HEADER XYLANASE A 31-MAY-94 1XAS TITLE CRYSTAL STRUCTURE, AT 2.6 ANGSTROMS RESOLUTION, OF THE STREPTOMYCES TITLE 2 LIVIDANS XYLANASE A, A MEMBER OF THE F FAMILY OF BETA-1,4-D-GLYCANSES COMPND MOL_ID: 1; COMPND 2 MOLECULE: 1,4-BETA-D-XYLAN XYLANOHYDROLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.8; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES LIVIDANS; SOURCE 3 ORGANISM_TAXID: 1916 KEYWDS XYLANASE A EXPDTA X-RAY DIFFRACTION MDLTYP CA ATOMS ONLY, CHAIN A AUTHOR U.DEREWENDA,Z.S.DEREWENDA REVDAT 6 14-FEB-24 1XAS 1 REMARK REVDAT 5 14-AUG-19 1XAS 1 REMARK REVDAT 4 17-JUL-19 1XAS 1 REMARK REVDAT 3 24-FEB-09 1XAS 1 VERSN REVDAT 2 01-APR-03 1XAS 1 JRNL REVDAT 1 31-MAY-95 1XAS 0 JRNL AUTH U.DEREWENDA,L.SWENSON,R.GREEN,Y.WEI,R.MOROSOLI,F.SHARECK, JRNL AUTH 2 D.KLUEPFEL,Z.S.DEREWENDA JRNL TITL CRYSTAL STRUCTURE, AT 2.6-A RESOLUTION, OF THE STREPTOMYCES JRNL TITL 2 LIVIDANS XYLANASE A, A MEMBER OF THE F FAMILY OF JRNL TITL 3 BETA-1,4-D-GLYCANASES. JRNL REF J.BIOL.CHEM. V. 269 20811 1994 JRNL REFN ISSN 0021-9258 JRNL PMID 8063693 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 8008 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 295 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.379 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 0.636 ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 0.679 ; 1.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 1.077 ; 2.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1XAS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000177242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 34.76000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.75000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.25500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.75000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.76000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.25500 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 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 ALA A 1 REMARK 465 GLU A 2 REMARK 465 SER A 3 REMARK 465 THR A 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CAT REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CATALYTIC SITE DBREF 1XAS A 1 299 UNP P26514 XYNA_STRLI 42 340 SEQRES 1 A 299 ALA GLU SER THR LEU GLY ALA ALA ALA ALA GLN SER GLY SEQRES 2 A 299 ARG TYR PHE GLY THR ALA ILE ALA SER GLY ARG LEU SER SEQRES 3 A 299 ASP SER THR TYR THR SER ILE ALA GLY ARG GLU PHE ASN SEQRES 4 A 299 MET VAL THR ALA GLU ASN GLU MET LYS ILE ASP ALA THR SEQRES 5 A 299 GLU PRO GLN ARG GLY GLN PHE ASN PHE SER SER ALA ASP SEQRES 6 A 299 ARG VAL TYR ASN TRP ALA VAL GLN ASN GLY LYS GLN VAL SEQRES 7 A 299 ARG GLY HIS THR LEU ALA TRP HIS SER GLN GLN PRO GLY SEQRES 8 A 299 TRP MET GLN SER LEU SER GLY ARG PRO LEU ARG GLN ALA SEQRES 9 A 299 MET ILE ASP HIS ILE ASN GLY VAL MET ALA HIS TYR LYS SEQRES 10 A 299 GLY LYS ILE VAL GLN TRP ASP VAL VAL ASN GLU ALA PHE SEQRES 11 A 299 ALA ASP GLY SER SER GLY ALA ARG ARG ASP SER ASN LEU SEQRES 12 A 299 GLN ARG SER GLY ASN ASP TRP ILE GLU VAL ALA PHE ARG SEQRES 13 A 299 THR ALA ARG ALA ALA ASP PRO SER ALA LYS LEU CYS TYR SEQRES 14 A 299 ASN ASP TYR ASN VAL GLU ASN TRP THR TRP ALA LYS THR SEQRES 15 A 299 GLN ALA MET TYR ASN MET VAL ARG ASP PHE LYS GLN ARG SEQRES 16 A 299 GLY VAL PRO ILE ASP CYS VAL GLY PHE GLN SER HIS PHE SEQRES 17 A 299 ASN SER GLY SER PRO TYR ASN SER ASN PHE ARG THR THR SEQRES 18 A 299 LEU GLN ASN PHE ALA ALA LEU GLY VAL ASP VAL ALA ILE SEQRES 19 A 299 THR GLU LEU ASP ILE GLN GLY ALA PRO ALA SER THR TYR SEQRES 20 A 299 ALA ASN VAL THR ASN ASP CYS LEU ALA VAL SER ARG CYS SEQRES 21 A 299 LEU GLY ILE THR VAL TRP GLY VAL ARG ASP SER ASP SER SEQRES 22 A 299 TRP ARG SER GLU GLN THR PRO LEU LEU PHE ASN ASN ASP SEQRES 23 A 299 GLY SER LYS LYS ALA ALA TYR THR ALA VAL LEU ASP ALA HELIX 1 H0 GLY A 6 ALA A 9 1 4 HELIX 2 H1 ILE A 20 GLU A 37 1 18 HELIX 3 H' ILE A 49 THR A 52 1 4 HELIX 4 H2 SER A 62 GLN A 73 1 12 HELIX 5 H' GLY A 91 GLN A 94 1 4 HELIX 6 H3 GLY A 98 TYR A 116 1 19 HELIX 7 H4 TRP A 150 ALA A 161 1 12 HELIX 8 H5 ALA A 180 ARG A 195 1 16 HELIX 9 H6 PHE A 218 ALA A 226 1 9 HELIX 10 H7 ALA A 244 CYS A 254 1 11 HELIX 11 H8 ALA A 291 ASP A 298 1 8 SHEET 1 S1 8 TYR A 15 ILE A 20 0 SHEET 2 S1 8 MET A 40 GLU A 44 1 SHEET 3 S1 8 GLN A 77 ALA A 84 1 SHEET 4 S1 8 VAL A 121 ASN A 127 1 SHEET 5 S1 8 LYS A 166 ASP A 171 1 SHEET 6 S1 8 ASP A 200 PHE A 208 1 SHEET 7 S1 8 ASP A 231 GLN A 240 1 SHEET 8 S1 8 LEU A 261 TRP A 266 1 SITE 1 CAT 2 GLU A 128 GLU A 236 CRYST1 69.520 46.510 85.500 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 0.014384 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021501 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011696 0.00000