Protein Info for Dshi_3454 in Dinoroseobacter shibae DFL-12

Annotation: tRNA modification GTPase TrmE (RefSeq)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 429 PF10396: TrmE_N" amino acids 3 to 117 (115 residues), 117.6 bits, see alignment E=7.3e-38 TIGR00450: tRNA modification GTPase TrmE" amino acids 8 to 429 (422 residues), 275.9 bits, see alignment E=7.4e-86 PF12631: MnmE_helical" amino acids 120 to 426 (307 residues), 158.8 bits, see alignment E=4.3e-50 TIGR00231: small GTP-binding protein domain" amino acids 214 to 300 (87 residues), 62 bits, see alignment E=5.8e-21 PF01926: MMR_HSR1" amino acids 215 to 302 (88 residues), 77.1 bits, see alignment E=2.3e-25 PF02421: FeoB_N" amino acids 215 to 302 (88 residues), 30.4 bits, see alignment E=5.4e-11

Best Hits

Swiss-Prot: 100% identical to MNME_DINSH: tRNA modification GTPase MnmE (mnmE) from Dinoroseobacter shibae (strain DSM 16493 / NCIMB 14021 / DFL 12)

KEGG orthology group: K03650, tRNA modification GTPase (inferred from 100% identity to dsh:Dshi_3454)

Predicted SEED Role

"GTPase and tRNA-U34 5-formylation enzyme TrmE" in subsystem Universal GTPases

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See A8LPC2 at UniProt or InterPro

Protein Sequence (429 amino acids)

>Dshi_3454 tRNA modification GTPase TrmE (RefSeq) (Dinoroseobacter shibae DFL-12)
MDTIFALASAPGKSGVAVLRISGSRAFHAGRVLAGGLPDAQRTSLRKLRDSDGSVIDEAL
VLAFESPNSFTGEDCVEFQTHGSPAIIAALMNELSALPGLRLAQPGEFTRRALENNRMDL
AQVEGLADLIEAETEAQRKQALRTFSGELGQKVELWRKDLVRAMALLEVTIDFADEEVPE
DVYPEVQELLGRVSQNLAAESAGTHAAERIRHGFEVAILGAPNVGKSSLLNRLAGREAAI
TSSIAGTTRDVVEVRLDLDGLPVTVLDTAGLRETQDEIEQIGISRAMARAESADLRIILI
EDGRLPSGLGVADDDILVQAKSDILPSSSEFAISSVTGRGIDRLVKAVSHRLSLRAASAG
TATHVRHRLAISSAVESLDLAKTKISEGFPVELVIEDLRQALVDLESLIGRVGVEQVLDE
IFANFCLGK