Protein Info for HMPREF1078_RS13880 in Parabacteroides merdae CL09T00C40

Annotation: tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE

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 50 100 150 200 250 300 350 400 460 PF10396: TrmE_N" amino acids 4 to 124 (121 residues), 141.8 bits, see alignment E=4.7e-45 TIGR00450: tRNA modification GTPase TrmE" amino acids 10 to 460 (451 residues), 390.8 bits, see alignment E=9.8e-121 PF12631: MnmE_helical" amino acids 127 to 457 (331 residues), 167.5 bits, see alignment E=1.9e-52 TIGR00231: small GTP-binding protein domain" amino acids 222 to 376 (155 residues), 86.4 bits, see alignment E=1.9e-28 PF00071: Ras" amino acids 224 to 378 (155 residues), 27 bits, see alignment E=1.2e-09 PF01926: MMR_HSR1" amino acids 224 to 339 (116 residues), 97.2 bits, see alignment E=2.7e-31 PF02421: FeoB_N" amino acids 224 to 374 (151 residues), 36 bits, see alignment E=2e-12

Best Hits

Swiss-Prot: 51% identical to MNME_FLAPJ: tRNA modification GTPase MnmE (mnmE) from Flavobacterium psychrophilum (strain JIP02/86 / ATCC 49511)

KEGG orthology group: K03650, tRNA modification GTPase (inferred from 74% identity to bhl:Bache_1650)

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)

Search 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

Find the best match in UniProt

Protein Sequence (460 amino acids)

>HMPREF1078_RS13880 tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE (Parabacteroides merdae CL09T00C40)
MEDTICAVSTAPGAGGIAVIRISGPEAIAICNTIFVPRTAGKGLLSQKAYTLRYGSIRRG
EELIDEVLIALFRAPHSFTGEDTVEITCHGSVYIQQQIMQLLIERGCRSALPGEYTQRAF
MNGKMDLSQAEAVADLIASTSAGQHRLALNQMRGGFSHELKNLREQLLHITSLMELELDF
SDHEELEFADRSELSTLAAHIETVISRLANSFSVGNAIKNGIPVAIIGETNAGKSTLLNV
LLNEDKAIVSDIHGTTRDVIEDTINIGGITFRFIDTAGIRETHDAIESIGIERTFQKLDQ
ADIVLWMIDAADASLQIAQLSEKILPRSEGKQLILVFNKADLLTDRQFKPTDLPENVQSI
FISAKKREHIDKLQDLLIQAAHIPSLSSNDVIVTNIRHYEALTHALESIHRVQEGLSANL
SGDFISQDLRECIFHLSDIVGEVTTDQVLGNIFERFCIGK