Protein Info for GFF5842 in Variovorax sp. SCN45

Annotation: ATP-dependent DNA helicase Rep

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 PF00580: UvrD-helicase" amino acids 5 to 262 (258 residues), 269.7 bits, see alignment E=7.2e-84 PF13245: AAA_19" amino acids 9 to 246 (238 residues), 86.5 bits, see alignment E=3.7e-28 PF13361: UvrD_C" amino acids 268 to 642 (375 residues), 208.2 bits, see alignment E=5.1e-65

Best Hits

KEGG orthology group: K03656, ATP-dependent DNA helicase Rep [EC: 3.6.4.12] (inferred from 93% identity to vap:Vapar_0721)

Predicted SEED Role

"ATP-dependent DNA helicase Rep" in subsystem DNA repair, bacterial UvrD and related helicases

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.12

Use Curated BLAST to search for 3.6.4.12

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 (700 amino acids)

>GFF5842 ATP-dependent DNA helicase Rep (Variovorax sp. SCN45)
MSHGLNPAQLEAVNYMYGPCLVLAGAGSGKTRVITHKIGRLIQSGLEPQRIAAITFTNKA
AAEMRERAKDLIGKDARKVVVCTFHALGVRMMREDGAVLGLKKAFSILDSDDVTKILKDA
GGTTDIATARIWQWTISKWKNMGLNAKQAEAAAVDDNERITARIMAHYEERLQAYQSVDF
DDLIGMPLKLLYEFPEVRAKWQAALGHILVDEYQDTNATQYEVLKALAGERGHFTAVGDD
DQSIYGWRGATLDNLRKLPVDFPTLKVIKLEQNYRSTSAILRAANNVIGPNPKLFPKTLF
SELGEGEPVRIVDADSELHEAERAVARIVSLRAGDATTQGKQYKEFRDFAILYRANHQAR
VFEQALRKAQIPYKVSGGQSFFDRAEIKDLCGWFRLWVNNDDDPAFLRAITTPKRGIGHT
TLASLGSFASQYKLSLFEALFSPSLPSVMPKRTLEGIHEFGRYINDLEYRARRTMGAEDS
RTFMLDWLKEIDYEKHLYDGEDSESAAASRWTNVLEFVDWMSQRAGGTIDDTSGADNPIE
TERKSLLEVAQTISLLSTISERQQDQDVVTLSTLHASKGLEWPHVMLIGVSEGLLPFKLD
DDNGRQQKVSEDTLQRLQEERRLMYVGITRAQRSLAVSWTKKRKQGREMVPCVPSRFIAE
MGLDKATTREDPREKLKALRAEFARKAQDSAAKAAAASSS