Summary: RNA binding motif
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RNA binding motif Provide feedback
This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif .
Jacks A, Babon J, Kelly G, Manolaridis I, Cary PD, Curry S, Conte MR; , Structure. 2003;11:833-843.: Structure of the C-terminal domain of human La protein reveals a novel RNA recognition motif coupled to a helical nuclear retention element. PUBMED:12842046 EPMC:12842046
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR014886
This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif [PUBMED:12842046].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Molecular function||RNA binding (GO:0003723)|
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This clan contains families that are related to the RNA recognition motif domains. However, not all these families are RNA binding.
The clan contains the following 18 members:BRAP2 Calcipressin DUF1866 GUCT Limkain-b1 Nup35_RRM Nup35_RRM_2 PHM7_cyt RNA_bind RRM_1 RRM_2 RRM_3 RRM_5 RRM_7 RRM_occluded Smg4_UPF3 Tap-RNA_bind XS
We make a range of alignments for each Pfam-A family:
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- alignment generated by searching the metagenomics sequence database using the family HMM
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Curation and family details
|Number in seed:||12|
|Number in full:||471|
|Average length of the domain:||101.60 aa|
|Average identity of full alignment:||25 %|
|Average coverage of the sequence by the domain:||22.72 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 17690987 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||9|
|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 RRM_3 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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