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Protein

Glucuronoxylanase XynC

Gene

xynC

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the depolymerization of methylglucuronoxylan (MeGAXn) from different sources. It cleaves the beta-1,4-xylosidic bond penultimate to that linking carbon one of the xylose residue substituted with alpha-1,2-linked 4-O-methyl-D-glucuronate (MeGA).1 Publication

Catalytic activityi

Endohydrolysis of (1->4)-beta-D-xylosyl links in some glucuronoarabinoxylans.

Kineticsi

The Km value for methylglucuronoxylan from sweetgum is 1.63 mg/ml. The activity is directly correlated to the degree of substitution of the glucuronosyl moiety on the xylan chain.

    1. Vmax=59.5 µmol/min/mg enzyme with methylglucuronoxylan from sweetgum as substrate (at 37 degrees Celsius and pH 6)1 Publication

    pH dependencei

    Optimum pH is 6.1 Publication

    Temperature dependencei

    Optimum temperature is 65 degrees Celsius. Half the activity is retained for 25 hours at 40 degrees Celsius and for 5 hours at 50 degrees Celsius.1 Publication

    Pathwayi: xylan degradation

    This protein is involved in the pathway xylan degradation, which is part of Glycan degradation.
    View all proteins of this organism that are known to be involved in the pathway xylan degradation and in Glycan degradation.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei171 – 1711Proton donorBy similarity
    Active sitei260 – 2601NucleophileBy similarity

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Glycosidase, Hydrolase

    Keywords - Biological processi

    Carbohydrate metabolism, Polysaccharide degradation, Xylan degradation

    Enzyme and pathway databases

    BioCyciBSUB:BSU18150-MONOMER.
    MetaCyc:BSU18150-MONOMER.
    BRENDAi3.2.1.136. 658.
    SABIO-RKQ45070.
    UniPathwayiUPA00114.

    Protein family/group databases

    CAZyiGH5. Glycoside Hydrolase Family 5.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glucuronoxylanase XynC (EC:3.2.1.136)
    Alternative name(s):
    Endoxylanase XynC
    Glucuronoxylan xylanohydrolase
    Gene namesi
    Name:xynC
    Synonyms:ynfF
    Ordered Locus Names:BSU18150
    OrganismiBacillus subtilis (strain 168)
    Taxonomic identifieri224308 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    Proteomesi
    • UP000001570 Componenti: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Secreted

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 3232Sequence analysisAdd
    BLAST
    Chaini33 – 422390Glucuronoxylanase XynCPRO_0000278646Add
    BLAST

    Proteomic databases

    PaxDbiQ45070.

    Expressioni

    Inductioni

    Constitutively expressed.1 Publication

    Interactioni

    Protein-protein interaction databases

    STRINGi224308.Bsubs1_010100009996.

    Structurei

    Secondary structure

    1
    422
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi36 – 4611Combined sources
    Beta strandi49 – 535Combined sources
    Helixi56 – 594Combined sources
    Helixi64 – 718Combined sources
    Beta strandi82 – 876Combined sources
    Helixi91 – 977Combined sources
    Helixi98 – 1069Combined sources
    Beta strandi110 – 1167Combined sources
    Helixi120 – 1223Combined sources
    Beta strandi123 – 1286Combined sources
    Beta strandi131 – 1377Combined sources
    Helixi139 – 1413Combined sources
    Helixi142 – 15817Combined sources
    Beta strandi164 – 1685Combined sources
    Helixi183 – 19210Combined sources
    Helixi194 – 1963Combined sources
    Beta strandi198 – 20811Combined sources
    Helixi211 – 2188Combined sources
    Helixi221 – 2255Combined sources
    Beta strandi228 – 2336Combined sources
    Helixi239 – 2413Combined sources
    Helixi245 – 2506Combined sources
    Beta strandi255 – 2617Combined sources
    Helixi270 – 2723Combined sources
    Turni274 – 2774Combined sources
    Helixi278 – 28912Combined sources
    Beta strandi294 – 30310Combined sources
    Beta strandi306 – 3083Combined sources
    Beta strandi312 – 3143Combined sources
    Helixi316 – 32510Combined sources
    Beta strandi333 – 3375Combined sources
    Beta strandi345 – 3528Combined sources
    Beta strandi355 – 3628Combined sources
    Beta strandi364 – 3663Combined sources
    Beta strandi368 – 3769Combined sources
    Beta strandi379 – 38810Combined sources
    Beta strandi391 – 3955Combined sources
    Beta strandi405 – 4106Combined sources
    Beta strandi412 – 42211Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3GTNX-ray2.68A/B33-422[»]
    3KL0X-ray1.64A/B/C/D33-422[»]
    3KL3X-ray2.33A/B/C/D33-422[»]
    3KL5X-ray2.59A/B/C/D33-422[»]
    ProteinModelPortaliQ45070.
    SMRiQ45070. Positions 33-422.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ45070.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the glycosyl hydrolase 30 family.Curated

    Keywords - Domaini

    Signal

    Phylogenomic databases

    eggNOGiENOG4108MYR. Bacteria.
    ENOG410XT5H. LUCA.
    HOGENOMiHOG000245812.
    InParanoidiQ45070.
    KOiK15924.
    OMAiNNSADRW.
    OrthoDBiEOG6T4RWM.
    PhylomeDBiQ45070.

    Family and domain databases

    Gene3Di2.60.40.1180. 1 hit.
    3.20.20.80. 1 hit.
    InterProiIPR033452. GH30_C.
    IPR001139. Glyco_hydro_30.
    IPR013780. Glyco_hydro_b.
    IPR013781. Glyco_hydro_catalytic_dom.
    IPR017853. Glycoside_hydrolase_SF.
    [Graphical view]
    PANTHERiPTHR11069. PTHR11069. 1 hit.
    PfamiPF17189. Glyco_hydro_30C. 1 hit.
    [Graphical view]
    SUPFAMiSSF51445. SSF51445. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    Q45070-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MIPRIKKTIC VLLVCFTMLS VMLGPGATEV LAASDVTVNV SAEKQVIRGF
    60 70 80 90 100
    GGMNHPAWAG DLTAAQRETA FGNGQNQLGF SILRIHVDEN RNNWYKEVET
    110 120 130 140 150
    AKSAVKHGAI VFASPWNPPS DMVETFNRNG DTSAKRLKYN KYAAYAQHLN
    160 170 180 190 200
    DFVTFMKNNG VNLYAISVQN EPDYAHEWTW WTPQEILRFM RENAGSINAR
    210 220 230 240 250
    VIAPESFQYL KNLSDPILND PQALANMDIL GTHLYGTQVS QFPYPLFKQK
    260 270 280 290 300
    GAGKDLWMTE VYYPNSDTNS ADRWPEALDV SQHIHNAMVE GDFQAYVWWY
    310 320 330 340 350
    IRRSYGPMKE DGTISKRGYN MAHFSKFVRP GYVRIDATKN PNANVYVSAY
    360 370 380 390 400
    KGDNKVVIVA INKSNTGVNQ NFVLQNGSAS NVSRWITSSS SNLQPGTNLT
    410 420
    VSGNHFWAHL PAQSVTTFVV NR
    Length:422
    Mass (Da):47,337
    Last modified:November 1, 1996 - v1
    Checksum:iFEEB750E3B9DAAB8
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Z73234 Genomic DNA. Translation: CAA97612.1.
    AL009126 Genomic DNA. Translation: CAB13698.1.
    PIRiE69892.
    RefSeqiNP_389697.1. NC_000964.3.
    WP_003231534.1. NZ_JNCM01000035.1.

    Genome annotation databases

    EnsemblBacteriaiCAB13698; CAB13698; BSU18150.
    GeneIDi937052.
    KEGGibsu:BSU18150.
    PATRICi18975465. VBIBacSub10457_1924.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Z73234 Genomic DNA. Translation: CAA97612.1.
    AL009126 Genomic DNA. Translation: CAB13698.1.
    PIRiE69892.
    RefSeqiNP_389697.1. NC_000964.3.
    WP_003231534.1. NZ_JNCM01000035.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3GTNX-ray2.68A/B33-422[»]
    3KL0X-ray1.64A/B/C/D33-422[»]
    3KL3X-ray2.33A/B/C/D33-422[»]
    3KL5X-ray2.59A/B/C/D33-422[»]
    ProteinModelPortaliQ45070.
    SMRiQ45070. Positions 33-422.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi224308.Bsubs1_010100009996.

    Protein family/group databases

    CAZyiGH5. Glycoside Hydrolase Family 5.

    Proteomic databases

    PaxDbiQ45070.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiCAB13698; CAB13698; BSU18150.
    GeneIDi937052.
    KEGGibsu:BSU18150.
    PATRICi18975465. VBIBacSub10457_1924.

    Phylogenomic databases

    eggNOGiENOG4108MYR. Bacteria.
    ENOG410XT5H. LUCA.
    HOGENOMiHOG000245812.
    InParanoidiQ45070.
    KOiK15924.
    OMAiNNSADRW.
    OrthoDBiEOG6T4RWM.
    PhylomeDBiQ45070.

    Enzyme and pathway databases

    UniPathwayiUPA00114.
    BioCyciBSUB:BSU18150-MONOMER.
    MetaCyc:BSU18150-MONOMER.
    BRENDAi3.2.1.136. 658.
    SABIO-RKQ45070.

    Miscellaneous databases

    EvolutionaryTraceiQ45070.

    Family and domain databases

    Gene3Di2.60.40.1180. 1 hit.
    3.20.20.80. 1 hit.
    InterProiIPR033452. GH30_C.
    IPR001139. Glyco_hydro_30.
    IPR013780. Glyco_hydro_b.
    IPR013781. Glyco_hydro_catalytic_dom.
    IPR017853. Glycoside_hydrolase_SF.
    [Graphical view]
    PANTHERiPTHR11069. PTHR11069. 1 hit.
    PfamiPF17189. Glyco_hydro_30C. 1 hit.
    [Graphical view]
    SUPFAMiSSF51445. SSF51445. 1 hit.
    ProtoNetiSearch...

    Publicationsi

    « Hide 'large scale' publications
    1. "New genes in the 170 degrees region of the Bacillus subtilis genome encode DNA gyrase subunits, a thioredoxin, a xylanase and an amino acid transporter."
      Rose M., Entian K.-D.
      Microbiology 142:3097-3101(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 168.
    2. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
      Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
      , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
      Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 168.
    3. Cited for: SUBCELLULAR LOCATION.
      Strain: 168.
    4. "Characterization of xynC from Bacillus subtilis subsp. subtilis strain 168 and analysis of its role in depolymerization of glucuronoxylan."
      St John F.J., Rice J.D., Preston J.F.
      J. Bacteriol. 188:8617-8626(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INDUCTION, CHARACTERIZATION, BIOPHYSICOCHEMICAL PROPERTIES.
      Strain: 168.

    Entry informationi

    Entry nameiXYNC_BACSU
    AccessioniPrimary (citable) accession number: Q45070
    Secondary accession number(s): Q796G4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 20, 2007
    Last sequence update: November 1, 1996
    Last modified: May 11, 2016
    This is version 97 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Bacillus subtilis
      Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
    2. Glycosyl hydrolases
      Classification of glycosyl hydrolase families and list of entries
    3. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    4. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    5. SIMILARITY comments
      Index of protein domains and families

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.