HEADER HYDROLASE 22-JUN-14 4UQE TITLE X-RAY STRUCTURE OF GLUCURONOXYLAN-XYLANOHYDROLASE (XYN30A) FROM TITLE 2 CLOSTRIDIUM THERMOCELLUM AT 1.28 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CARBOHYDRATE BINDING FAMILY 6; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL CATALYTIC MODULE, RESIDUES 34-419; COMPND 5 SYNONYM: XYN30A; COMPND 6 EC: 3.2.1.8; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINICLOSTRIDIUM THERMOCELLUM; SOURCE 3 ORGANISM_TAXID: 1515; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.FREIRE,A.K.VERMA,A.GOYAL,C.M.G.A.FONTES,S.NAJMUDIN REVDAT 3 10-JAN-24 4UQE 1 REMARK REVDAT 2 23-NOV-16 4UQE 1 JRNL REVDAT 1 24-JUN-15 4UQE 0 JRNL AUTH F.FREIRE,A.K.VERMA,P.BULE,V.D.ALVES,C.M.G.A.FONTES,A.GOYAL, JRNL AUTH 2 S.NAJMUDIN JRNL TITL CONSERVATION IN THE MECHANISM OF GLUCURONOXYLAN HYDROLYSIS JRNL TITL 2 REVEALED BY THE STRUCTURE OF GLUCURONOXYLAN XYLANO-HYDROLASE JRNL TITL 3 (CTXYN30A) FROM CLOSTRIDIUM THERMOCELLUM JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 72 1162 2016 JRNL REFN ISSN 0907-4449 JRNL PMID 27841749 JRNL DOI 10.1107/S2059798316014376 REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 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) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 93795 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) : 0.095 REMARK 3 R VALUE (WORKING SET) : 0.094 REMARK 3 FREE R VALUE : 0.111 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2006 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) : 1.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6572 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.1070 REMARK 3 BIN FREE R VALUE SET COUNT : 142 REMARK 3 BIN FREE R VALUE : 0.1210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3128 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 601 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.22000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.01000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : -0.01000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.032 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.030 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.014 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.671 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.984 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.979 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3398 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3174 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4647 ; 1.504 ; 1.937 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7315 ; 0.831 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 437 ; 6.623 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;41.934 ;24.152 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 567 ;10.920 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;22.278 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 495 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3938 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 839 ; 0.001 ; 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): 1610 ; 0.675 ; 0.720 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1608 ; 0.673 ; 0.719 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 6572 ; 2.015 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 144 ;23.934 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6827 ; 6.162 ; 5.000 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 : 1.50 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4UQE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1290060690. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : KIRKPATRICK-BAEZ PAIR OF BI REMARK 200 -MORPH MIRRORS PLUS CHANNEL CUT REMARK 200 CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 96062 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 40.180 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.20000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 10.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4CKQ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 % (V/V) PEG 3350, 0.1 M HEPES 7.5, REMARK 280 0.2 M CACL2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 -22 REMARK 465 GLY A -21 REMARK 465 SER A -20 REMARK 465 SER A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 SER A -12 REMARK 465 SER A -11 REMARK 465 GLY A -10 REMARK 465 LEU A -9 REMARK 465 VAL A -8 REMARK 465 PRO A -7 REMARK 465 ARG A -6 REMARK 465 GLY A -5 REMARK 465 SER A -4 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 2477 O HOH A 2478 1.30 REMARK 500 O HOH A 2454 O HOH A 2455 1.30 REMARK 500 O HOH A 2094 O HOH A 2469 1.47 REMARK 500 O HOH A 2193 O HOH A 2194 1.58 REMARK 500 O HOH A 2539 O HOH A 2540 1.74 REMARK 500 O HOH A 2404 O HOH A 2407 1.78 REMARK 500 OE2 GLU A 54 O HOH A 2143 1.79 REMARK 500 O HOH A 2142 O HOH A 2145 1.80 REMARK 500 O HOH A 2194 O HOH A 2205 1.81 REMARK 500 O HOH A 2208 O HOH A 2442 1.92 REMARK 500 ND2 ASN A 257 O HOH A 2445 1.95 REMARK 500 O HOH A 2369 O HOH A 2407 2.01 REMARK 500 O HOH A 2304 O HOH A 2305 2.02 REMARK 500 O HOH A 2508 O HOH A 2512 2.02 REMARK 500 O HOH A 2126 O HOH A 2478 2.05 REMARK 500 O HOH A 2093 O HOH A 2094 2.05 REMARK 500 O HOH A 2444 O HOH A 2494 2.06 REMARK 500 O HOH A 2184 O HOH A 2185 2.07 REMARK 500 O HOH A 2043 O HOH A 2451 2.09 REMARK 500 O HOH A 2208 O HOH A 2437 2.10 REMARK 500 OD1 ASN A 205 O HOH A 2376 2.13 REMARK 500 O HOH A 2597 O HOH A 2598 2.17 REMARK 500 O HOH A 2298 O HOH A 2299 2.17 REMARK 500 CZ PHE A 373 O HOH A 2544 2.18 REMARK 500 OE2 GLU A 54 O HOH A 2146 2.18 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 2171 O HOH A 2397 1565 1.66 REMARK 500 O HOH A 2104 O HOH A 2393 1565 1.69 REMARK 500 NH2 ARG A 67 O HOH A 2514 1465 1.79 REMARK 500 O HOH A 2103 O HOH A 2393 1565 1.83 REMARK 500 O HOH A 2244 O HOH A 2519 1556 2.18 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 49 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 56 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 MET A 178 CG - SD - CE ANGL. DEV. = 17.6 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 LYS A 9 -133.84 -111.41 REMARK 500 TYR A 139 51.50 -147.37 REMARK 500 TRP A 143 -140.89 -154.36 REMARK 500 TRP A 264 -147.67 -67.82 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 A2056 DISTANCE = 6.06 ANGSTROMS 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 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1387 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1388 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1389 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1390 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1391 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGO A 1392 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4UQ9 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF GLUCURONOXYLAN-XYLANOHYDROLASE (XYN30A ) FROM REMARK 900 CLOSTRIDIUM THERMOCELLUM AT 1.77 A RESOLUTION REMARK 900 RELATED ID: 4UQA RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF GLUCURONOXYLAN-XYLANOHYDROLASE (XYN30A ) FROM REMARK 900 CLOSTRIDIUM THERMOCELLUM REMARK 900 RELATED ID: 4UQB RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF GLUCURONOXYLAN-XYLANOHYDROLASE (XYN30A ) FROM REMARK 900 CLOSTRIDIUM THERMOCELLUM AT 1.68 A RESOLUTION REMARK 900 RELATED ID: 4UQC RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF GLUCURONOXYLAN-XYLANOHYDROLASE (XYN30A ) FROM REMARK 900 CLOSTRIDIUM THERMOCELLUM AT 1.30 A RESOLUTION REMARK 900 RELATED ID: 4UQD RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF GLUCURONOXYLAN-XYLANOHYDROLASE (XYN30A ) FROM REMARK 900 CLOSTRIDIUM THERMOCELLUM AT 1.25 A RESOLUTION DBREF 4UQE A 1 386 UNP E6UTM3 E6UTM3_CLOTL 34 419 SEQADV 4UQE MET A -22 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE GLY A -21 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A -20 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A -19 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -18 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -17 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -16 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -15 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -14 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -13 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A -12 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A -11 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE GLY A -10 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE LEU A -9 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE VAL A -8 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE PRO A -7 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE ARG A -6 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE GLY A -5 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A -4 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE HIS A -3 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE MET A -2 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE ALA A -1 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A 0 UNP E6UTM3 EXPRESSION TAG SEQADV 4UQE SER A 77 UNP E6UTM3 PHE 110 ENGINEERED MUTATION SEQADV 4UQE CYS A 315 UNP E6UTM3 TYR 348 ENGINEERED MUTATION SEQRES 1 A 409 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 409 LEU VAL PRO ARG GLY SER HIS MET ALA SER ALA THR ILE SEQRES 3 A 409 ASN LEU SER ALA GLU LYS GLN VAL ILE ARG GLY PHE GLY SEQRES 4 A 409 GLY MET ASN HIS PRO VAL TRP ILE SER ASP LEU THR PRO SEQRES 5 A 409 GLN GLN ARG ASP THR ALA PHE GLY ASN GLY GLU GLY GLN SEQRES 6 A 409 LEU GLY PHE THR ILE LEU ARG ILE HIS VAL ASP GLU ASN SEQRES 7 A 409 ARG ASN ASN TRP SER LYS GLU VAL ALA THR ALA ARG ARG SEQRES 8 A 409 ALA ILE GLU LEU GLY ALA ILE VAL SER ALA SER PRO TRP SEQRES 9 A 409 ASN PRO PRO SER ASN MET VAL GLU THR PHE THR ARG ASN SEQRES 10 A 409 GLY VAL PRO ASN GLN LYS ARG LEU ARG TYR ASP LYS TYR SEQRES 11 A 409 GLY ASP TYR VAL GLN HIS LEU ASN ASP PHE VAL ALA TYR SEQRES 12 A 409 MET LYS SER ASN GLY VAL ASP LEU TYR ALA ILE SER VAL SEQRES 13 A 409 GLN ASN GLU PRO ASP TYR ALA HIS GLU TRP THR TRP TRP SEQRES 14 A 409 THR PRO GLN GLU MET LEU ARG PHE MET ARG ASP TYR ALA SEQRES 15 A 409 GLY GLN ILE ASN CYS ARG VAL MET ALA PRO GLU SER PHE SEQRES 16 A 409 GLN TYR LEU LYS ASN MET SER ASP PRO ILE LEU ASN ASP SEQRES 17 A 409 PRO GLN ALA LEU ALA ASN LEU ASP ILE LEU GLY ALA HIS SEQRES 18 A 409 PHE TYR GLY THR THR VAL ASN ASN MET PRO TYR PRO LEU SEQRES 19 A 409 PHE GLU GLN LYS GLY ALA GLY LYS GLU LEU TRP MET THR SEQRES 20 A 409 GLU VAL TYR VAL PRO ASN SER ASP SER ASN SER ALA ASP SEQRES 21 A 409 ARG TRP PRO GLU ALA LEU GLU VAL ALA HIS ASN MET HIS SEQRES 22 A 409 ASN ALA LEU VAL GLU GLY ASN PHE GLN ALA TYR VAL TRP SEQRES 23 A 409 TRP TYR ILE ARG ARG SER TYR GLY PRO MET LYS GLU ASP SEQRES 24 A 409 GLY THR ILE SER LYS ARG GLY TYR MET MET ALA HIS TYR SEQRES 25 A 409 SER LYS PHE VAL ARG PRO GLY TYR VAL ARG VAL ASP ALA SEQRES 26 A 409 THR LYS ASN PRO THR TYR ASN VAL TYR LEU SER ALA CYS SEQRES 27 A 409 LYS ASN LYS LYS ASP ASN SER VAL VAL ALA VAL VAL ILE SEQRES 28 A 409 ASN LYS SER THR GLU ALA LYS THR ILE ASN ILE SER VAL SEQRES 29 A 409 PRO GLY THR SER ILE ARG LYS TRP GLU ARG TYR VAL THR SEQRES 30 A 409 THR GLY SER LYS ASN LEU ARG LYS GLU SER ASP ILE ASN SEQRES 31 A 409 ALA SER GLY THR THR PHE GLN VAL THR LEU GLU PRO GLN SEQRES 32 A 409 SER VAL THR THR PHE VAL HET GOL A1387 6 HET GOL A1388 6 HET TRS A1389 8 HET PEG A1390 7 HET PEG A1391 7 HET PGO A1392 5 HETNAM GOL GLYCEROL HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PGO S-1,2-PROPANEDIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN TRS TRIS BUFFER FORMUL 2 GOL 2(C3 H8 O3) FORMUL 4 TRS C4 H12 N O3 1+ FORMUL 5 PEG 2(C4 H10 O3) FORMUL 7 PGO C3 H8 O2 FORMUL 8 HOH *601(H2 O) HELIX 1 1 THR A 28 GLY A 37 1 10 HELIX 2 2 ASN A 55 LYS A 61 5 7 HELIX 3 3 GLU A 62 LEU A 72 1 11 HELIX 4 4 PRO A 84 ASN A 86 5 3 HELIX 5 5 LYS A 106 ASN A 124 1 19 HELIX 6 6 THR A 147 TYR A 158 1 12 HELIX 7 7 ALA A 159 ILE A 162 5 4 HELIX 8 8 LEU A 175 LEU A 192 1 18 HELIX 9 9 THR A 203 MET A 207 5 5 HELIX 10 10 TYR A 209 GLY A 216 1 8 HELIX 11 11 ALA A 242 GLU A 255 1 14 HELIX 12 12 SER A 280 LYS A 291 1 12 SHEET 1 AA 9 LYS A 358 ASN A 367 0 SHEET 2 AA 9 LYS A 348 THR A 355 -1 O TRP A 349 N ILE A 366 SHEET 3 AA 9 SER A 381 VAL A 386 -1 O VAL A 382 N THR A 354 SHEET 4 AA 9 VAL A 323 ASN A 329 -1 O ALA A 325 N PHE A 385 SHEET 5 AA 9 VAL A 310 LYS A 316 -1 O TYR A 311 N ILE A 328 SHEET 6 AA 9 VAL A 298 ALA A 302 -1 O VAL A 298 N LYS A 316 SHEET 7 AA 9 ALA A -1 VAL A 11 -1 N ASN A 4 O ASP A 301 SHEET 8 AA 9 LYS A 335 SER A 340 1 O THR A 336 N ALA A -1 SHEET 9 AA 9 THR A 372 LEU A 377 -1 O PHE A 373 N ILE A 339 SHEET 1 AB 9 GLY A 14 MET A 18 0 SHEET 2 AB 9 ALA A 260 TYR A 265 1 O TYR A 261 N GLY A 16 SHEET 3 AB 9 GLU A 220 GLU A 225 1 O MET A 223 N VAL A 262 SHEET 4 AB 9 ILE A 194 HIS A 198 1 O LEU A 195 N TRP A 222 SHEET 5 AB 9 ARG A 165 SER A 171 1 O ALA A 168 N GLY A 196 SHEET 6 AB 9 ALA A 130 SER A 132 1 O ILE A 131 N MET A 167 SHEET 7 AB 9 ILE A 75 PRO A 80 1 O ALA A 78 N SER A 132 SHEET 8 AB 9 ILE A 47 VAL A 52 1 O LEU A 48 N SER A 77 SHEET 9 AB 9 GLY A 14 MET A 18 1 O GLY A 17 N ARG A 49 SHEET 1 AC 2 VAL A 88 ARG A 93 0 SHEET 2 AC 2 VAL A 96 LEU A 102 -1 O VAL A 96 N ARG A 93 CISPEP 1 ALA A 168 PRO A 169 0 -6.59 CISPEP 2 VAL A 228 PRO A 229 0 -5.87 CISPEP 3 TRP A 239 PRO A 240 0 6.84 SITE 1 AC1 3 GLN A 42 ARG A 68 HOH A2118 SITE 1 AC2 7 TRP A 81 TRP A 143 GLU A 225 TRP A 264 SITE 2 AC2 7 TRS A1389 HOH A2302 HOH A2595 SITE 1 AC3 8 GLU A 136 TYR A 139 PHE A 172 TYR A 200 SITE 2 AC3 8 TYR A 227 GOL A1388 HOH A2597 HOH A2599 SITE 1 AC4 11 ARG A 351 VAL A 353 ILE A 366 VAL A 375 SITE 2 AC4 11 THR A 376 LEU A 377 GLU A 378 THR A 383 SITE 3 AC4 11 PHE A 385 HOH A2553 HOH A2588 SITE 1 AC5 10 GLN A 173 TYR A 174 LEU A 175 LYS A 176 SITE 2 AC5 10 ASN A 177 ASN A 206 HOH A2342 HOH A2349 SITE 3 AC5 10 HOH A2600 HOH A2601 SITE 1 AC6 5 SER A 233 ARG A 268 SER A 269 GLU A 275 SITE 2 AC6 5 HOH A2419 CRYST1 45.940 46.070 59.050 68.11 80.19 60.99 P 1 1 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 0.021768 -0.012071 0.000320 0.00000 SCALE2 0.000000 0.024820 -0.008877 0.00000 SCALE3 0.000000 0.000000 0.018252 0.00000