Protein Info for MMP_RS00255 in Methanococcus maripaludis S2

Annotation: transcription initiation factor IIB

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 50 100 150 200 250 300 339 PF08271: Zn_Ribbon_TF" amino acids 42 to 83 (42 residues), 64.2 bits, see alignment 6.4e-22 PF00382: TFIIB" amino acids 150 to 235 (86 residues), 79.3 bits, see alignment E=1.8e-26 amino acids 245 to 332 (88 residues), 92.1 bits, see alignment E=1.8e-30

Best Hits

Swiss-Prot: 100% identical to TF2B_METMP: Transcription initiation factor IIB (tfb) from Methanococcus maripaludis (strain S2 / LL)

KEGG orthology group: K03124, transcription initiation factor TFIIB (inferred from 100% identity to mmp:MMP0041)

Predicted SEED Role

"Transcription initiation factor B" in subsystem RNA polymerase archaeal initiation factors

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 (archaea)

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 Q6M176 at UniProt or InterPro

Protein Sequence (339 amino acids)

>MMP_RS00255 transcription initiation factor IIB (Methanococcus maripaludis S2)
MKVESVTKEDTKKSERKIKIAIAKPEDYSNKNVILEKEEELICPVCGSKSIIKDYERAEI
VCEMCGCVLQQNLFDVGPEWRAFDHEQRVKRSRVGAPMTYTIHDKGLSTVIDWRNKDSYG
KDISADKRAQLYRLRKWQRRIRVSDASERNLAFALSELDRIASKLGLPRNVRENAAVLYR
GAVEKGLIRGRSIEGVAAAALYAACRRCKVPRTLDEIAEVSRVDRKEIGRTYRFISRELN
IRLAPTNPVDYVPRFASELKLPGEVESKAISILQKAGERGLTSGRGPTGVAAAAIYIASV
LQGTRRTQREVADVAGVTEVTIRNRYKELTEHLDIDVTL