Summary: META domain
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Small domain family found in proteins of of unknown function. Some are secreted (e.g. O25998) and implicated in motility in bacteria. Also occurs in Leishmania spp. as an essential gene. Over-expression in L.amazonensis increases virulence (O43987; ). A pair of cysteine residues show correlated conservation, suggesting that they form a disulphide bond.
Uliana SR, Goyal N, Freymuller E, Smith DF; , Exp Parasitol 1999;92:183-191.: Leishmania: overexpression and comparative structural analysis of the stage-regulated meta 1 gene. PUBMED:10403759 EPMC:10403759
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR005184
A domain found in proteins of unknown function [PUBMED:12625841], some of which are described as heat shock protein (HslJ). In Helicobacter pylori (Campylobacter pylori) the protein is secreted e.g. (SWISSPROT) and implicated in motility. In Leishmania spp. it is described as an essential protein, over-expression of which, in Leishmania amazonensis increases virulence (SWISSPROT; [PUBMED:10403759]). A pair of cysteine residues show correlated conservation, suggesting that they form a disulphide bond.
- 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
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The calycin structural superfamily [1-3] includes the lipocalins, the fatty acid-binding proteins (FABPs).
The clan contains the following 16 members:ApoM DUF3642 His_binding Lipocalin Lipocalin_2 Lipocalin_3 Lipocalin_4 Lipocalin_5 Lipocalin_6 Lipocalin_7 META Nitrophorin NlpE Triabin VDE YodA
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
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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:||Yeats C|
|Number in seed:||122|
|Number in full:||2207|
|Average length of the domain:||100.60 aa|
|Average identity of full alignment:||23 %|
|Average coverage of the sequence by the domain:||59.33 %|
|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:||11|
|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 META domain has been found. There are 2 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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