Protein Info for GFF1090 in Sphingobium sp. HT1-2

Annotation: Type IV secretory pathway, VirD2 components (relaxase)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 692 PF03432: Relaxase" amino acids 163 to 230 (68 residues), 27.9 bits, see alignment E=2.4e-10 PF11843: DUF3363" amino acids 306 to 687 (382 residues), 429 bits, see alignment E=1.8e-132

Best Hits

Predicted SEED Role

"Type IV secretory pathway, VirD2 components (relaxase)"

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

Find the best match in UniProt

Protein Sequence (692 amino acids)

>GFF1090 Type IV secretory pathway, VirD2 components (relaxase) (Sphingobium sp. HT1-2)
MAQDDDPFEPRLGRSRRDSAGSRGAAKVRTGKALGTDARAKLLRQIARRGGNPRTLGKGA
VKKNNSRFNARGRGAGIGAAAPRTSGWSFDRGRGMHVRPRRVSVKARVVKLGGKLQAAVS
HVRYLQRDGVSREGEPGRFYTTFADDADGKAFVERSALDRHQFRLIVSPEDGPAFDTLRD
FTRDLMARMEEDLGTTLDWVAVDHFDTGHPHSHILIRGITEQGRILNIAGDYIAHGIRHR
ASQIMTRALGMQSELEVRQQLEQEVDAERLTRLDRMLIGKARDQVVDLREPAGRNSLDPD
HQQLLVARARTLERMELAQRSGPLRWTLSPTMETTLHDMGMRGDIIRLMHREMTRARDGE
ALEVNQYLVHDSSVPGKALPQPVIGRVIAAGSADDHHERRYLILDGVDGKSHYVDIGTSS
ERTPLGATVRLSTQVAEARPSDRTIAAIAREYDGRYSVQIHQGHDPHASADYVEAHVRRL
EALRRATGKPERGSDGVWAIGADHVERASTYERSRQQAQPVKIELLSSAPIRDLARVNAA
TWLDRELVADEPTRIGVTGHGKEVRAALALRRQWLVEQQLATLEGDQLVCRRNLLRLLTQ
RDVRAAGEALSKEVAIPFAEAGTGERIEGTIRRRVDLRSGSFALVERALDFTLVPWRDGL
ERRIGSSVSGLMRENGGISWTPGRSRSGPQIE