Summary: 4F5 protein family
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4F5 protein family Provide feedback
Members of this family are short proteins that are rich in aspartate, glutamate, lysine and arginine. Although the function of these proteins is unknown, they are found to be ubiquitously expressed .
Scharf JM, Endrizzi MG, Wetter A, Huang S, Thompson TG, Zerres K, Dietrich WF, Wirth B, Kunkel LM; , Nat Genet 1998;20:83-86.: Identification of a candidate modifying gene for spinal muscular atrophy by comparative genomics. PUBMED:9731538 EPMC:9731538
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR007513Members of this family are short proteins that are rich in aspartate, glutamate, lysine and arginine. Although the function of these proteins is unknown, they are found to be ubiquitously expressed [PUBMED:9731538].
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- the UniProt description of the protein sequence
- the number of residues in the sequence
- the Pfam graphic itself.
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Superfamily of classical and closely related C2H2 or beta-beta-alpha zinc finger DNA-binding domains.
The clan contains the following 19 members:4F5 DUF3449 GAGA Sgf11 zf-AD zf-BED zf-C2H2 zf-C2H2_2 zf-C2H2_4 zf-C2H2_6 zf-C2H2_7 zf-C2H2_jaz zf-C2HC_2 zf-Di19 zf-H2C2_2 zf-H2C2_5 zf-met zf-met2 zf-U1
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 NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
You can see the alignments as HTML or in three different sequence viewers:
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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:||Wood V|
|Author:||Bateman A, Wood V|
|Number in seed:||40|
|Number in full:||536|
|Average length of the domain:||37.30 aa|
|Average identity of full alignment:||34 %|
|Average coverage of the sequence by the domain:||47.06 %|
|HMM build commands:||
build method: hmmbuild --amino -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||9|
|Download:||download the raw HMM for this family|
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The tree shows the occurrence of this domain across different species. More...
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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 4F5 domain has been found. There are 1 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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