Protein Info for ABCV34_RS04635 in Castellaniella sp019104865 MT123

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 PF00270: DEAD" amino acids 28 to 192 (165 residues), 162.8 bits, see alignment E=1.3e-51 PF04851: ResIII" amino acids 42 to 188 (147 residues), 34.6 bits, see alignment E=3.6e-12 PF00271: Helicase_C" amino acids 237 to 336 (100 residues), 90.8 bits, see alignment E=1.4e-29 PF03880: DbpA" amino acids 387 to 456 (70 residues), 67.9 bits, see alignment E=1.3e-22

Best Hits

Swiss-Prot: 52% 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 axy:AXYL_02877)

MetaCyc: 52% 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)

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 (459 amino acids)

>ABCV34_RS04635 ATP-dependent RNA helicase DbpA (Castellaniella sp019104865 MT123)
MTTHTFSHLPLSPTQLDNLANMGYLTMTPIQAQSLPVILEGRDLIAQAKTGSGKTAAFGL
GILHHLDPARWVPQALVVCPTRELSEQVATELRRLARADGNIKVLTLTGGASARPQNESL
AHGAHVIVGTPGRLLDHLARQTLDLSAVRTLVLDEADRMVDMGFFPDVMEIARACPDRRQ
TLLFSATYPGSIREDVEHLLTNPEFVKVDAVHSETQIEQHFYEIDAAERFNATALLLRHF
QPESALAFCNTKAACAELSAHLKRAGFSALALHGDMDQRDRDDVLVQFSNHSSNILVATD
VAARGLDIPSLPMVINVELARDPQVHTHRVGRTGRMQESGMALSLCAPDEHYVASRIAQQ
LGRPLDLKPLPRPQSAGRPTQAPMVTLLVLGGKKAKLRPADLLGALTGDGGLTREQVGKI
NITDQVSYVALSRAVARSAFPRLENIPIKGKKQRMKLLS