Protein Info for HER17_RS09660 in Pectobacterium carotovorum WPP14

Annotation: ATP-dependent RNA helicase HrpA

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

1 100 200 300 400 500 600 700 800 900 1000 1100 1200 1280 TIGR01967: RNA helicase HrpA" amino acids 1 to 1277 (1277 residues), 2167.5 bits, see alignment E=0 PF00270: DEAD" amino acids 66 to 214 (149 residues), 28.3 bits, see alignment E=4.2e-10 PF00271: Helicase_C" amino acids 262 to 384 (123 residues), 44.4 bits, see alignment E=5.6e-15 PF21010: HA2_C" amino acids 479 to 537 (59 residues), 40.8 bits, see alignment 8.1e-14 PF07717: OB_NTP_bind" amino acids 602 to 678 (77 residues), 52.7 bits, see alignment 1.2e-17 PF11898: DUF3418" amino acids 693 to 1277 (585 residues), 799.3 bits, see alignment E=7.5e-244

Best Hits

Swiss-Prot: 82% identical to HRPA_ECOLI: ATP-dependent RNA helicase HrpA (hrpA) from Escherichia coli (strain K12)

KEGG orthology group: K03578, ATP-dependent helicase HrpA [EC: 3.6.4.13] (inferred from 63% identity to amd:AMED_6985)

MetaCyc: 82% identical to ATP-dependent 3'->5' RNA helicase HrpA (Escherichia coli K-12 substr. MG1655)
5.6.2.e [EC: 5.6.2.e]

Predicted SEED Role

"ATP-dependent RNA helicase HrpA (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 (1280 amino acids)

>HER17_RS09660 ATP-dependent RNA helicase HrpA (Pectobacterium carotovorum WPP14)
MLRDRQRLRRRLQGAAKVSSPQAQAAIAQEIEGEIAAARQKVENRRASCPAIHYPEQLPV
SQKKDEILEALRHHQVIIVAGETGSGKTTQLPKICLELGRGVHGLIGHTQPRRLAARTVA
DRIAAELETPLGGSVGYKVRFNDQVGDNTLVKLMTDGILLAEIQQDRLLMQYDTLIIDEA
HERSLNIDFIMGYLRQLLPKRPDLKVIITSATIDPQRFSRHFNNAPIIEVSGRTYPVDVR
YRPVVEDADDSERDQLQAIFDAVDELTREGPGDILVFMSGEREIRDTAEALTRLDLPHTE
ILPLYARLSNQEQNRVFQSHHGRRIVLATNVAETSLTVPGIRYVIDPGTARISRYSFRTK
VQRLPIEPVSQASANQRKGRCGRVAAGVCIRLYSEQDFLSRPEFTDPEILRTNLASVILQ
MTSLGLGDIAAFPFVEAPDKRNIQDGVRLLEELGAINLAENGHYRLTPQGQQLAQLPIDP
RLARMVLEARKTGCVREVMIITAALSIQDPRERPMDKKQASDEKHRRFADKDSDFLAFVN
LWDYLRDQQKALSSSQFRRQCRTDFLNYLRVREWQDIYTQLRQVVKELGLPVNSEPADYL
SIHCALLTGLLSHVGQKDIEKQEFSGARNARFAIFPGSGLFKKPPKWTMVAELVETSRLW
GRIAARIEPEWIEPLAQHLIKRSYSDPHWEKAQGTVMAQEKVTLFGLPIVAARKVNYSQI
DPTLAREMFIRHALVEGDWQTHHAFFRANLKLLAEVEDLEHKSRRRDILVDDETLFAFYD
QRLPHDVVSSRHFDTWWKAASRDNADLLNFEKSMLIKDGAEKVSALDYPNFWHQGSLKLR
LSYQFEPGADADGVTVHIPLPILNQVREEGFEWQIPGVRRELTIALIKSLPKPLRRNFVP
APNYAEAFLARTTPLEKGLLDALERELRLMTGVTVPREAWQWDQVPDHLKITFRVIDEKN
RTQREGKDLNALKDQLKDKVQQTLSSVVDDGLEQRGLHVWSFGSLPDCYEQKRGGYSVKA
YPALVDEKDSVAIRLFDTPHQQQQVMRQGLRRLLLLNIPSPIKYLHEKLPNKAKLGLYFN
PYGKVLDLIDDCIACAVDKLIESSGGPVWQEEAFQKLHEKVRAELNDTVVDIAKQVEQIL
TAVFTINKRLKGRVDMAMALALSDIKSQMNGLVFRGFVTENGWQRLPDVLRYLHAIERRL
EKLAQDVHRDRAQMLKVEHVQQAWQQWWNKLPAERRDDDDVKAVRWMLEELRVSYFAQQL
GTPFPISDKRVLQAMEQVEG