Summary: Predicted SPOUT methyltransferase
Predicted SPOUT methyltransferase Provide feedback
This family of proteins are predicted to be SPOUT methyltransferases .
Tkaczuk KL, Dunin-Horkawicz S, Purta E, Bujnicki JM; , BMC Bioinformatics. 2007;8:73.: Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases. PUBMED:17338813 EPMC:17338813
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR003742
This family of proteins are predicted to be SPOUT methyltransferases [PUBMED:17338813].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Cellular component||cytoplasm (GO:0005737)|
|Molecular function||methyltransferase activity (GO:0008168)|
|Biological process||rRNA processing (GO:0006364)|
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A distinct class of methylases that includes the SpoU and TrmD superfamilies and two superfamilies of predicted methylases defined by the YbeA and MJ0421 proteins in bacteria and archaea, respectively  (PFAM:PF00588 PFAM:PF01746). SPOUT is structurally distinct compared to more classical methyltransferases . More specifically, the members of this clan form alpha/beta knots. Knots are extremely rare in protein structures as they pose a folding problem. The mechanism that allow a domain to be folded as a knot are unclear, but are discussed in  and reference therein. All members with known structure form homodimers.
The clan contains the following 11 members:DUF2122 Methyltrans_RNA Methyltrn_RNA_2 Methyltrn_RNA_3 Methyltrn_RNA_4 RNA_Me_trans SpoU_methylase SPOUT_MTase SPOUT_MTase_2 Trm56 tRNA_m1G_MT
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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Curation and family details
|Author:||Mian N, Bateman A|
|Number in seed:||30|
|Number in full:||3767|
|Average length of the domain:||152.30 aa|
|Average identity of full alignment:||38 %|
|Average coverage of the sequence by the domain:||97.90 %|
|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:||12|
|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 SPOUT_MTase domain has been found. There are 18 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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