Summary: He_PIG associated, NEW1 domain of bacterial glycohydrolase
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He_PIG associated, NEW1 domain of bacterial glycohydrolase Provide feedback
The English-language version of the first reference can be found on pages 388-399 of the above. This domain has been named NEW1 but its actual function is not known. It is found on proteins which are bacterial galactosidases . The domain is associated with the He_PIG family, PF05345 a putative Ig-containing domain.
This tab holds annotation information from the InterPro database.
InterPro entry IPR019599
This domain has been named NEW1 but its actual function is not known. It is found on proteins which are bacterial galactosidases [PUBMED:15285616]. The domain is associated with INTERPRO, a putative Ig-containing domain.
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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:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the UniProtKB sequence database using the family HMM
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
|Seed source:||Pfam-B_97991 (release 22.0)|
|Author:||Naumoff D, Coggill P|
|Number in seed:||25|
|Number in full:||58|
|Average length of the domain:||29.00 aa|
|Average identity of full alignment:||56 %|
|Average coverage of the sequence by the domain:||4.72 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 26740544 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||8|
|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 He_PIG_assoc domain has been found. There are 3 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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