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B5CY92 (PORB_BACPM) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 18. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Beta-porphyranase B

EC=3.2.1.178
Alternative name(s):
Glycosyl hydrolase 86 family protein B
Short name=GH16B
Gene names
ORF Names:BACPLE_01689
OrganismBacteroides plebeius (strain DSM 17135 / JCM 12973 / M2)
Taxonomic identifier484018 [NCBI]
Taxonomic lineageBacteriaBacteroidetesBacteroidiaBacteroidalesBacteroidaceaeBacteroides

Protein attributes

Sequence length321 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Cleaves the sulfated polysaccharide porphyran at the (1->4) linkages between beta-D-galactopyranose and alpha-L-galactopyranose-6-sulfate, forming mostly the disaccharide alpha-L-galactopyranose-6-sulfate-(1->3)-beta-D-galactose. Some longer oligosaccharides of even number of residues are also observed. Inactive on the non-sulfated agarose portion of the porphyran backbone. Ref.3

Catalytic activity

Hydrolysis of beta-D-galactopyranose-(1->4)-alpha-L-galactopyranose-6-sulfate linkages in porphyran. Ref.3

Miscellaneous

Gut bacteria supply the human body with energy from dietary polysaccharides through glycosidases that are absent in the human genome. Beta-porphyranases, which are active on sulfated polysaccharides from marine red algae of the genus Porphyra, are present in marine bacteria. They are absent from metagenome data of gut bacteria, except from the genome of the gut bacterium B.plebeius isolated from Japanese individuals. Seaweeds make an important contribution to the diet in Japan and Porphyra (nori) is the most important nutritional seaweed used to prepare sushi, suggesting that seaweeds with associated marine bacteria have been the route by which genes coding for beta-porphyranases have been transferred in human gut B.plebeius genome (Ref.2 and Ref.3).

Sequence similarities

Belongs to the glycosyl hydrolase 16 family.

Ontologies

Keywords
   DomainSignal
   Molecular functionGlycosidase
Hydrolase
   Technical term3D-structure
Gene Ontology (GO)
   Biological_processcarbohydrate metabolic process

Inferred from electronic annotation. Source: InterPro

   Molecular_functionhydrolase activity, hydrolyzing O-glycosyl compounds

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2020 Potential
Chain21 – 321301Beta-porphyranase B
PRO_0000422025

Sites

Active site1731Nucleophile By similarity
Active site1781Proton donor By similarity
Binding site721Substrate By similarity
Binding site761Substrate By similarity
Binding site1731Substrate By similarity
Binding site1781Substrate By similarity
Binding site2841Substrate By similarity

Secondary structure

................................................................ 321
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
B5CY92 [UniParc].

Last modified October 14, 2008. Version 1.
Checksum: 56EAC9B6C773F4FE

FASTA32137,253
        10         20         30         40         50         60 
MRKTVLYLSA ASLFLSSYTL KNDKEYSLAE EHIKNLPEAP EGYKWVVNED YTDEFNGKRL 

        70         80         90        100        110        120 
NAAKWHAKSP YWTNGRPPAT FKAENVSVKK GCLRIINTVL SPTEGLDGKP GDKYRLAGGA 

       130        140        150        160        170        180 
VASVKNQAHY GYYETRMKAS LTTMSSTFWL SNRPVMKEIM KGGKKIKTWS SQELDIIETM 

       190        200        210        220        230        240 
GIIRSVNPDN PWNKTWNMQM NSNTHYWYQE QGGKRTDNTA KRSDVVSYMT DPSAEDFHTY 

       250        260        270        280        290        300 
GCWWVDANTV KFYYDGKYMY TIKPTTKYTD TPFDRPMFIH IVTETYDWEK QVPTAEDLKD 

       310        320 
KDKSTTYYDW VRAYKLVPIE E 

« Hide

References

« Hide 'large scale' references
[1]"Draft genome sequence of Bacteroides plebeius (DSM 17135)."
Sudarsanam P., Ley R., Guruge J., Turnbaugh P.J., Mahowald M., Liep D., Gordon J.
Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: DSM 17135 / JCM 12973 / M2.
[2]"Transfer of carbohydrate-active enzymes from marine bacteria to Japanese gut microbiota."
Hehemann J.H., Correc G., Barbeyron T., Helbert W., Czjzek M., Michel G.
Nature 464:908-912(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION.
Strain: DSM 17135 / JCM 12973 / M2.
[3]"Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes."
Hehemann J.H., Kelly A.G., Pudlo N.A., Martens E.C., Boraston A.B.
Proc. Natl. Acad. Sci. U.S.A. 109:19786-19791(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.40 ANGSTROMS) OF 21-321, FUNCTION, CATALYTIC ACTIVITY.
Strain: DSM 17135 / JCM 12973 / M2.

Web resources

Protein Spotlight

A gut's tale - Issue 158 of March 2014

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
ABQC02000019 Genomic DNA. Translation: EDY95423.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4AWDX-ray2.40A/B21-321[»]
ProteinModelPortalB5CY92.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaEDY95423; EDY95423; BACPLE_01689.
PATRIC30481052. VBIBacPle58056_1655.

Family and domain databases

Gene3D2.60.120.200. 1 hit.
InterProIPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR000757. Glyco_hydro_16.
[Graphical view]
PfamPF00722. Glyco_hydro_16. 1 hit.
[Graphical view]
SUPFAMSSF49899. SSF49899. 1 hit.
ProtoNetSearch...

Entry information

Entry namePORB_BACPM
AccessionPrimary (citable) accession number: B5CY92
Entry history
Integrated into UniProtKB/Swiss-Prot: April 3, 2013
Last sequence update: October 14, 2008
Last modified: April 16, 2014
This is version 18 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Protein Spotlight

Protein Spotlight articles and cited UniProtKB/Swiss-Prot entries

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Glycosyl hydrolases

Classification of glycosyl hydrolase families and list of entries