Summary: Beta barrel domain of bacteriophage endosialidase
Beta barrel domain of bacteriophage endosialidase Provide feedback
This domain family is found in bacteria and viruses, and is approximately 80 amino acids in length.This domain is the beta barrel domain of bacteriophage endosialidase which represents the one of the two sialic acid binding sites of the enzyme. The domain is nested in the beta propeller domain of the endosialidase enzyme. The endosialidase protein complexes to form homotrimeric molecules.
Stummeyer K, Dickmanns A, Muhlenhoff M, Gerardy-Schahn R, Ficner R;, Nat Struct Mol Biol. 2005;12:90-96.: Crystal structure of the polysialic acid-degrading endosialidase of bacteriophage K1F. PUBMED:15608653 EPMC:15608653
Internal database links
|Similarity to PfamA using HHSearch:||End_beta_propel|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR024427This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [PUBMED:15608653].
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This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
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We make a range of alignments for each Pfam-A family:
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Curation and family details
|Previous IDs:||Endosialidase; Endobetabarrel;|
|Author:||Mistry J, Gavin OL|
|Number in seed:||3|
|Number in full:||30|
|Average length of the domain:||83.00 aa|
|Average identity of full alignment:||73 %|
|Average coverage of the sequence by the domain:||8.81 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||3|
|Download:||download the raw HMM for this family|
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the End_beta_barrel domain has been found. There are 18 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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