN LEU TRP MET SEQRES 18 A 383 THR GLU HIS TYR VAL ASP SER LYS GLN SER ALA ASN ASN SEQRES 19 A 383 TRP THR SER ALA ILE GLU VAL GLY THR GLU LEU ASN ALA SEQRES 20 A 383 SER MET VAL SER ASN TYR SER ALA TYR VAL TRP TRP TYR SEQRES 21 A 383 ILE ARG ARG SER TYR GLY LEU LEU THR GLU ASP GLY LYS SEQRES 22 A 383 VAL SER LYS ARG GLY TYR VAL MET SER GLN TYR ALA ARG SEQRES 23 A 383 PHE VAL ARG PRO GLY ALA LEU ARG ILE GLN ALA THR GLU SEQRES 24 A 383 ASN PRO GLN SER ASN VAL HIS LEU THR ALA TYR LYS ASN SEQRES 25 A 383 THR ASP GLY LYS MET VAL ILE VAL ALA VAL ASN THR ASN SEQRES 26 A 383 ASP SER ASP GLN MET LEU SER LEU ASN ILE SER ASN ALA SEQRES 27 A 383 ASN VAL THR LYS PHE GLU LYS TYR SER THR SER ALA SER SEQRES 28 A 383 LEU ASN VAL GLU TYR GLY GLY SER SER GLN VAL ASP SER SEQRES 29 A 383 SER GLY LYS ALA THR VAL TRP LEU ASN PRO LEU SER VAL SEQRES 30 A 383 THR THR PHE VAL SER LYS HET XYP B 1 10 HET XYP B 2 9 HET GCV B 3 13 HET XYP B 4 9 HET PG4 A1005 13 HET PG4 A1006 13 HET PGE A1007 10 HET IMD A1008 5 HETNAM XYP BETA-D-XYLOPYRANOSE HETNAM GCV 4-O-METHYL-ALPHA-D-GLUCOPYRANURONIC ACID HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM PGE TRIETHYLENE GLYCOL HETNAM IMD IMIDAZOLE HETSYN XYP BETA-D-XYLOSE; D-XYLOSE; XYLOSE HETSYN GCV 4-O-METHYL-ALPHA-D-GLUCURONIC ACID; 4-O-METHYL-D- HETSYN 2 GCV GLUCURONIC ACID; 4-O-METHYL-GLUCURONIC ACID FORMUL 2 XYP 3(C5 H10 O5) FORMUL 2 GCV C7 H12 O7 FORMUL 3 PG4 2(C8 H18 O5) FORMUL 5 PGE C6 H14 O4 FORMUL 6 IMD C3 H5 N2 1+ FORMUL 7 HOH *571(H2 O) HELIX 1 AA1 THR A 60 GLY A 69 1 10 HELIX 2 AA2 ASP A 87 ILE A 93 5 7 HELIX 3 AA3 GLN A 94 LEU A 104 1 11 HELIX 4 AA4 PRO A 116 LYS A 120 5 5 HELIX 5 AA5 LEU A 132 ALA A 134 5 3 HELIX 6 AA6 ASN A 135 ASN A 153 1 19 HELIX 7 AA7 SER A 178 GLY A 190 1 13 HELIX 8 AA8 SER A 191 PHE A 193 5 3 HELIX 9 AA9 ASN A 207 LEU A 210 5 4 HELIX 10 AB1 THR A 211 LYS A 216 1 6 HELIX 11 AB2 ASP A 217 LYS A 222 1 6 HELIX 12 AB3 TYR A 239 ALA A 245 1 7 HELIX 13 AB4 ASN A 264 SER A 281 1 18 HELIX 14 AB5 SER A 305 ARG A 316 1 12 SHEET 1 AA1 9 GLU A 385 GLN A 391 0 SHEET 2 AA1 9 LYS A 372 THR A 378 -1 N LYS A 375 O GLY A 388 SHEET 3 AA1 9 SER A 406 SER A 412 -1 O THR A 409 N TYR A 376 SHEET 4 AA1 9 MET A 347 ASN A 353 -1 N ALA A 351 O THR A 408 SHEET 5 AA1 9 VAL A 335 LYS A 341 -1 N HIS A 336 O VAL A 352 SHEET 6 AA1 9 LEU A 323 ALA A 327 -1 N LEU A 323 O LYS A 341 SHEET 7 AA1 9 THR A 32 ILE A 43 -1 N TYR A 41 O ARG A 324 SHEET 8 AA1 9 GLN A 359 SER A 366 1 O SER A 366 N ILE A 35 SHEET 9 AA1 9 LYS A 397 LEU A 402 -1 O VAL A 400 N LEU A 361 SHEET 1 AA2 9 GLY A 46 MET A 50 0 SHEET 2 AA2 9 ILE A 79 ILE A 84 1 O ARG A 81 N GLY A 49 SHEET 3 AA2 9 LYS A 107 PRO A 112 1 O THR A 111 N VAL A 82 SHEET 4 AA2 9 ALA A 159 SER A 161 1 O SER A 161 N ALA A 110 SHEET 5 AA2 9 LYS A 197 SER A 203 1 O ILE A 199 N ILE A 160 SHEET 6 AA2 9 ILE A 226 HIS A 230 1 O HIS A 230 N SER A 203 SHEET 7 AA2 9 GLN A 248 HIS A 254 1 O GLN A 248 N ILE A 227 SHEET 8 AA2 9 ALA A 285 TYR A 290 1 O ALA A 285 N MET A 251 SHEET 9 AA2 9 GLY A 46 MET A 50 1 N GLY A 48 O TYR A 286 LINK O4 XYP B 1 C1 XYP B 2 1555 1555 1.38 LINK O2 XYP B 2 C1 GCV B 3 1555 1555 1.40 LINK O4 XYP B 2 C1 XYP B 4 1555 1555 1.45 CISPEP 1 VAL A 200 ALA A 201 0 -2.65 CRYST1 59.578 59.578 168.296 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 0.016785 0.009691 0.000000 0.00000 SCALE2 0.000000 0.019381 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005942 0.00000