Protein Info for HER17_RS18175 in Pectobacterium carotovorum WPP14

Annotation: DEAD/DEAH family ATP-dependent RNA helicase

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 50 100 150 200 250 300 350 400 450 500 550 600 635 PF00270: DEAD" amino acids 30 to 196 (167 residues), 175.1 bits, see alignment E=2.1e-55 PF04851: ResIII" amino acids 31 to 190 (160 residues), 27.7 bits, see alignment E=4.9e-10 PF00271: Helicase_C" amino acids 232 to 340 (109 residues), 103.5 bits, see alignment E=1.5e-33 PF03880: DbpA" amino acids 496 to 565 (70 residues), 68.6 bits, see alignment E=7.7e-23

Best Hits

Swiss-Prot: 84% identical to DEAD_SHIFL: ATP-dependent RNA helicase DeaD (deaD) from Shigella flexneri

KEGG orthology group: K05592, ATP-dependent RNA helicase DeaD [EC: 3.6.4.13] (inferred from 97% identity to pct:PC1_0591)

MetaCyc: 84% identical to ATP-dependent RNA helicase DeaD (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

"DEAD-box ATP-dependent RNA helicase CshA (EC 3.6.4.13)" (EC 3.6.4.13)

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 (635 amino acids)

>HER17_RS18175 DEAD/DEAH family ATP-dependent RNA helicase (Pectobacterium carotovorum WPP14)
MTDLVTSFADLGLNTSILNALTDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAF
SLPLLNNLKPELKAPQILVLAPTRELAVQVAEACNDFSKHMHGVNVVALYGGQRYDVQLR
ALRGGAQIVVGTPGRLLDHLKRGTLDLSNLSGLVLDEADEMLRMGFIEDVENIMAQIPAQ
HQTALFSATMPEAIRRITRRFMKDPQEVRIQSSITTRPDISQSYWTVQGMRKNEALVRFL
EAEDFDAAIIFVRTKNATLEVAEALERSGYNSAALNGDMNQALREQTLERLKDGRLDILI
ATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRERRLLRNV
ERTMKLTIPEVELPNAELLGQRRLAKFAAKVQQQLESSDLDMYRALLTKLQPQEELDVET
LAAALLKMAQGERPLILPPDPVFRPRREFRDRDESRSDSRGDRRREPRDARDSREPRDGD
RPQRRERRDAGEMELYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFASHSTIEL
PKGMPGDLLSHFTRTRILNKPMNMQLMGDAVAQPERRGGGRPGGERRDGAAPRRSFGGGE
RREGNGNGGERRERSFNRDNRDGASRAPRRRPADA