Summary: US22 like
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US22 like Provide feedback
US22 proteins have been found across many animal DNA viruses and some vertebrates [3]. The name sake of this family US22 P09722 is an early nuclear protein that is secreted from cells [2]. The US22 family may have a role in virus replication and pathogenesis [1]. Domain analysis showed that US22 proteins usually contain two copies of conserved modules which is homologous to several other families like SMI1 and SYD (commonly called SUKH superfamily) [3]. Bacterial operon analysis revealed that all bacterial SUKH members function as immunity proteins against various toxins. Thus US22 family is predicted to counter diverse anti-viral responses by interacting with specific host proteins [3].
Literature references
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Hanson LK, Dalton BL, Karabekian Z, Farrell HE, Rawlinson WD, Stenberg RM, Campbell AE; , Virology 1999;260:156-164.: Transcriptional analysis of the murine cytomegalovirus HindIII-I region: identification of a novel immediate-early gene region. PUBMED:10405367 EPMC:10405367
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Efstathiou S, Lawrence GL, Brown CM, Barrell BG; , J Gen Virol 1992;73:1661-1671.: Identification of homologues to the human cytomegalovirus US22 gene family in human herpesvirus 6. PUBMED:1321206 EPMC:1321206
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Zhang D, Iyer LM, Aravind L;, Nucleic Acids Res. 2011;39:4532-4552.: A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNA viral systems. PUBMED:21306995 EPMC:21306995
This tab holds annotation information from the InterPro database.
InterPro entry IPR003360
Herpesviruses are large and complex DNA viruses, widely found in nature. Human cytomegalovirus (HCMV), an important human pathogen, defines the betaherpesvirus family. Mouse cytomegalovirus (MCMV) and rat cytomegalovirus serve as biological model systems for HCMV. HCMV, MCMV, and rat CMV display the largest genomes among the herpesviruses and are essentially co-linear over the central 180 kb of the 230-kb genomes. Betaherpesviruses, which include the CMVs as well as human herpesviruses 6 and 7, differ from alpha- and gammaherpesviruses by the presence of additional gene families such as the US22 gene family, which are mainly clustered at the ends of the genome. The US22 family was first described in HCMV. This gene family comprises 12 members in both HCMV and MCMV and 11 in rat CMV [PUBMED:12719548].
US22 proteins have been found across many animal DNA viruses and some vertebrates [PUBMED:21306995]. The name sake of this family US22 (SWISSPROT) is an early nuclear protein that is secreted from cells [PUBMED:1321206]. The US22 family may have a role in virus replication and pathogenesis [PUBMED:10405367]. Domain analysis showed that US22 proteins usually contain two copies of conserved modules which is homologous to several other families like SMI1 and SYD (commonly called SUKH superfamily). Bacterial operon analysis revealed that all bacterial SUKH members function as immunity proteins against various toxins. Thus US22 family is predicted to counter diverse anti-viral responses by interacting with specific host proteins [PUBMED:21306995].
Domain organisation
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
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Pfam Clan
This family is a member of clan SUKH (CL0526), which has the following description:
SUKH superfamily unites a diverse group of proteins including Smi1/Knr4, PGs2, Fbxo3, Skip16, Syd, herpesviral US22, IRS1 and TRS1, and their bacterial homologs [1].
The clan contains the following 7 members:
SMI1_KNR4 SUKH-3 SUKH-4 SUKH_5 SUKH_6 Syd US22Alignments
We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the UniProtKB sequence database, the NCBI sequence database, and our metagenomics sequence database. More...
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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.
Seed (36) |
Full (498) |
Representative proteomes | UniProt (2910) |
NCBI (2632) |
Meta (0) |
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RP15 (422) |
RP35 (443) |
RP55 (515) |
RP75 (584) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.
Seed (36) |
Full (498) |
Representative proteomes | UniProt (2910) |
NCBI (2632) |
Meta (0) |
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RP15 (422) |
RP35 (443) |
RP55 (515) |
RP75 (584) |
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Raw Stockholm | |||||||||
Gzipped |
You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.
HMM logo
HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...
Trees
This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.
Note: You can also download the data file for the tree.
Curation and family details
This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.
Curation
Seed source: | Pfam-B_1016 (release 5.2) |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Bashton M |
Number in seed: | 36 |
Number in full: | 498 |
Average length of the domain: | 123.50 aa |
Average identity of full alignment: | 20 % |
Average coverage of the sequence by the domain: | 44.88 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 125 | ||||||||||||
Family (HMM) version: | 17 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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