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(-) Description

Title :  XYLANASE T6 (XT6) FROM BACILLUS STEAROTHERMOPHILUS
 
Authors :  G. Sainz, A. Tepplitsky, V. Stojanoff, A. Thompson, Y. Shoham, G. Shoham
Date :  05 Jan 01  (Deposition) - 04 Jan 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Glycosidase, Xylan Degradation, Family 10, Thermophile (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Teplitsky, A. Mechaly, V. Stojanoff, G. Sainz, G. Golan, H. Feinberg, R. Gilboa, V. Reiland, G. Zolotnitsky, D. Shallom, A. Thompson, Y. Shoham, G. Shoham
Structure Determination Of The Extracellular Xylanase From Geobacillus Stearothermophilus By Selenomethionyl Mad Phasing
Acta Crystallogr. , Sect. D V. 60 836 2004
PubMed-ID: 15103129  |  Reference-DOI: 10.1107/S0907444904004123

(-) Compounds

Molecule 1 - ENDO-1,4-BETA-XYLANASE
    Cell: BACTERIA
    Cellular Location: EXTRA CELLULAR
    Chains: A
    EC Number: 3.2.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cell: BACTERIA
    Expression System Cellular Location: EXTRACELLULAR
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET9D
    Gene: XYNA
    Organism Scientific: BACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422
    Strain: NCIMB40221

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1GLA1Ligand/IonALPHA D-GALACTOSE
2GLC1Ligand/IonALPHA-D-GLUCOSE
3SO41Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:100 , GLU A:266 , TRP A:325 , HOH A:2358 , HOH A:2472 , HOH A:2616 , HOH A:2617 , HOH A:2618BINDING SITE FOR RESIDUE GLA A1381
2AC2SOFTWARETYR A:204 , ASN A:205 , GLN A:239 , TRP A:242 , TRP A:274 , ARG A:329 , HOH A:2442 , HOH A:2620 , HOH A:2621 , HOH A:2622 , HOH A:2623 , HOH A:2624 , HOH A:2625 , HOH A:2626BINDING SITE FOR RESIDUE GLC A1382
3AC3SOFTWAREARG A:147 , HOH A:2628 , HOH A:2629BINDING SITE FOR RESIDUE SO4 A1383

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1HIZ)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Glu A:209 -Pro A:210
2Trp A:242 -Pro A:243
3Trp A:274 -Pro A:275

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GH10_2PS51760 Glycosyl hydrolases family 10 (GH10) domain profile.XYN1_GEOSE42-406  1A:15-379
2GH10_1PS00591 Glycosyl hydrolases family 10 (GH10) active site.XYN1_GEOSE286-296  1A:259-269

(-) Exons   (0, 0)

(no "Exon" information available for 1HIZ)

(-) 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:375
 aligned with XYN1_GEOSE | P40943 from UniProtKB/Swiss-Prot  Length:407

    Alignment length:375
                                    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       372       382       392       402     
           XYN1_GEOSE    33 SYAKKPHISALNAPQLDQRYKNEFTIGAAVEPYQLQNEKDVQMLKRHFNSIVAENVMKPISIQPEEGKFNFEQADRIVKFAKANGMDIRFHTLVWHSQVPQWFFLDKEGKPMVNETDPVKREQNKQLLLKRLETHIKTIVERYKDDIKYWDVVNEVVGDDGKLRNSPWYQIAGIDYIKVAFQAARKYGGDNIKLYMNDYNTEVEPKRTALYNLVKQLKEEGVPIDGIGHQSHIQIGWPSEAEIEKTINMFAALGLDNQITELDVSMYGWPPRAYPTYDAIPKQKFLDQAARYDRLFKLYEKLSDKISNVTFWGIADNHTWLDSRADVYYDANGNVVVDPNAPYAKVEKGKGKDAPFVFGPDYKVKPAYWAIIDHK 407
               SCOP domains d1hiza_ A: Xylanase                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1hizA00 A:6-380 Glycosidases                                                                                                                                                                                                                                                                                                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhh....eeeeeehhhhhhhhhhhhhhhhhh.eeee....hhhhhh.......hhhhhhhhhhhhhh..eeee...ee....hhhhh.......hhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee...........hhhhhhhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhh...eeeeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee.......hhhhhhh.eee.....ee........eee.................hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------GH10_2  PDB: A:15-379 UniProt: 42-406                                                                                                                                                                                                                                                                                                                                        - PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GH10_1     --------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hiz A   6 SYAKKPHISALNAPQLDQRYKNEFTIGAAVEPYQLQNEKDVQMLKRHFNSIVAENVMKPISIQPEEGKFNFEQADRIVKFAKANGMDIRFHTLVWHSQVPQWFFLDKEGKPMVNETDPVKREQNKQLLLKRLETHIKTIVERYKDDIKYWDVVNEVVGDDGKLRNSPWYQIAGIDYIKVAFQAARKYGGDNIKLYMNDYNTEVEPKRTALYNLVKQLKEEGVPIDGIGHQSHIQIGWPSEAEIEKTINMFAALGLDNQITELDVSMYGWPPRAYPTYDAIPKQKFLDQAARYDRLFKLYEKLSDKISNVTFWGIADNHTWLDSRADVYYDANGNVVVDPNAPYAKVEKGKGKDAPFVFGPDYKVKPAYWAIIDHK 380
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375
   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  (0, 0)

(no "Pfam Domain" information available for 1HIZ)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (XYN1_GEOSE | P40943)
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.
    GO:0045493    xylan catabolic process    The chemical reactions and pathways resulting in the breakdown of xylan, a polymer containing a beta-1,4-linked D-xylose backbone.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  XYN1_GEOSE | P40943
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 Related Entries

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

UniProtKB/Swiss-Prot
        XYN1_GEOSE | P40943: 1r85 1r86 1r87 3mmd 4prw 4pud 4pue

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