10 20 30 40 50 60 70 80 2WO4 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 21-JUL-09 2WO4
TITLE 3B' CARBOHYDRATE-BINDING MODULE FROM THE CEL9V GLYCOSIDE TITLE 2 HYDROLASE FROM CLOSTRIDIUM THERMOCELLUM, IN-HOUSE DATA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSIDE HYDROLASE, FAMILY 9; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CARBOHYDRATE-BINDING MODULE3B', RESIDUES 731-888; COMPND 5 SYNONYM: CEL9V GLYCOSIDE HYDROLASE; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM THERMOCELLUM; SOURCE 3 ORGANISM_TAXID: 1515; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-28A
KEYWDS CELLULOSE DEGRADATION, HYDROLASE, GLYCOSIDE HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR S.PETKUN,S.JINDOU,L.J.W.SHIMON,E.A.BAYER,R.LAMED,F.FROLOW
REVDAT 2 17-APR-13 2WO4 1 SOURCE JRNL REMARK VERSN REVDAT 2 2 DBREF SEQADV FORMUL HELIX REVDAT 2 3 SHEET MASTER REVDAT 1 29-DEC-09 2WO4 0
JRNL AUTH S.PETKUN,S.JINDOU,L.J.W.SHIMON,E.A.BAYER,R.LAMED,F.FROLOW JRNL TITL STRUCTURE OF A FAMILY 3B' CARBOHYDRATE-BINDING MODULE FROM JRNL TITL 2 THE CEL9V GLYCOSIDE HYDROLASE FROM CLOSTRIDIUM JRNL TITL 3 THERMOCELLUM: STRUCTURAL DIVERSITY AND IMPLICATIONS FOR JRNL TITL 4 CARBOHYDRATE BINDING JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 66 33 2010 JRNL REFN ISSN 0907-4449 JRNL PMID 20057047 JRNL DOI 10.1107/S0907444909043030
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.JINDOU,Q.XU,R.KENIG,M.SHULMAN,Y.SHOHAM,E.A.BAYER,R.LAMED REMARK 1 TITL NOVEL ARCHITECTURE OF FAMILY-9 GLYCOSIDE HYDROLASES REMARK 1 TITL 2 IDENTIFIED IN CELLULOSOMAL ENZYMES OF ACETIVIBRIO REMARK 1 TITL 3 CELLULOLYTICUS AND CLOSTRIDIUM THERMOCELLUM. REMARK 1 REF FEMS MICROBIOL.LETT. V. 254 308 2006 REMARK 1 REFN ISSN 0378-1097 REMARK 1 PMID 16445761 REMARK 1 DOI 10.1111/J.1574-6968.2005.00040.X
REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON 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) : 55.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 99.55 REMARK 3 NUMBER OF REFLECTIONS : 19775 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) : 0.15037 REMARK 3 R VALUE (WORKING SET) : 0.14820 REMARK 3 FREE R VALUE : 0.19138 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 1063 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) : 1.849 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.897 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1357 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.267 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.324 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1306 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.8 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.213 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.61 REMARK 3 B22 (A**2) : 0.61 REMARK 3 B33 (A**2) : -1.23 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.093 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.066 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.206 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 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): 1340 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 873 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1830 ; 1.978 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2153 ; 1.224 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 179 ; 7.645 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 62 ;34.643 ;25.806 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 222 ;16.929 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;24.502 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 201 ; 0.130 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1571 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 265 ; 0.003 ; 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): 854 ; 3.118 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 350 ; 0.904 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1393 ; 5.156 ; 5.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 486 ; 6.660 ; 7.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 437 ;10.478 ;10.000 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 REMARK 3 RIDING POSITIONS.U VALUES REFINED INDIVIDUALLY. REMARK 3 DISORDERED REGIONS WERE MODELED STEREOCHEMICALLY
REMARK 4 REMARK 4 2WO4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JUL-09 REMARK 100 THE PDBE ID CODE IS EBI-40497
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAY-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU-H3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC CONFOCAL MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE (RAXIS-IV) REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23006 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.79 REMARK 200 RESOLUTION RANGE LOW (A) : 30.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.5 REMARK 200 R MERGE (I) : 0.06 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 32.20 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.5 REMARK 200 R MERGE FOR SHELL (I) : 0.76 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 32.20 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 1NBC REMARK 200 REMARK 200 REMARK: NONE
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.9 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8 M AMMONIUM SULFATE, 0.1 M REMARK 280 CITRIC ACID PH 5.0
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.87750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.94850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.94850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 21.43875 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.94850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.94850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 64.31625 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.94850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.94850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 21.43875 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.94850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.94850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 64.31625 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 42.87750 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 1 REMARK 465 ASP A 2 REMARK 465 PRO A 3 REMARK 465 LEU A 163 REMARK 465 GLU A 164 REMARK 465 HIS A 165 REMARK 465 HIS A 166 REMARK 465 HIS A 167 REMARK 465 HIS A 168 REMARK 465 HIS A 169 REMARK 465 HIS A 170
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 OD1 ASP A 23 O HOH A 2035 2.06 REMARK 500 ND2B ASN A 44 O HOH A 2067 2.19 REMARK 500 CB A SER A 86 O HOH A 2124 1.97 REMARK 500 OG A SER A 86 O HOH A 2123 2.20 REMARK 500 OG A SER A 86 O HOH A 2124 1.84 REMARK 500 NH1A ARG A 104 O HOH A 2140 1.57 REMARK 500 OH TYR A 156 O HOH A 2197 1.98 REMARK 500 O HOH A 2006 O HOH A 2052 2.00 REMARK 500 O HOH A 2020 O HOH A 2197 1.74 REMARK 500 O HOH A 2067 O HOH A 2134 1.83 REMARK 500 O HOH A 2084 O HOH A 2165 1.18 REMARK 500 O HOH A 2116 O HOH A 2117 2.14 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 2054 O HOH A 2054 7555 1.85 REMARK 500 O HOH A 2097 O HOH A 2165 4454 1.97 REMARK 500 O HOH A 2146 O HOH A 2146 7555 1.79 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 125 CB - CG - OD1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ASP A 128 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 129 CB - CG - OD1 ANGL. DEV. = 5.9 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 GLN A 5 -42.57 38.13 REMARK 500 THR A 6 152.28 82.75 REMARK 500 ASP A 23 -141.69 -109.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLN A 5 24.9 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1163 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 57 OD2 REMARK 620 2 ASP A 57 OD1 50.7 REMARK 620 3 THR A 55 O 83.0 77.7 REMARK 620 4 ASP A 129 OD1 149.5 150.2 84.0 REMARK 620 5 HOH A2166 O 76.2 121.4 72.5 73.6 REMARK 620 6 THR A 55 OG1 130.0 80.4 75.8 72.4 135.2 REMARK 620 7 ASP A 125 O 81.0 112.3 147.3 95.8 76.1 135.3 REMARK 620 8 ASP A 128 OD1 115.8 91.7 145.0 90.1 138.3 69.6 67.5 REMARK 620 N 1 2 3 4 5 6 7
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1164 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1165
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WNX RELATED DB: PDB REMARK 900 3B' CARBOHYDRATE-BINDING MODULE FROM THE CEL9V GLYCOSIDE REMARK 900 HYDROLASE FROM CLOSTRIDIUM THERMOCELLUM REMARK 900 RELATED ID: 2WOB RELATED DB: PDB REMARK 900 3B' CARBOHYDRATE-BINDING MODULE FROM THE CEL9V GLYCOSIDE REMARK 900 HYDROLASE FROM CLOSTRIDIUM THERMOCELLUM. ORTHORHOMBIC REMARK 900 STRUCTURE
DBREF 2WO4 A 2 159 UNP A3DJ30 A3DJ30_CLOTH 731 888
SEQADV 2WO4 MET A 1 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 ALA A 160 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 ALA A 161 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 ALA A 162 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 LEU A 163 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 GLU A 164 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 HIS A 165 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 HIS A 166 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 HIS A 167 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 HIS A 168 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 HIS A 169 UNP A3DJ30 EXPRESSION TAG SEQADV 2WO4 HIS A 170 UNP A3DJ30 EXPRESSION TAG
SEQRES 1 A 170 MET ASP PRO SER GLN THR PRO ASP ALA ASN ALA SER ILE SEQRES 2 A 170 SER VAL SER TYR LYS CYS GLY VAL LYS ASP GLY THR LYS SEQRES 3 A 170 ASN THR ILE ARG ALA THR ILE ASN ILE LYS ASN THR GLY SEQRES 4 A 170 THR THR PRO VAL ASN LEU SER ASP ILE LYS VAL ARG TYR SEQRES 5 A 170 TRP PHE THR SER ASP GLY ASN GLU GLN ASN ASN PHE VAL SEQRES 6 A 170 CYS ASP TYR ALA ALA PHE GLY THR ASP LYS VAL LYS GLY SEQRES 7 A 170 ILE VAL LYS LYS ILE GLU ASN SER VAL PRO GLY ALA ASP SEQRES 8 A 170 THR TYR CYS GLU ILE SER PHE THR GLU ASP ALA GLY ARG SEQRES 9 A 170 LEU ALA PRO GLY GLY SER THR GLY THR ILE PRO PHE ARG SEQRES 10 A 170 ILE GLU GLY ALA ALA GLU TYR ASP GLN THR ASP ASP TYR SEQRES 11 A 170 SER TYR ASN SER GLU MET SER ASP ASP PHE GLY ASP ASN SEQRES 12 A 170 THR LYS ILE THR ALA TYR ILE LYS ASP LYS LEU LYS TYR SEQRES 13 A 170 GLY VAL GLU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS SEQRES 14 A 170 HIS
HET CA A1163 1 HET SO4 A1164 5 HET CL A1165 1
HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETNAM CA CALCIUM ION
FORMUL 2 SO4 O4 S 2- FORMUL 3 CL CL 1- FORMUL 4 CA CA 2+ FORMUL 5 HOH *210(H2 O)
HELIX 1 1 THR A 6 ALA A 11 1 6 HELIX 2 2 GLY A 72 ASP A 74 5 3
SHEET 1 AA 4 ILE A 13 CYS A 19 0 SHEET 2 AA 4 THR A 28 ASN A 37 -1 O THR A 32 N LYS A 18 SHEET 3 AA 4 ILE A 114 GLY A 120 -1 O ILE A 114 N ILE A 33 SHEET 4 AA 4 ASN A 62 CYS A 66 -1 O ASN A 63 N GLU A 119 SHEET 1 AB 2 VAL A 43 ASN A 44 0 SHEET 2 AB 2 ARG A 104 LEU A 105 -1 O LEU A 105 N VAL A 43 SHEET 1 AC 5 VAL A 76 VAL A 87 0 SHEET 2 AC 5 ALA A 90 PHE A 98 -1 O ALA A 90 N VAL A 87 SHEET 3 AC 5 ILE A 48 PHE A 54 -1 O VAL A 50 N ILE A 96 SHEET 4 AC 5 THR A 147 ILE A 150 -1 O THR A 147 N ARG A 51 SHEET 5 AC 5 LYS A 153 TYR A 156 -1 O LYS A 153 N ILE A 150
LINK CA CA A1163 OD2 ASP A 57 1555 1555 2.43 LINK CA CA A1163 OD1 ASP A 57 1555 1555 2.57 LINK CA CA A1163 O THR A 55 1555 1555 2.44 LINK CA CA A1163 OD1 ASP A 129 1555 1555 2.37 LINK CA CA A1163 O HOH A2166 1555 1555 2.54 LINK CA CA A1163 OG1 THR A 55 1555 1555 2.52 LINK CA CA A1163 O ASP A 125 1555 1555 2.42 LINK CA CA A1163 OD1 ASP A 128 1555 1555 2.36
SITE 1 AC1 6 THR A 55 ASP A 57 ASP A 125 ASP A 128 SITE 2 AC1 6 ASP A 129 HOH A2166 SITE 1 AC2 11 LYS A 22 ASP A 23 GLY A 24 THR A 25 SITE 2 AC2 11 LYS A 26 ASN A 27 THR A 28 ARG A 30 SITE 3 AC2 11 HOH A2035 HOH A2209 HOH A2210 SITE 1 AC3 2 LYS A 77 GLU A 100
CRYST1 73.897 73.897 85.755 90.00 90.00 90.00 P 41 21 2 8
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.013532 0.000000 0.000000 0.00000
SCALE2 0.000000 0.013532 0.000000 0.00000
SCALE3 0.000000 0.000000 0.011661 0.00000