10 20 30 40 50 60 70 80 1XBD - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 16-OCT-98 1XBD
TITLE INTERNAL XYLAN BINDING DOMAIN FROM CELLULOMONAS FIMI TITLE 2 XYLANASE D, NMR, 5 STRUCTURES
COMPND MOL_ID: 1; COMPND 2 MOLECULE: XYLANASE D; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: XYLAN BINDING DOMAIN 1; COMPND 5 SYNONYM: XBD1, ENDO-1,4-BETA-XYLANASE D; COMPND 6 EC: 3.2.1.8; COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CELLULOMONAS FIMI; SOURCE 3 ORGANISM_TAXID: 1708; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: JM83
KEYWDS HYDROLASE, XYLAN BINDING DOMAIN, XYLANASE, BETA-SHEET
EXPDTA SOLUTION NMR
NUMMDL 5
AUTHOR P.J.SIMPSON,D.N.BOLAM,A.COOPER,A.CIRUELA,G.P.HAZLEWOOD, AUTHOR 2 H.J.GILBERT,M.P.WILLIAMSON
REVDAT 2 24-FEB-09 1XBD 1 VERSN REVDAT 1 21-JUL-99 1XBD 0
JRNL AUTH P.J.SIMPSON,D.N.BOLAM,A.COOPER,A.CIRUELA, JRNL AUTH 2 G.P.HAZLEWOOD,H.J.GILBERT,M.P.WILLIAMSON JRNL TITL A FAMILY IIB XYLAN-BINDING DOMAIN HAS A SIMILAR JRNL TITL 2 SECONDARY STRUCTURE TO A HOMOLOGOUS FAMILY IIA JRNL TITL 3 CELLULOSE-BINDING DOMAIN BUT DIFFERENT LIGAND JRNL TITL 4 SPECIFICITY. JRNL REF STRUCTURE FOLD.DES. V. 7 853 1999 JRNL REFN ISSN 0969-2126 JRNL PMID 10425686 JRNL DOI 10.1016/S0969-2126(99)80108-7
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: YASAP
REMARK 4 REMARK 4 1XBD COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : TOCSY, DQF-COSY, NOESY, REMARK 210 E.COSY, HSQC, NOESY-HMQC, REMARK 210 TOCSY-HMQC, HNHA, HNHB REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 600 MHZ, 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX500, DRX600, DRX800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : MSI FELIX 97.0 REMARK 210 METHOD USED : HYBRID DISTANCE GEOMETRY/ REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 5 REMARK 210 CONFORMERS, SELECTION CRITERIA : RANDOM SELECTION OF 5 FROM REMARK 210 THE 38 LOWEST ENERGY STRUCTURES REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING HETERONUCLEAR NMR REMARK 210 SPECTROSCOPY ON A UNIFORMLY 15N-LABELLED SAMPLE OF XBD1
REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.
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 1 ALA A 256 -74.43 -82.75 REMARK 500 1 ASP A 261 -39.26 -133.22 REMARK 500 1 ALA A 280 77.28 -104.67 REMARK 500 1 SER A 284 48.99 -103.70 REMARK 500 1 ALA A 293 151.52 174.27 REMARK 500 1 SER A 309 -59.90 -135.16 REMARK 500 1 SER A 323 -46.04 -164.20 REMARK 500 2 ASP A 261 -43.57 -142.90 REMARK 500 2 SER A 272 159.70 169.37 REMARK 500 2 ALA A 293 157.80 172.41 REMARK 500 2 SER A 300 -44.15 83.13 REMARK 500 2 SER A 309 -59.24 -129.51 REMARK 500 3 LEU A 281 170.20 -59.83 REMARK 500 3 GLN A 285 154.50 -47.06 REMARK 500 3 GLN A 288 11.96 -141.55 REMARK 500 3 ASN A 292 33.96 71.98 REMARK 500 3 ALA A 293 157.76 172.30 REMARK 500 3 SER A 309 -60.40 -135.14 REMARK 500 4 ALA A 256 -69.14 -107.49 REMARK 500 4 SER A 272 165.93 167.73 REMARK 500 4 SER A 284 48.32 -101.61 REMARK 500 4 ALA A 293 170.19 177.69 REMARK 500 4 ARG A 302 84.94 -155.70 REMARK 500 4 ASN A 307 18.73 -149.45 REMARK 500 4 SER A 309 -85.20 -135.02 REMARK 500 4 LYS A 319 -76.35 -57.11 REMARK 500 5 ALA A 256 -148.98 -103.42 REMARK 500 5 ARG A 262 166.44 175.95 REMARK 500 5 LEU A 281 172.41 -59.99 REMARK 500 5 SER A 284 -87.04 -158.94 REMARK 500 5 ALA A 293 149.85 176.96 REMARK 500 5 SER A 300 28.37 44.16 REMARK 500 5 LYS A 319 -73.68 -65.95 REMARK 500 5 SER A 322 -157.42 -159.76 REMARK 500 5 SER A 323 -47.01 179.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 255 0.31 SIDE_CHAIN REMARK 500 1 ARG A 262 0.22 SIDE_CHAIN REMARK 500 1 ARG A 302 0.28 SIDE_CHAIN REMARK 500 2 ARG A 255 0.31 SIDE_CHAIN REMARK 500 2 ARG A 262 0.25 SIDE_CHAIN REMARK 500 2 ARG A 302 0.31 SIDE_CHAIN REMARK 500 3 ARG A 255 0.13 SIDE_CHAIN REMARK 500 3 ARG A 262 0.09 SIDE_CHAIN REMARK 500 3 ARG A 302 0.29 SIDE_CHAIN REMARK 500 4 ARG A 255 0.31 SIDE_CHAIN REMARK 500 4 ARG A 262 0.31 SIDE_CHAIN REMARK 500 4 ARG A 302 0.31 SIDE_CHAIN REMARK 500 5 ARG A 255 0.28 SIDE_CHAIN REMARK 500 5 ARG A 262 0.22 SIDE_CHAIN REMARK 500 5 ARG A 302 0.31 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: XBD REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: BINDING SITE TRYPTOPHANS
DBREF 1XBD A 247 333 UNP P54865 XYND_CELFI 247 333
SEQRES 1 A 87 THR GLY CYS SER VAL THR ALA THR ARG ALA GLU GLU TRP SEQRES 2 A 87 SER ASP ARG PHE ASN VAL THR TYR SER VAL SER GLY SER SEQRES 3 A 87 SER ALA TRP THR VAL ASN LEU ALA LEU ASN GLY SER GLN SEQRES 4 A 87 THR ILE GLN ALA SER TRP ASN ALA ASN VAL THR GLY SER SEQRES 5 A 87 GLY SER THR ARG THR VAL THR PRO ASN GLY SER GLY ASN SEQRES 6 A 87 THR PHE GLY VAL THR VAL MET LYS ASN GLY SER SER THR SEQRES 7 A 87 THR PRO ALA ALA THR CYS ALA GLY SER
SHEET 1 A 4 THR A 252 ARG A 255 0 SHEET 2 A 4 ARG A 262 SER A 268 -1 N SER A 268 O THR A 252 SHEET 3 A 4 THR A 312 MET A 318 -1 N VAL A 317 O PHE A 263 SHEET 4 A 4 ILE A 287 TRP A 291 -1 N TRP A 291 O GLY A 314 SHEET 1 B 4 ALA A 328 CYS A 330 0 SHEET 2 B 4 VAL A 277 LEU A 279 -1 N ASN A 278 O THR A 329 SHEET 3 B 4 ARG A 302 THR A 305 -1 N VAL A 304 O VAL A 277 SHEET 4 B 4 ASN A 294 THR A 296 -1 N THR A 296 O THR A 303
SSBOND 1 CYS A 249 CYS A 330 1555 1555 2.02
SITE 1 XBD 2 TRP A 259 TRP A 291
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000