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(-) Description

Title :  CRYSTAL STRUCTURE OF CHIMERIC XYLANASE BETWEEN STREPTOMYCES OLIVACEOVIRIDIS E-86 FXYN AND CELLULOMONAS FIMI CEX
 
Authors :  S. Kaneko, H. Ichinose, Z. Fujimoto, A. Kuno, K. Yura, M. Go, H. Mizuno, I. Kusakabe, H. Kobayashi
Date :  04 Dec 03  (Deposition) - 07 Sep 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Xylanase, Tim-Barrel, Chimeric Enzyme, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Kaneko, H. Ichinose, Z. Fujimoto, A. Kuno, K. Yura, M. Go, H. Mizuno, I. Kusakabe, H. Kobayashi
Structure And Function Of A Family 10 Beta-Xylanase Chimera Of Streptomyces Olivaceoviridis E-86 Fxyn And Cellulomonas Fimi Cex
J. Biol. Chem. V. 279 26619 2004
PubMed-ID: 15078885  |  Reference-DOI: 10.1074/JBC.M308899200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ENDO-1,4-BETA-D-XYLANASE AND ENDO-1,4-BETA- XYLANASE B
    Chains: A
    EC Number: 3.2.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: ,
    Organism Scientific: STREPTOMYCES OLIVACEOVIRIDIS, CELLULOMONAS FIMI
    Organism Taxid: 1921,1708
    Other Details: CHIMERIC ENZYME FROM TWO XYLANASES
    Strain: E-86, E-86

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1V6Y)

(-) Sites  (0, 0)

(no "Site" information available for 1V6Y)

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:168 -A:201
2A:263 -A:269

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1His A:81 -Thr A:82
2Thr A:242 -Pro A:243

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V6Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1V6Y)

(-) Exons   (0, 0)

(no "Exon" information available for 1V6Y)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:316
 aligned with Q7SI98_STROI | Q7SI98 from UniProtKB/TrEMBL  Length:436

    Alignment length:373
                                                                                                                                                                                                                                                                        241        242                                                                                                                           
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232        |-       242       252       262       272       282       292       302       312       322       332       342       352       362   
         Q7SI98_STROI     3 STLGAAAAQSGRYFGTAIASGKLGDSAYTTIASREFNMVTAENEMKIDATEPQRGQFNFSAGDRVYNWAVQNGKQVRGHTLAWHSQQPGWMQSLSGSTLRQAMIDHINGVMGHYKGKIAQWDVVNEAFSDDGSGGRRDSNLQRTGNDWIEVAFRTARAADPAAKLCYNDYNIENWTWAKTQGVYNMVRDFKQRGVPIDCVGFQSHFNSGSPYNSNFRTTLQNFAALGVDVAITELDIQG----------ASSSTYAAVTNDCLAVSRCLGITVWGVRDTDSWRSGDTPLLFNGDGSKKAAYTAVLNALNGGSSTPPPSGGGQIKGVGSGRCLDVPNASTTDGTQVQLYDCHSATNQQWTYTDAGELRVYGDKC 365
               SCOP domains d1v6ya_ A: Xylanase A, catalytic core                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1v6yA00 A:3-318 Glycosidases                                                                                                                                                                                                                                                                                                                                                          CATH domains
               Pfam domains -Glyco_hydro_10-1v6yA01 A:4-238                                                                                                                                                                                  -                           ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh...eeeeeehhhhh.hhhhhhhhhhhh.eeee....hhhhhh.......hhhhhhhhhhhhhh..eeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee...............hhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhhhhhhhhhhhhh....eeee..eee..-....hhhhhhhhhhh...eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhh----hhhhh..ee-------...-----------------------------------------........hhhh----hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v6y A   3 STLGAAAAQSGRYFGTAIASGKLGDSAYTTIASREFNMVTAENEMKIDATEPQRGQFNFSAGDRVYNWAVQNGKQVRGHTLAWHSQQPGWMQSLSGSTLRQAMIDHINGVMGHYKGKIAQWDVVNEAFSDDGSGGRRDSNLQRTGNDWIEVAFRTARAADPAAKLCYNDYNIENWTWAKTQGVYNMVRDFKQRGVPIDCVGFQSHLIVG-QVPGDFRQNLQRFADLGVDVRITELDIRMRTPSDATKLATQAADYKKVVQACMQVTRCQGVTVWGITDKYSW----VPDVFPGEG-------AAL-----------------------------------------VWDASYAKKPAY----AAVMEAFGSRS 318
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202        |-|      221       231       241       251       261       271       281 |    |287    |    -  | |    -         -         -         -      |299       | -  |    315   
                                                                                                                                                                                                                                          211 |                                                                    283  284     292     293 |                                       296        307  308          
                                                                                                                                                                                                                                            212                                                                                           295
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Glyco_hydro_tim (488)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q7SI98_STROI | Q7SI98)
molecular function
    GO:0031176    endo-1,4-beta-xylanase activity    Catalysis of the endohydrolysis of (1->4)-beta-D-xylosidic linkages in xylans.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0000272    polysaccharide catabolic process    The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q7SI98_STROI | Q7SI98: 1isv 1isw 1isx 1isy 1isz 1it0 1v6u 1v6v 1v6w 1v6x 1xyf 2d1z 2d20 2d22 2d23 2d24 2g3i 2g3j 2g4f

(-) Related Entries Specified in the PDB File

1xyf ONE OF THE PARENT PROTEIN
2exo ONE OF THE PARENT PROTEIN