Protein Info for GFF84 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

Annotation: ATP-dependent helicase HrpB

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 824 TIGR01970: ATP-dependent helicase HrpB" amino acids 19 to 823 (805 residues), 1191.8 bits, see alignment E=0 PF00270: DEAD" amino acids 36 to 175 (140 residues), 44.4 bits, see alignment E=3e-15 PF00271: Helicase_C" amino acids 221 to 342 (122 residues), 36.7 bits, see alignment E=9e-13 PF24473: CON_HrpB" amino acids 581 to 615 (35 residues), 51.1 bits, see alignment (E = 1.9e-17) PF08482: HrpB_C" amino acids 679 to 811 (133 residues), 179 bits, see alignment E=1.1e-56

Best Hits

Swiss-Prot: 85% identical to HRPB_ECOLI: ATP-dependent RNA helicase HrpB (hrpB) from Escherichia coli (strain K12)

KEGG orthology group: K03579, ATP-dependent helicase HrpB [EC: 3.6.4.13] (inferred from 86% identity to cko:CKO_03221)

Predicted SEED Role

"ATP-dependent helicase HrpB"

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.13

Use Curated BLAST to search for 3.6.4.13

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 (824 amino acids)

>GFF84 ATP-dependent helicase HrpB (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MLQCGAKKVNPVEPFVTSLPVAAVLPELLTALKIAPQVLLSAPTGAGKSTWLPLQLLQQG
PVAGKILLLEPRRLAARNVAQRLAEALNEKPGETVGYRMRAQSCVGPRTRLEVVTEGVLT
RMIQRDPELRGVGLVILDEFHERSLQADLALALLLDIQQGLRDDLRLLIMSATLDNDRLC
QRLPDAPTIVSEGRAFPVERRYQPLAAHLRFDEAVAMATAELLRNENGSLLLFLPGVGEI
QRVHEHLASRVGSDVLLCPLYGALSLEAQRKAIVPAPAGMRKVVLATNIAETSLTIEGIR
LVVDSAQERVARFDARTGLTRLVTQRISQASMTQRAGRAGRLAPGICLHLLAKEQAERAA
AQSDPEILHSDLSGLLMEVLQWGCHDPASLFWLDRPPEVNLQAARRLLLMLGALEGERLS
ARGRKMAAMGNDPRLAAMLVNAGEGDSAATAAMLAAILEDPPRGGGTDLSVVFSRRQPGW
QQRSQQLLKRLQVRNGEPDSALIMPLLARAFSDRIARRRGQEGRYQLANGMGAMLDADDA
LGRHEWLIAPLLLQGSASPDARILLAQPLDIASLIQACPDLLRQSDTVEWDEAQGTLKAW
RRMRIGQLTVSVQPLAKPSEEELHQAMLNGIRDKGLSVLNWTPEAEQFRLRLHCAAKWLP
EYDWPAVDEASLLATLENWLLPHMTGVQSLRGLKSLNVNQALRGLLDYAMLQRLDSELPG
HYTVPTGSRITIRYHEDNPPALAVRMQEMFGEAKTPTIAQGRVPLVLELLSPAQRPLQIT
RDLSAFWQGAYREVQKEMKGRYPKHVWPDDPANTAPTRRTKKYS