HEADER HYDROLASE 17-NOV-03 1US3 TITLE NATIVE XYLANASE10C FROM CELLVIBRIO JAPONICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDO-BETA-1,4-XYLANASE PRECURSOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CARBOHYDRATE BINDING MODULE AND CATALYTIC MODULE, RESIDUES COMPND 5 (86-606); COMPND 6 SYNONYM: XYLANASE10C; COMPND 7 EC: 3.2.1.8; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CELLVIBRIO JAPONICUS; SOURCE 3 ORGANISM_TAXID: 155077; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: TUNER\:PLYSS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PET 22B KEYWDS HYDROLASE, CARBOHYDRATE BINDING MODULE, XYLAN DEGRADATION EXPDTA X-RAY DIFFRACTION AUTHOR G.PELL,L.SZABO,S.J.CHARNOCK,H.XIE,T.M.GLOSTER,G.J.DAVIES,H.J.GILBERT REVDAT 7 13-DEC-23 1US3 1 REMARK LINK REVDAT 6 30-AUG-17 1US3 1 REMARK REVDAT 5 27-JUL-11 1US3 1 REMARK LINK CONECT REVDAT 4 13-JUL-11 1US3 1 VERSN REVDAT 3 24-FEB-09 1US3 1 VERSN REVDAT 2 18-MAR-04 1US3 1 JRNL REVDAT 1 18-DEC-03 1US3 0 JRNL AUTH G.PELL,L.SZABO,S.J.CHARNOCK,H.XIE,T.M.GLOSTER,G.J.DAVIES, JRNL AUTH 2 H.J.GILBERT JRNL TITL STRUCTURAL AND BIOCHEMICAL ANALYSIS OF CELLVIBRIO JAPONICUS JRNL TITL 2 XYLANASE 10C: HOW VARIATION IN SUBSTRATE-BINDING CLEFT JRNL TITL 3 INFLUENCES THE CATALYTIC PROFILE OF FAMILY GH-10 XYLANASES JRNL REF J.BIOL.CHEM. V. 279 11777 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 14670951 JRNL DOI 10.1074/JBC.M311947200 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 49184 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) : 0.160 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2636 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3465 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 189 REMARK 3 BIN FREE R VALUE : 0.2050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3703 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 681 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.26000 REMARK 3 B22 (A**2) : -0.37000 REMARK 3 B33 (A**2) : 0.63000 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): 0.114 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.111 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.258 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3829 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5211 ; 1.392 ; 1.919 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 475 ; 6.210 ; 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): 591 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2912 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1818 ; 0.194 ; 0.200 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): 536 ; 0.136 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 6 ; 0.056 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 43 ; 0.225 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 34 ; 0.139 ; 0.200 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): 2400 ; 0.666 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3866 ; 1.134 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1429 ; 1.977 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1345 ; 2.941 ; 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 : 2 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 243 A 606 REMARK 3 ORIGIN FOR THE GROUP (A): 16.4190 62.5770 128.9480 REMARK 3 T TENSOR REMARK 3 T11: 0.0504 T22: 0.0492 REMARK 3 T33: 0.0032 T12: -0.0122 REMARK 3 T13: 0.0063 T23: -0.0121 REMARK 3 L TENSOR REMARK 3 L11: 0.6424 L22: 0.5057 REMARK 3 L33: 0.9547 L12: -0.0429 REMARK 3 L13: 0.1525 L23: -0.1257 REMARK 3 S TENSOR REMARK 3 S11: -0.0237 S12: 0.0228 S13: -0.0570 REMARK 3 S21: -0.0468 S22: 0.0060 S23: -0.0026 REMARK 3 S31: 0.0368 S32: 0.0007 S33: 0.0177 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 97 A 238 REMARK 3 ORIGIN FOR THE GROUP (A): 14.0580 37.9710 82.5510 REMARK 3 T TENSOR REMARK 3 T11: 0.3679 T22: 0.3295 REMARK 3 T33: 0.2426 T12: -0.0043 REMARK 3 T13: -0.0689 T23: -0.2253 REMARK 3 L TENSOR REMARK 3 L11: 4.9545 L22: 4.5549 REMARK 3 L33: 5.4596 L12: 0.4510 REMARK 3 L13: 1.0937 L23: 0.3288 REMARK 3 S TENSOR REMARK 3 S11: -0.0550 S12: -0.6079 S13: 0.8537 REMARK 3 S21: 0.6183 S22: 0.0571 S23: -0.2010 REMARK 3 S31: -0.2544 S32: 0.1259 S33: -0.0022 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: ATOMS THAT COULD NOT BE PLACED RELIABLY REMARK 3 IN ELECTRON DENSITY HAVE BEEN SET TO ZERO OCCUPANCY REMARK 4 REMARK 4 1US3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1290013954. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-00 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93200 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) OR SI REMARK 200 (311) REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52228 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 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 (%) : 99.0 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.31000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1CLX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MG/ML PROTEIN 0.2 M SODIUM IODIDE, REMARK 280 20% PEG 3350, PH 7.00 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 22.08750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 86.12200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.39450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 86.12200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.08750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.39450 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: PISA 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 85 REMARK 465 VAL A 86 REMARK 465 ALA A 87 REMARK 465 ALA A 88 REMARK 465 SER A 89 REMARK 465 GLU A 90 REMARK 465 GLY A 91 REMARK 465 ASN A 92 REMARK 465 VAL A 93 REMARK 465 VAL A 94 REMARK 465 ILE A 95 REMARK 465 GLU A 96 REMARK 465 VAL A 97 REMARK 465 ALA A 139 REMARK 465 ARG A 140 REMARK 465 PRO A 141 REMARK 465 THR A 142 REMARK 465 THR A 143 REMARK 465 LEU A 144 REMARK 465 GLU A 145 REMARK 465 ASP A 146 REMARK 465 ALA A 147 REMARK 465 VAL A 148 REMARK 465 ILE A 149 REMARK 465 GLY A 179 REMARK 465 ALA A 192 REMARK 465 ASP A 193 REMARK 465 THR A 194 REMARK 465 ILE A 202 REMARK 465 ASP A 203 REMARK 465 GLU A 204 REMARK 465 ASP A 205 REMARK 465 ASP A 206 REMARK 465 ASP A 207 REMARK 465 ALA A 213 REMARK 465 ARG A 214 REMARK 465 LEU A 239 REMARK 465 ALA A 240 REMARK 465 GLN A 241 REMARK 465 GLU A 242 REMARK 465 GLU A 607 REMARK 465 LEU A 608 REMARK 465 HIS A 609 REMARK 465 HIS A 610 REMARK 465 HIS A 611 REMARK 465 HIS A 612 REMARK 465 HIS A 613 REMARK 465 HIS A 614 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 GLU A 180 CB CG CD OE1 OE2 REMARK 470 ASP A 182 CB CG OD1 OD2 REMARK 470 PHE A 209 CB CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 211 CB CG CD OE1 NE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASN A 101 CB CG OD1 ND2 REMARK 480 ASP A 121 CG OD1 OD2 REMARK 480 GLU A 158 CD OE1 OE2 REMARK 480 LEU A 172 CB CG CD1 CD2 REMARK 480 ASP A 175 CB CG OD1 OD2 REMARK 480 LYS A 178 CB CG CD CE NZ REMARK 480 THR A 191 CB OG1 CG2 REMARK 480 LEU A 196 CB CG CD1 CD2 REMARK 480 THR A 201 CB OG1 CG2 REMARK 480 LYS A 208 CB CG CD CE NZ REMARK 480 THR A 212 CB OG1 CG2 REMARK 480 VAL A 216 CB CG1 CG2 REMARK 480 LYS A 233 CG CD CE NZ 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 THR A 201 C THR A 201 O 0.189 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 433 CB - CG - OD2 ANGL. DEV. = 5.8 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 GLU A 174 -32.10 84.33 REMARK 500 THR A 225 69.89 -119.90 REMARK 500 ASN A 267 -137.73 -130.91 REMARK 500 ASN A 296 -32.31 -138.64 REMARK 500 THR A 397 -92.99 -113.30 REMARK 500 ASN A 435 -6.30 67.73 REMARK 500 ASN A 440 -135.47 -119.96 REMARK 500 GLU A 497 38.04 -142.97 REMARK 500 THR A 554 -68.69 -102.50 REMARK 500 TRP A 576 59.68 25.77 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 A2026 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH A2030 DISTANCE = 9.13 ANGSTROMS REMARK 525 HOH A2033 DISTANCE = 8.80 ANGSTROMS REMARK 525 HOH A2034 DISTANCE = 7.21 ANGSTROMS REMARK 525 HOH A2036 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A2047 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH A2058 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A2059 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A2065 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A2069 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A2082 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH A2083 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A2136 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A2235 DISTANCE = 6.44 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 A1610 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 290 O REMARK 620 2 HOH A2045 O 108.1 REMARK 620 3 HOH A2046 O 149.5 70.6 REMARK 620 4 HOH A2316 O 102.6 149.2 84.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1609 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 369 OD1 REMARK 620 2 ASP A 369 OD1 50.4 REMARK 620 3 GLU A 372 OE2 94.0 80.8 REMARK 620 4 ALA A 423 O 78.1 119.9 73.3 REMARK 620 5 HOH A2132 O 131.4 91.7 110.6 148.1 REMARK 620 6 HOH A2370 O 96.3 80.9 145.8 140.8 41.6 REMARK 620 7 HOH A2374 O 159.9 136.0 71.5 84.4 68.1 103.5 REMARK 620 8 HOH A2449 O 119.0 144.6 134.1 82.9 72.1 65.9 67.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AC" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 9-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 10-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1609 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1610 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A1608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1607 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GNY RELATED DB: PDB REMARK 900 XYLAN-BINDING MODULE CBM15 REMARK 900 RELATED ID: 1US2 RELATED DB: PDB REMARK 900 XYLANASE10C (MUTANT E385A) FROM CELLVIBRIO JAPONICUS IN COMPLEX REMARK 900 WITH XYLOPENTAOSE REMARK 999 REMARK 999 SEQUENCE REMARK 999 NUMBERING IS CONSISTENT WITH THE SWISSPROT ENTRY FOR REMARK 999 THE GENE. REMARK 999 3 MISTAKES WERE DISCOVERED IN RESEQUENCING THE GENE REMARK 999 (G186A, G536A, G594A) AND THE AUTHORS HAVE SENT REMARK 999 CORRECTIONS TO GENBANK. REMARK 999 RESIDUE 85 (M) AND RESIDUES 607 TO 614 (ELHHHHHH) REMARK 999 IN THE SEQUENCE CRYSTALLIZED HAVE RESULTED FROM CLONING REMARK 999 INTO PET VECTOR 22B WITH INCLUSION OF A HIS TAG. REMARK 999 RESIDUES 1 TO 85 IN THE SWISSPROT ENTRY REFER TO A REMARK 999 SIGNAL PEPTIDE WHICH WAS NOT CLONED. DBREF 1US3 A 86 606 UNP Q59675 Q59675_9GAMM 86 606 SEQADV 1US3 MET A 85 UNP Q59675 EXPRESSION TAG SEQADV 1US3 ALA A 186 UNP Q59675 GLY 186 SEE REMARK 999 SEQADV 1US3 ALA A 536 UNP Q59675 GLY 536 SEE REMARK 999 SEQADV 1US3 ALA A 594 UNP Q59675 GLY 594 SEE REMARK 999 SEQADV 1US3 GLU A 607 UNP Q59675 EXPRESSION TAG SEQADV 1US3 LEU A 608 UNP Q59675 EXPRESSION TAG SEQADV 1US3 HIS A 609 UNP Q59675 EXPRESSION TAG SEQADV 1US3 HIS A 610 UNP Q59675 EXPRESSION TAG SEQADV 1US3 HIS A 611 UNP Q59675 EXPRESSION TAG SEQADV 1US3 HIS A 612 UNP Q59675 EXPRESSION TAG SEQADV 1US3 HIS A 613 UNP Q59675 EXPRESSION TAG SEQADV 1US3 HIS A 614 UNP Q59675 EXPRESSION TAG SEQRES 1 A 530 MET VAL ALA ALA SER GLU GLY ASN VAL VAL ILE GLU VAL SEQRES 2 A 530 ASP MET ALA ASN GLY TRP ARG GLY ASN ALA SER GLY SER SEQRES 3 A 530 THR SER HIS SER GLY ILE THR TYR SER ALA ASP GLY VAL SEQRES 4 A 530 THR PHE ALA ALA LEU GLY ASP GLY VAL GLY ALA VAL PHE SEQRES 5 A 530 ASP ILE ALA ARG PRO THR THR LEU GLU ASP ALA VAL ILE SEQRES 6 A 530 ALA MET VAL VAL ASN VAL SER ALA GLU PHE LYS ALA SER SEQRES 7 A 530 GLU ALA ASN LEU GLN ILE PHE ALA GLN LEU LYS GLU ASP SEQRES 8 A 530 TRP SER LYS GLY GLU TRP ASP CYS LEU ALA ALA SER SER SEQRES 9 A 530 GLU LEU THR ALA ASP THR ASP LEU THR LEU THR CYS THR SEQRES 10 A 530 ILE ASP GLU ASP ASP ASP LYS PHE ASN GLN THR ALA ARG SEQRES 11 A 530 ASP VAL GLN VAL GLY ILE GLN ALA LYS GLY THR PRO ALA SEQRES 12 A 530 GLY THR ILE THR ILE LYS SER VAL THR ILE THR LEU ALA SEQRES 13 A 530 GLN GLU ALA TYR SER ALA ASN VAL ASP HIS LEU ARG ASP SEQRES 14 A 530 LEU ALA PRO SER ASP PHE PRO ILE GLY VAL ALA VAL SER SEQRES 15 A 530 ASN THR ASP SER ALA THR TYR ASN LEU LEU THR ASN SER SEQRES 16 A 530 ARG GLU GLN ALA VAL VAL LYS LYS HIS PHE ASN HIS LEU SEQRES 17 A 530 THR ALA GLY ASN ILE MET LYS MET SER TYR MET GLN PRO SEQRES 18 A 530 THR GLU GLY ASN PHE ASN PHE THR ASN ALA ASP ALA PHE SEQRES 19 A 530 VAL ASP TRP ALA THR GLU ASN ASN MET THR VAL HIS GLY SEQRES 20 A 530 HIS ALA LEU VAL TRP HIS SER ASP TYR GLN VAL PRO ASN SEQRES 21 A 530 PHE MET LYS ASN TRP ALA GLY SER ALA GLU ASP PHE LEU SEQRES 22 A 530 ALA ALA LEU ASP THR HIS ILE THR THR ILE VAL ASP HIS SEQRES 23 A 530 TYR GLU ALA LYS GLY ASN LEU VAL SER TRP ASP VAL VAL SEQRES 24 A 530 ASN GLU ALA ILE ASP ASP ASN SER PRO ALA ASN PHE ARG SEQRES 25 A 530 THR THR ASP SER ALA PHE TYR VAL LYS SER GLY ASN SER SEQRES 26 A 530 SER VAL TYR ILE GLU ARG ALA PHE GLN THR ALA ARG ALA SEQRES 27 A 530 ALA ASP PRO ALA VAL ILE LEU TYR TYR ASN ASP TYR ASN SEQRES 28 A 530 ILE GLU GLN ASN ASN ALA LYS THR THR LYS MET VAL ASP SEQRES 29 A 530 MET VAL LYS ASP PHE GLN ALA ARG SER ILE PRO ILE ASP SEQRES 30 A 530 GLY VAL GLY PHE GLN MET HIS VAL CYS MET ASN TYR PRO SEQRES 31 A 530 SER ILE ALA ASN ILE SER ALA ALA MET LYS LYS VAL VAL SEQRES 32 A 530 ASP LEU GLY LEU LEU VAL LYS ILE THR GLU LEU ASP VAL SEQRES 33 A 530 ALA VAL ASN GLN PRO HIS CYS ASP ALA TYR PRO ALA ASN SEQRES 34 A 530 LYS ILE ASN PRO LEU THR GLU ALA ALA GLN LEU ALA GLN SEQRES 35 A 530 LYS LYS ARG TYR CYS ASP VAL VAL LYS ALA TYR LEU ASP SEQRES 36 A 530 THR VAL PRO VAL ASN GLN ARG GLY GLY ILE SER VAL TRP SEQRES 37 A 530 GLY THR THR ASP ALA ASN THR TRP LEU ASP GLY LEU TYR SEQRES 38 A 530 ARG GLU GLN PHE GLU ASP GLU LYS ILE SER TRP PRO LEU SEQRES 39 A 530 LEU PHE ASP ASN ASN TYR ASN ASP LYS PRO ALA LEU ARG SEQRES 40 A 530 GLY PHE ALA ASP ALA LEU ILE GLY THR GLN CYS THR ASN SEQRES 41 A 530 THR HIS GLU LEU HIS HIS HIS HIS HIS HIS HET GOL A1607 6 HET TRS A1608 8 HET NA A1609 1 HET NA A1610 1 HETNAM GOL GLYCEROL HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN TRS TRIS BUFFER FORMUL 2 GOL C3 H8 O3 FORMUL 3 TRS C4 H12 N O3 1+ FORMUL 4 NA 2(NA 1+) FORMUL 6 HOH *681(H2 O) HELIX 1 1 SER A 156 GLU A 163 1 8 HELIX 2 2 ALA A 186 LEU A 190 5 5 HELIX 3 3 HIS A 250 ALA A 255 5 6 HELIX 4 4 ASN A 278 PHE A 289 1 12 HELIX 5 5 LYS A 299 GLN A 304 1 6 HELIX 6 6 PHE A 312 ASN A 325 1 14 HELIX 7 7 SER A 338 VAL A 342 5 5 HELIX 8 8 PRO A 343 ASN A 348 1 6 HELIX 9 9 SER A 352 GLY A 375 1 24 HELIX 10 10 SER A 400 SER A 406 1 7 HELIX 11 11 SER A 410 ASP A 424 1 15 HELIX 12 12 ASN A 440 ARG A 456 1 17 HELIX 13 13 SER A 475 ASP A 488 1 14 HELIX 14 14 THR A 519 VAL A 541 1 23 HELIX 15 15 PRO A 542 ASN A 544 5 3 HELIX 16 16 ASP A 556 ASN A 558 5 3 HELIX 17 17 THR A 559 TYR A 565 1 7 HELIX 18 18 LYS A 587 GLY A 599 1 13 SHEET 1 AA 4 ARG A 104 ALA A 107 0 SHEET 2 AA 4 VAL A 132 ILE A 138 -1 O GLY A 133 N ASN A 106 SHEET 3 AA 4 VAL A 216 LYS A 223 -1 O VAL A 216 N ILE A 138 SHEET 4 AA 4 ASN A 165 LEU A 172 -1 O ASN A 165 N LYS A 223 SHEET 1 AB 5 THR A 117 SER A 119 0 SHEET 2 AB 5 GLY A 122 ALA A 126 -1 O GLY A 122 N SER A 119 SHEET 3 AB 5 THR A 229 VAL A 235 -1 O ILE A 230 N PHE A 125 SHEET 4 AB 5 MET A 151 VAL A 155 -1 O VAL A 152 N LYS A 233 SHEET 5 AB 5 LEU A 196 LEU A 198 -1 O LEU A 196 N VAL A 153 SHEET 1 AC10 ILE A 261 VAL A 265 0 SHEET 2 AC10 ARG A 546 VAL A 551 1 O ILE A 549 N GLY A 262 SHEET 3 AC10 LEU A 492 ALA A 501 1 O VAL A 493 N GLY A 547 SHEET 4 AC10 GLY A 462 PHE A 465 1 O VAL A 463 N LYS A 494 SHEET 5 AC10 ILE A 428 ASP A 433 1 O TYR A 431 N GLY A 464 SHEET 6 AC10 LEU A 377 ASN A 384 1 O VAL A 378 N ILE A 428 SHEET 7 AC10 THR A 328 TRP A 336 1 O VAL A 329 N VAL A 378 SHEET 8 AC10 HIS A 291 ALA A 294 1 O LEU A 292 N HIS A 330 SHEET 9 AC10 ILE A 261 VAL A 265 1 O VAL A 263 N THR A 293 SHEET 10 AC10 ILE A 261 VAL A 265 0 SSBOND 1 CYS A 183 CYS A 200 1555 1555 2.04 SSBOND 2 CYS A 470 CYS A 507 1555 1555 2.04 SSBOND 3 CYS A 531 CYS A 602 1555 1555 2.06 LINK O ASN A 290 NA NA A1610 1555 1555 2.97 LINK OD1AASP A 369 NA NA A1609 1555 1555 2.41 LINK OD1BASP A 369 NA NA A1609 1555 1555 2.86 LINK OE2AGLU A 372 NA NA A1609 1555 1555 2.69 LINK O ALA A 423 NA NA A1609 1555 1555 2.38 LINK NA NA A1609 O HOH A2132 1555 1555 2.52 LINK NA NA A1609 O HOH A2370 1555 1555 2.40 LINK NA NA A1609 O HOH A2374 1555 1555 2.78 LINK NA NA A1609 O HOH A2449 1555 1555 2.63 LINK NA NA A1610 O HOH A2045 1555 1555 2.39 LINK NA NA A1610 O HOH A2046 1555 1555 2.35 LINK NA NA A1610 O HOH A2316 1555 1555 2.29 CISPEP 1 HIS A 332 ALA A 333 0 2.11 CISPEP 2 SER A 391 PRO A 392 0 -2.77 CISPEP 3 TYR A 473 PRO A 474 0 -5.34 CISPEP 4 TYR A 510 PRO A 511 0 -0.99 CISPEP 5 ASN A 516 PRO A 517 0 -3.02 SITE 1 AC1 7 ASP A 369 GLU A 372 ALA A 423 HOH A2132 SITE 2 AC1 7 HOH A2370 HOH A2374 HOH A2449 SITE 1 AC2 4 ASN A 290 HOH A2045 HOH A2046 HOH A2316 SITE 1 AC3 11 LYS A 299 HIS A 332 TRP A 336 ASN A 384 SITE 2 AC3 11 GLU A 385 GLN A 466 GLU A 497 TRP A 552 SITE 3 AC3 11 TRP A 560 HOH A2387 HOH A2680 SITE 1 AC4 10 ALA A 264 VAL A 265 SER A 266 GLY A 295 SITE 2 AC4 10 GLY A 553 ASN A 558 HOH A2138 HOH A2610 SITE 3 AC4 10 HOH A2678 HOH A2679 CRYST1 44.175 78.789 172.244 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 0.022637 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012692 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005806 0.00000