Protein Info for Dshi_3985 in Dinoroseobacter shibae DFL-12

Annotation: TrbL/VirB6 plasmid conjugal transfer protein (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 50 100 150 200 250 300 358 transmembrane" amino acids 24 to 50 (27 residues), see Phobius details amino acids 61 to 81 (21 residues), see Phobius details amino acids 87 to 105 (19 residues), see Phobius details amino acids 142 to 163 (22 residues), see Phobius details amino acids 169 to 188 (20 residues), see Phobius details amino acids 198 to 224 (27 residues), see Phobius details amino acids 237 to 261 (25 residues), see Phobius details PF04610: TrbL" amino acids 39 to 255 (217 residues), 129.4 bits, see alignment E=8.6e-42

Best Hits

KEGG orthology group: K03201, type IV secretion system protein VirB6 (inferred from 100% identity to dsh:Dshi_3985)

Predicted SEED Role

"Inner membrane protein of type IV secretion of T-DNA complex, VirB6"

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

See A8LU05 at UniProt or InterPro

Protein Sequence (358 amino acids)

>Dshi_3985 TrbL/VirB6 plasmid conjugal transfer protein (RefSeq) (Dinoroseobacter shibae DFL-12)
MSVVTYFVETSQAYLDTAAETQFGAVAATVGTLLVLGTTLVVILVGINMIYQYRAMDGHT
AFWLAVKIGLIGIFATNWMQFNAFSSAILYGIDSIAGALIASVGGGSPGPSGTFAEEFDR
LIAELGDYLNAAGSELNWMAGAMLDIVGVLLLSILGGLAAFILVASRLMIALLIGIAPVM
IFLTLFEVTKDYFTRWLSALISFALYPIVVAGVFATITGVSSALIGELGDPEGASNIGAL
IPFFMMVLMAKGFIIATPFIVRAISGNIMMPALSGGLGGGYSFARAAMGGQQAYNRYLIG
GASGAEYAALRARQFFGVQQMPARQGMGQKGSGGSTGSADSGSKMLAQLARLARLGRR