Protein Info for GFF3028 in Variovorax sp. SCN45

Annotation: T6SS outer membrane component TssL (ImpK/VasF)

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 50 100 150 200 253 transmembrane" amino acids 210 to 231 (22 residues), see Phobius details PF09850: DotU" amino acids 43 to 223 (181 residues), 106.4 bits, see alignment E=8e-35 TIGR03349: type IV/VI secretion system protein, DotU family" amino acids 45 to 223 (179 residues), 91.8 bits, see alignment E=2.6e-30

Best Hits

KEGG orthology group: K11892, type VI secretion system protein ImpK (inferred from 67% identity to bge:BC1002_5461)

Predicted SEED Role

"FIG00976912: hypothetical protein"

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 (253 amino acids)

>GFF3028 T6SS outer membrane component TssL (ImpK/VasF) (Variovorax sp. SCN45)
MARTLPDLAVDDHITKQFRAFYDEIVKARDRTAESRETDPDLVAQALARHLENLLELQSL
ESRRDSTRFELENVADARYLKAALADEILLQTPWVGRERWTAHLLETSLFRTNIAGDLVF
NRIEELLSGREPSKRDIARLYLFALALGFQGKYRGNGDTARLLGYREELFQFVYQRPADF
SGRDRVVSERAYASTLSHIAPRKLPTLSRWTVLFLLSAATLLAVSELLWLWQSWPVRQVL
QPGAVDASGAWQR