Protein Info for CSW01_03475 in Vibrio cholerae E7946 ATCC 55056

Annotation: ATP-dependent RNA helicase SrmB

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 50 100 150 200 250 300 350 423 PF04851: ResIII" amino acids 27 to 190 (164 residues), 36.9 bits, see alignment E=5.2e-13 PF00270: DEAD" amino acids 27 to 195 (169 residues), 155.5 bits, see alignment E=1.7e-49 PF00271: Helicase_C" amino acids 234 to 341 (108 residues), 110.6 bits, see alignment E=7.1e-36

Best Hits

Swiss-Prot: 61% identical to SRMB_ECOLI: ATP-dependent RNA helicase SrmB (srmB) from Escherichia coli (strain K12)

KEGG orthology group: K05590, ATP-dependent RNA helicase SrmB [EC: 2.7.7.-] (inferred from 100% identity to vco:VC0395_A0191)

MetaCyc: 61% identical to ATP-dependent RNA helicase SrmB (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

"ATP-dependent RNA helicase SrmB" in subsystem ATP-dependent RNA helicases, bacterial

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.7.-

Use Curated BLAST to search for 2.7.7.- or 5.6.2.e

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 (423 amino acids)

>CSW01_03475 ATP-dependent RNA helicase SrmB (Vibrio cholerae E7946 ATCC 55056)
MIKTFADLELDPILLEAIEEMGFSRPTQVQAEAIPQALDGRDVLASAPTGTGKTAAFVIP
ALQYLLDFPRRKAGPARILILTPTRELAMQVAEQAQALAKNTRLNIFTITGGVQYQEHAD
ILATTQDIVVATPGRLLEYIDAERFDCRAIEWLILDEADRMLDMGFGPTVDRLSTECRWR
KQTLLFSATLEGRGVEGFTADLLKDPAHVDAEPPRRERKKISQWYHRADDMPHKVELLKK
ILTEQAERSIVFLKTRERLADLRAELEKAQIPCAWIQGEMPQDRRNNAISRFREGDVNIL
LATDVAARGIDVPDISHVINFDLPRSADVYLHRIGRTGRAGKKGIAISLVEAHDQPMMAR
VERYIKEEVKERFIDGLRPKHKKPVFKKKKKDIKKTADKGAVKKKTTSKPKAKATKKKAA
TKA