10 20 30 40 50 60 70 80 1QW8 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 01-SEP-03 1QW8
TITLE CRYSTAL STRUCTURE OF A FAMILY 51 ALPHA-L- TITLE 2 ARABINOFURANOSIDASE IN COMPLEX WITH ARA-ALPHA(1,3)-XYL
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-L-ARABINOFURANOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ARABINOSIDASE; COMPND 5 EC: 3.2.1.55; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1422; SOURCE 4 GENE: ABFA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET9D
KEYWDS HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR K.HOEVEL,D.SHALLOM,K.NIEFIND,V.BELAKHOV,G.SHOHAM,T.BASSOV, AUTHOR 2 Y.SHOHAM,D.SCHOMBURG
REVDAT 2 24-FEB-09 1QW8 1 VERSN REVDAT 1 07-OCT-03 1QW8 0
JRNL AUTH K.HOEVEL,D.SHALLOM,K.NIEFIND,V.BELAKHOV,G.SHOHAM, JRNL AUTH 2 T.BAASOV,Y.SHOHAM,D.SCHOMBURG JRNL TITL CRYSTAL STRUCTURE AND SNAPSHOTS ALONG THE REACTION JRNL TITL 2 PATHWAY OF A FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE JRNL REF EMBO J. V. 22 4922 2003 JRNL REFN ISSN 0261-4189 JRNL PMID 14517232 JRNL DOI 10.1093/EMBOJ/CDG494
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 102359 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5117 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7972 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 930 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1QW8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-SEP-03. REMARK 100 THE RCSB ID CODE IS RCSB020144.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : OSMIC MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 107753 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18 % PEG 3350, 0.2 M NH4F, 5 % 2- REMARK 280 PROPANOL, 0.1 M TRIS/HCL, PH 8.0, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 89.71500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 51.79698 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.41033 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 89.71500 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 51.79698 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 33.41033 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 89.71500 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 51.79698 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 33.41033 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 103.59396 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 66.82067 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 103.59396 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 66.82067 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 103.59396 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 66.82067 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: HEXAMERIC 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 179.43000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 89.71500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 155.39094 REMARK 350 BIOMT3 3 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 ALA A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 ARG A 502 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 THR B 3 REMARK 465 LYS B 4 REMARK 465 ARG B 502
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 CD2 HIS B 146 O HOH B 1384 0.30 REMARK 500 NE2 HIS B 30 O HOH B 1366 0.66 REMARK 500 CD2 HIS B 30 O HOH B 1366 0.83 REMARK 500 CD2 HIS B 165 O HOH B 1365 0.87 REMARK 500 NE2 HIS B 146 O HOH B 1384 1.41 REMARK 500 NE2 HIS B 165 O HOH B 1365 1.48 REMARK 500 CG HIS B 146 O HOH B 1384 1.56 REMARK 500 CE1 HIS B 244 O HOH B 1364 1.65 REMARK 500 OG SER A 216 O HOH A 1370 1.69 REMARK 500 CG HIS B 165 O HOH B 1365 1.69 REMARK 500 ND1 HIS B 244 O HOH B 1364 1.81 REMARK 500 CB SER A 216 O HOH A 1370 1.82 REMARK 500 CE1 HIS B 30 O HOH B 1366 1.82 REMARK 500 CG HIS B 30 O HOH B 1366 1.95 REMARK 500 SD MET A 377 O HOH A 1369 2.08 REMARK 500 NE2 HIS B 244 OD1 ASP B 293 2.13 REMARK 500 O ASN A 174 O HOH A 1397 2.16 REMARK 500 O HOH A 1126 O HOH A 1240 2.16 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 1237 O HOH A 1390 3665 1.92 REMARK 500 O HOH A 1044 O HOH B 1301 1554 2.10 REMARK 500 O HOH A 1116 O HOH A 1409 3665 2.15 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 135 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 MET A 176 CG - SD - CE ANGL. DEV. = -10.0 DEGREES REMARK 500 ARG B 33 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 LEU B 243 CA - CB - CG ANGL. DEV. = 15.6 DEGREES REMARK 500 ASP B 457 CB - CG - OD2 ANGL. DEV. = 5.6 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 SER A 26 -155.87 -143.71 REMARK 500 VAL A 35 -63.92 -98.47 REMARK 500 GLU A 41 85.42 -157.85 REMARK 500 ALA A 224 -51.82 80.61 REMARK 500 ASN A 249 66.43 -112.31 REMARK 500 ASN A 296 172.06 174.01 REMARK 500 TYR A 299 -33.02 -169.66 REMARK 500 ASN A 354 -48.23 68.72 REMARK 500 ILE A 356 64.13 33.77 REMARK 500 ASN A 364 13.87 57.43 REMARK 500 ASN A 475 34.57 -99.33 REMARK 500 SER B 26 -157.11 -146.78 REMARK 500 GLU B 41 89.62 -151.47 REMARK 500 ALA B 224 -51.56 83.32 REMARK 500 ASN B 249 71.36 -107.94 REMARK 500 ASN B 296 173.01 176.05 REMARK 500 TYR B 299 -32.42 -171.79 REMARK 500 ASN B 354 -48.18 68.47 REMARK 500 ILE B 356 67.46 29.74 REMARK 500 LEU B 492 66.82 39.59 REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KHO A 950 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KHO B 951
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PZ3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A FAMILY 51 (GH51) ALPHA-L- REMARK 900 ARABINOFURANOSIDASE FROM GEOBACILLUS STEAROTHERMOPHILUS T6 REMARK 900 RELATED ID: 1PZ2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A TRANSIENT COVALENT REACTION REMARK 900 INTERMEDIATE OF A FAMILY 51 ALPHA-L-ARABINOFURANOSIDASE REMARK 900 RELATED ID: 1QW9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A FAMILY 51 ALPHA-L- REMARK 900 ARABINOFURANOSIDASE IN COMPLEX WITH 4-NITROPHENYL-ARA
DBREF 1QW8 A 1 502 UNP Q9XBQ3 ABFA_BACST 0 501 DBREF 1QW8 B 1 502 UNP Q9XBQ3 ABFA_BACST 0 501
SEQADV 1QW8 ALA A 175 UNP Q9XBQ3 GLU 174 ENGINEERED SEQADV 1QW8 ALA B 175 UNP Q9XBQ3 GLU 174 ENGINEERED
SEQRES 1 A 502 MET ALA THR LYS LYS ALA THR MET ILE ILE GLU LYS ASP SEQRES 2 A 502 PHE LYS ILE ALA GLU ILE ASP LYS ARG ILE TYR GLY SER SEQRES 3 A 502 PHE ILE GLU HIS LEU GLY ARG ALA VAL TYR GLY GLY ILE SEQRES 4 A 502 TYR GLU PRO GLY HIS PRO GLN ALA ASP GLU ASN GLY PHE SEQRES 5 A 502 ARG GLN ASP VAL ILE GLU LEU VAL LYS GLU LEU GLN VAL SEQRES 6 A 502 PRO ILE ILE ARG TYR PRO GLY GLY ASN PHE VAL SER GLY SEQRES 7 A 502 TYR ASN TRP GLU ASP GLY VAL GLY PRO LYS GLU GLN ARG SEQRES 8 A 502 PRO ARG ARG LEU ASP LEU ALA TRP LYS SER VAL GLU THR SEQRES 9 A 502 ASN GLU ILE GLY LEU ASN GLU PHE MET ASP TRP ALA LYS SEQRES 10 A 502 MET VAL GLY ALA GLU VAL ASN MET ALA VAL ASN LEU GLY SEQRES 11 A 502 THR ARG GLY ILE ASP ALA ALA ARG ASN LEU VAL GLU TYR SEQRES 12 A 502 CYS ASN HIS PRO SER GLY SER TYR TYR SER ASP LEU ARG SEQRES 13 A 502 ILE ALA HIS GLY TYR LYS GLU PRO HIS LYS ILE LYS THR SEQRES 14 A 502 TRP CYS LEU GLY ASN ALA MET ASP GLY PRO TRP GLN ILE SEQRES 15 A 502 GLY HIS LYS THR ALA VAL GLU TYR GLY ARG ILE ALA CYS SEQRES 16 A 502 GLU ALA ALA LYS VAL MET LYS TRP VAL ASP PRO THR ILE SEQRES 17 A 502 GLU LEU VAL VAL CYS GLY SER SER ASN ARG ASN MET PRO SEQRES 18 A 502 THR PHE ALA GLU TRP GLU ALA THR VAL LEU ASP HIS THR SEQRES 19 A 502 TYR ASP HIS VAL ASP TYR ILE SER LEU HIS GLN TYR TYR SEQRES 20 A 502 GLY ASN ARG ASP ASN ASP THR ALA ASN TYR LEU ALA LEU SEQRES 21 A 502 SER LEU GLU MET ASP ASP PHE ILE ARG SER VAL VAL ALA SEQRES 22 A 502 ILE ALA ASP TYR VAL LYS ALA LYS LYS ARG SER LYS LYS SEQRES 23 A 502 THR ILE HIS LEU SER PHE ASP GLU TRP ASN VAL TRP TYR SEQRES 24 A 502 HIS SER ASN GLU ALA ASP LYS LEU ILE GLU PRO TRP THR SEQRES 25 A 502 VAL ALA PRO PRO LEU LEU GLU ASP ILE TYR ASN PHE GLU SEQRES 26 A 502 ASP ALA LEU LEU VAL GLY CYS MET LEU ILE THR LEU MET SEQRES 27 A 502 LYS HIS ALA ASP ARG VAL LYS ILE ALA CYS LEU ALA GLN SEQRES 28 A 502 LEU VAL ASN VAL ILE ALA PRO ILE MET THR GLU LYS ASN SEQRES 29 A 502 GLY PRO ALA TRP LYS GLN THR ILE TYR TYR PRO PHE MET SEQRES 30 A 502 HIS ALA SER VAL TYR GLY ARG GLY VAL ALA LEU HIS PRO SEQRES 31 A 502 VAL ILE SER SER PRO LYS TYR ASP SER LYS ASP PHE THR SEQRES 32 A 502 ASP VAL PRO TYR LEU GLU SER ILE ALA VAL TYR ASN GLU SEQRES 33 A 502 GLU LYS GLU GLU VAL THR ILE PHE ALA VAL ASN ARG ASP SEQRES 34 A 502 MET GLU ASP ALA LEU LEU LEU GLU CYS ASP VAL ARG SER SEQRES 35 A 502 PHE GLU ASP TYR ARG VAL ILE GLU HIS ILE VAL LEU GLU SEQRES 36 A 502 HIS ASP ASN VAL LYS GLN THR ASN SER ALA GLN SER SER SEQRES 37 A 502 PRO VAL VAL PRO HIS ARG ASN GLY ASP ALA GLN LEU SER SEQRES 38 A 502 ASP ARG LYS VAL SER ALA THR LEU PRO LYS LEU SER TRP SEQRES 39 A 502 ASN VAL ILE ARG LEU GLY LYS ARG SEQRES 1 B 502 MET ALA THR LYS LYS ALA THR MET ILE ILE GLU LYS ASP SEQRES 2 B 502 PHE LYS ILE ALA GLU ILE ASP LYS ARG ILE TYR GLY SER SEQRES 3 B 502 PHE ILE GLU HIS LEU GLY ARG ALA VAL TYR GLY GLY ILE SEQRES 4 B 502 TYR GLU PRO GLY HIS PRO GLN ALA ASP GLU ASN GLY PHE SEQRES 5 B 502 ARG GLN ASP VAL ILE GLU LEU VAL LYS GLU LEU GLN VAL SEQRES 6 B 502 PRO ILE ILE ARG TYR PRO GLY GLY ASN PHE VAL SER GLY SEQRES 7 B 502 TYR ASN TRP GLU ASP GLY VAL GLY PRO LYS GLU GLN ARG SEQRES 8 B 502 PRO ARG ARG LEU ASP LEU ALA TRP LYS SER VAL GLU THR SEQRES 9 B 502 ASN GLU ILE GLY LEU ASN GLU PHE MET ASP TRP ALA LYS SEQRES 10 B 502 MET VAL GLY ALA GLU VAL ASN MET ALA VAL ASN LEU GLY SEQRES 11 B 502 THR ARG GLY ILE ASP ALA ALA ARG ASN LEU VAL GLU TYR SEQRES 12 B 502 CYS ASN HIS PRO SER GLY SER TYR TYR SER ASP LEU ARG SEQRES 13 B 502 ILE ALA HIS GLY TYR LYS GLU PRO HIS LYS ILE LYS THR SEQRES 14 B 502 TRP CYS LEU GLY ASN ALA MET ASP GLY PRO TRP GLN ILE SEQRES 15 B 502 GLY HIS LYS THR ALA VAL GLU TYR GLY ARG ILE ALA CYS SEQRES 16 B 502 GLU ALA ALA LYS VAL MET LYS TRP VAL ASP PRO THR ILE SEQRES 17 B 502 GLU LEU VAL VAL CYS GLY SER SER ASN ARG ASN MET PRO SEQRES 18 B 502 THR PHE ALA GLU TRP GLU ALA THR VAL LEU ASP HIS THR SEQRES 19 B 502 TYR ASP HIS VAL ASP TYR ILE SER LEU HIS GLN TYR TYR SEQRES 20 B 502 GLY ASN ARG ASP ASN ASP THR ALA ASN TYR LEU ALA LEU SEQRES 21 B 502 SER LEU GLU MET ASP ASP PHE ILE ARG SER VAL VAL ALA SEQRES 22 B 502 ILE ALA ASP TYR VAL LYS ALA LYS LYS ARG SER LYS LYS SEQRES 23 B 502 THR ILE HIS LEU SER PHE ASP GLU TRP ASN VAL TRP TYR SEQRES 24 B 502 HIS SER ASN GLU ALA ASP LYS LEU ILE GLU PRO TRP THR SEQRES 25 B 502 VAL ALA PRO PRO LEU LEU GLU ASP ILE TYR ASN PHE GLU SEQRES 26 B 502 ASP ALA LEU LEU VAL GLY CYS MET LEU ILE THR LEU MET SEQRES 27 B 502 LYS HIS ALA ASP ARG VAL LYS ILE ALA CYS LEU ALA GLN SEQRES 28 B 502 LEU VAL ASN VAL ILE ALA PRO ILE MET THR GLU LYS ASN SEQRES 29 B 502 GLY PRO ALA TRP LYS GLN THR ILE TYR TYR PRO PHE MET SEQRES 30 B 502 HIS ALA SER VAL TYR GLY ARG GLY VAL ALA LEU HIS PRO SEQRES 31 B 502 VAL ILE SER SER PRO LYS TYR ASP SER LYS ASP PHE THR SEQRES 32 B 502 ASP VAL PRO TYR LEU GLU SER ILE ALA VAL TYR ASN GLU SEQRES 33 B 502 GLU LYS GLU GLU VAL THR ILE PHE ALA VAL ASN ARG ASP SEQRES 34 B 502 MET GLU ASP ALA LEU LEU LEU GLU CYS ASP VAL ARG SER SEQRES 35 B 502 PHE GLU ASP TYR ARG VAL ILE GLU HIS ILE VAL LEU GLU SEQRES 36 B 502 HIS ASP ASN VAL LYS GLN THR ASN SER ALA GLN SER SER SEQRES 37 B 502 PRO VAL VAL PRO HIS ARG ASN GLY ASP ALA GLN LEU SER SEQRES 38 B 502 ASP ARG LYS VAL SER ALA THR LEU PRO LYS LEU SER TRP SEQRES 39 B 502 ASN VAL ILE ARG LEU GLY LYS ARG
HET KHO A 950 19 HET KHO B 951 19
HETNAM KHO 4-(3,4-DIHYDROXY-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-2- HETNAM 2 KHO YLOXY)-TETRAHYDRO-PYRAN-2,3,5-TRIOL
HETSYN KHO ARA-ALPHA(1,3)-XYL
FORMUL 3 KHO 2(C10 H18 O9) FORMUL 5 HOH *930(H2 O)
HELIX 1 1 ASP A 20 TYR A 24 5 5 HELIX 2 2 ARG A 53 GLN A 64 1 12 HELIX 3 3 GLY A 73 TYR A 79 5 7 HELIX 4 4 ASN A 80 VAL A 85 5 6 HELIX 5 5 PRO A 87 ARG A 91 5 5 HELIX 6 6 GLY A 108 GLY A 120 1 13 HELIX 7 7 GLY A 133 HIS A 146 1 14 HELIX 8 8 SER A 150 HIS A 159 1 10 HELIX 9 9 THR A 186 ASP A 205 1 20 HELIX 10 10 ALA A 224 TYR A 235 1 12 HELIX 11 11 ASP A 236 VAL A 238 5 3 HELIX 12 12 ASP A 253 LEU A 258 1 6 HELIX 13 13 LEU A 260 ARG A 283 1 24 HELIX 14 14 SER A 301 LEU A 307 1 7 HELIX 15 15 ASN A 323 HIS A 340 1 18 HELIX 16 16 ILE A 372 GLY A 383 1 12 HELIX 17 17 ASP B 20 TYR B 24 5 5 HELIX 18 18 ARG B 53 GLN B 64 1 12 HELIX 19 19 GLY B 73 TYR B 79 5 7 HELIX 20 20 ASN B 80 VAL B 85 5 6 HELIX 21 21 PRO B 87 ARG B 91 5 5 HELIX 22 22 GLY B 108 GLY B 120 1 13 HELIX 23 23 GLY B 133 HIS B 146 1 14 HELIX 24 24 SER B 150 HIS B 159 1 10 HELIX 25 25 THR B 186 ASP B 205 1 20 HELIX 26 26 ALA B 224 TYR B 235 1 12 HELIX 27 27 ASP B 236 VAL B 238 5 3 HELIX 28 28 ASP B 253 LEU B 258 1 6 HELIX 29 29 LEU B 260 ARG B 283 1 24 HELIX 30 30 SER B 301 LYS B 306 1 6 HELIX 31 31 ASN B 323 HIS B 340 1 18 HELIX 32 32 ILE B 372 GLY B 383 1 12
SHEET 1 A 5 VAL A 391 SER A 393 0 SHEET 2 A 5 ALA A 6 ILE A 9 -1 N THR A 7 O SER A 393 SHEET 3 A 5 LEU A 434 ASP A 439 1 O ASP A 439 N MET A 8 SHEET 4 A 5 LYS A 484 LEU A 489 -1 O VAL A 485 N CYS A 438 SHEET 5 A 5 GLN A 479 SER A 481 -1 N GLN A 479 O SER A 486 SHEET 1 B 6 LYS A 15 GLU A 18 0 SHEET 2 B 6 VAL A 386 LEU A 388 -1 O ALA A 387 N ALA A 17 SHEET 3 B 6 LEU A 408 ASN A 415 -1 O TYR A 414 N VAL A 386 SHEET 4 B 6 GLU A 420 ASN A 427 -1 O GLU A 420 N ASN A 415 SHEET 5 B 6 SER A 493 GLY A 500 -1 O ILE A 497 N ILE A 423 SHEET 6 B 6 ARG A 447 LEU A 454 -1 N ILE A 452 O VAL A 496 SHEET 1 C 9 GLY A 25 PHE A 27 0 SHEET 2 C 9 ILE A 67 TYR A 70 1 O ARG A 69 N SER A 26 SHEET 3 C 9 GLU A 122 VAL A 127 1 O ALA A 126 N TYR A 70 SHEET 4 C 9 THR A 169 LEU A 172 1 O CYS A 171 N VAL A 127 SHEET 5 C 9 GLU A 209 VAL A 212 1 O VAL A 211 N LEU A 172 SHEET 6 C 9 TYR A 240 TYR A 247 1 O TYR A 240 N VAL A 212 SHEET 7 C 9 HIS A 289 VAL A 297 1 O GLU A 294 N GLN A 245 SHEET 8 C 9 VAL A 344 ALA A 350 1 O ILE A 346 N PHE A 292 SHEET 9 C 9 GLY A 25 PHE A 27 1 N GLY A 25 O LEU A 349 SHEET 1 D 2 ARG A 94 ASP A 96 0 SHEET 2 D 2 SER A 101 GLU A 103 -1 O GLU A 103 N ARG A 94 SHEET 1 E 2 ILE A 359 THR A 361 0 SHEET 2 E 2 ALA A 367 LYS A 369 -1 O TRP A 368 N MET A 360 SHEET 1 F 2 LYS A 396 TYR A 397 0 SHEET 2 F 2 VAL A 405 PRO A 406 -1 O VAL A 405 N TYR A 397 SHEET 1 G 5 VAL B 391 SER B 393 0 SHEET 2 G 5 ALA B 6 ILE B 9 -1 N THR B 7 O SER B 393 SHEET 3 G 5 LEU B 434 ASP B 439 1 O GLU B 437 N ALA B 6 SHEET 4 G 5 LYS B 484 LEU B 489 -1 O VAL B 485 N CYS B 438 SHEET 5 G 5 GLN B 479 SER B 481 -1 N GLN B 479 O SER B 486 SHEET 1 H 6 LYS B 15 GLU B 18 0 SHEET 2 H 6 VAL B 386 LEU B 388 -1 O ALA B 387 N ALA B 17 SHEET 3 H 6 LEU B 408 ASN B 415 -1 O TYR B 414 N VAL B 386 SHEET 4 H 6 GLU B 420 ASN B 427 -1 O GLU B 420 N ASN B 415 SHEET 5 H 6 SER B 493 GLY B 500 -1 O ASN B 495 N ALA B 425 SHEET 6 H 6 ARG B 447 GLU B 455 -1 N ILE B 452 O VAL B 496 SHEET 1 I 9 GLY B 25 PHE B 27 0 SHEET 2 I 9 ILE B 67 TYR B 70 1 O ARG B 69 N SER B 26 SHEET 3 I 9 GLU B 122 VAL B 127 1 O ALA B 126 N TYR B 70 SHEET 4 I 9 THR B 169 LEU B 172 1 O CYS B 171 N VAL B 127 SHEET 5 I 9 GLU B 209 VAL B 212 1 O VAL B 211 N LEU B 172 SHEET 6 I 9 TYR B 240 TYR B 247 1 O TYR B 240 N VAL B 212 SHEET 7 I 9 HIS B 289 VAL B 297 1 O HIS B 289 N ILE B 241 SHEET 8 I 9 VAL B 344 ALA B 350 1 O ILE B 346 N PHE B 292 SHEET 9 I 9 GLY B 25 PHE B 27 1 N GLY B 25 O LEU B 349 SHEET 1 J 2 ARG B 94 ASP B 96 0 SHEET 2 J 2 SER B 101 GLU B 103 -1 O SER B 101 N ASP B 96 SHEET 1 K 2 ILE B 359 THR B 361 0 SHEET 2 K 2 ALA B 367 LYS B 369 -1 O TRP B 368 N MET B 360 SHEET 1 L 2 LYS B 396 TYR B 397 0 SHEET 2 L 2 VAL B 405 PRO B 406 -1 O VAL B 405 N TYR B 397
CISPEP 1 TYR A 70 PRO A 71 0 -4.14 CISPEP 2 GLY A 72 GLY A 73 0 0.40 CISPEP 3 ALA A 350 GLN A 351 0 1.08 CISPEP 4 TYR B 70 PRO B 71 0 -3.82 CISPEP 5 GLY B 72 GLY B 73 0 5.81 CISPEP 6 ALA B 350 GLN B 351 0 -2.40
SITE 1 AC1 13 PHE A 27 GLU A 29 GLY A 73 ASN A 74 SITE 2 AC1 13 TRP A 99 ASN A 174 SER A 216 TYR A 246 SITE 3 AC1 13 GLU A 294 GLN A 351 HOH A1318 HOH A1382 SITE 4 AC1 13 HOH A1387 SITE 1 AC2 14 PHE B 27 GLU B 29 GLY B 73 ASN B 74 SITE 2 AC2 14 TRP B 99 ASN B 174 SER B 216 TYR B 246 SITE 3 AC2 14 GLU B 294 TRP B 298 GLN B 351 HOH B1248 SITE 4 AC2 14 HOH B1367 HOH B1381
CRYST1 179.430 179.430 100.231 90.00 90.00 120.00 H 3 18
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 0.005573 0.003218 0.000000 0.00000
SCALE2 0.000000 0.006435 0.000000 0.00000
SCALE3 0.000000 0.000000 0.009977 0.00000