Protein Info for LRK53_RS02835 in Rhodanobacter sp000427505 FW510-R12

Annotation: ATP-dependent RNA helicase DbpA

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 50 100 150 200 250 300 350 400 459 signal peptide" amino acids 1 to 24 (24 residues), see Phobius details PF00270: DEAD" amino acids 26 to 191 (166 residues), 157.9 bits, see alignment E=4e-50 PF04851: ResIII" amino acids 38 to 187 (150 residues), 34.4 bits, see alignment E=4.2e-12 PF00271: Helicase_C" amino acids 227 to 336 (110 residues), 102.5 bits, see alignment E=3.1e-33 PF03880: DbpA" amino acids 386 to 457 (72 residues), 84.2 bits, see alignment E=1.1e-27

Best Hits

Swiss-Prot: 54% identical to DBPA_ECOLI: ATP-dependent RNA helicase DbpA (dbpA) from Escherichia coli (strain K12)

KEGG orthology group: K05591, ATP-independent RNA helicase DbpA [EC: 3.6.4.13] (inferred from 63% identity to smt:Smal_1629)

MetaCyc: 54% identical to ATP-dependent RNA helicase DbpA (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

"ATP-dependent 23S rRNA helicase DbpA"

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.13

Use Curated BLAST to search for 3.6.4.13 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 (459 amino acids)

>LRK53_RS02835 ATP-dependent RNA helicase DbpA (Rhodanobacter sp000427505 FW510-R12)
MPTFSTLPLKPALLASVDTLGYAEMTPVQAQSLPPMLQGRDVIAQAQTGSGKTAAFGLSL
LQALDADTIRLQALVLCPTRELADQVSKAIRKLAANIPNVKLLTLCGGMPLGPQLASLSH
DPHIVVGTPGRVQEHLKRGSLHGGGIKVLVLDEADRMLDMGFSEAIDDIIGRIAKHHQTL
LFSATYPDEIRAASQRVQKDPVVVTVEAPAARRSAIEQQFIEVEPAQKLDALAQLLAGER
GQHALVFCNMRRDVDAVAQELDRRGYSALALHGDMEQRDRDEVLVRFANRSCNVLVATDV
AARGLDIAALPLVLSYDVAHDPDTHTHRIGRTGRAGETGLAITLCTPRERPKAANIEEAQ
GVPLPWRTLKLAPPRGKTLHLAPMKTLVIDAGRQDKLRPGDILGALTGDAGLEAKDIGKI
DVFATRAYVAISRALANKALERLRAGRIKGRNFRVRPLG