Subsystem: At3g21300

This subsystem's description is:

Hypothesis: General function for At3g21300 is known: RNA methyltransferase, TrmA family. But observations made in this Subsystem may help determine a more specific functional role for this family. Namely, At3g21300 homologs in many different prokaryotic genomes cluster with many different (!) tRNA synthetases, and with tRNA amidotransferases. At2g28450, a distant paralog of At3g21300 (but NOT At3g21300) displays similarity to eukaryotic putative tRNA (uracil-5-)-methyltransferases (e.g human proteins TRMT2A, TRMT2B)

Observations:

1. Homologs of At3g21300 are widely (but not ubiquitously) distributed in Prokaria: they occur in about half of analyzed genomes (~400 out of 860), including the following taxa: Firmicutes, Chlamydiae, cyanobacteria, Gammaproteobacteria, Thermotogae, etc.

2. In many of these prokaryotic genomes the corresponding genes are co-localized with different tRNA synthetases and with Glutamyl-tRNA(Gln) or Aspartyl-tRNA(Asn) tRNA amidotransferases. Only a portion of gene families, involved in conserved gene clustering with the At3g21300 family are encoded in this Subsystem. The majority are captured in MetaSubsystems: At3g21300_Meta1 and At3g21300_Meta2

3. Eukaryotes homologs of At3g21300 are far more distant (e-30 or worse) than prokaryotic ones (best at e-90). A rather distant yeast homolog (e-25, YKR056W, TRM2) was characterized: it catalyzes the formation of 5-methyl-uridine at position 54 (M-5-U54) in all tRNAs; and may also have a role in tRNA stabilization or maturation (PubMed: 10864043, 12003492).
Note: a distant paralog of At3g21300 is present in the Arabidopsis genome: At2g28450. Unlike At3g21300, it displays similarity to eukaryotic putative tRNA (uracil-5-)-methyltransferases (e.g human proteins TRMT2A, TRMT2B)

4. In Arabidopsis At3g21300 is co-expressed with tRNA synthetase class II (D, K and N) family protein At4g33760, indicating that in plants itís specific function might be similar to that of bacterial homologs.

5. In Arabidopsis At3g21300 is targeted to both, chloroplast and mitochondrion (Pubmed:16251277). At2g28450 is predicted to be targeted to cytoplasm

For more information, please check out the description and the additional notes tabs, below

DiagramFunctional RolesSubsystem SpreadsheetDescription 

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