Protein Info for PP_4546 in Pseudomonas putida KT2440

Annotation: ATP-dependent 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 1301 TIGR01967: RNA helicase HrpA" amino acids 10 to 1298 (1289 residues), 2201.1 bits, see alignment E=0 PF00270: DEAD" amino acids 79 to 226 (148 residues), 30.8 bits, see alignment E=8.2e-11 PF00271: Helicase_C" amino acids 291 to 408 (118 residues), 47.1 bits, see alignment E=9.1e-16 PF04408: HA2_N" amino acids 473 to 498 (26 residues), 25 bits, see alignment (E = 5.7e-09) PF21010: HA2_C" amino acids 499 to 557 (59 residues), 35.4 bits, see alignment 4.6e-12 PF07717: OB_NTP_bind" amino acids 622 to 697 (76 residues), 75.4 bits, see alignment 1.2e-24 PF11898: DUF3418" amino acids 711 to 1298 (588 residues), 676.2 bits, see alignment E=1.7e-206

Best Hits

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

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

See Q88EC0 at UniProt or InterPro

Protein Sequence (1301 amino acids)

>PP_4546 ATP-dependent helicase HrpA (Pseudomonas putida KT2440)
MTDHAIDKLLQNLDHAMIADRHCLRRQLHELRKRPDEAKLAQWVEKVQASCAQVTARQQS
VPTVRYDDNLPIAAKRDEIKKALAENQVLVIAGETGSGKTTQLPKICLELGRGSHGLIAH
TQPRRIAARSVAARVAEELGTPLGALVGYQVRFEDQSDSNTLVKLMTDGILLAETQHDRF
LERYDTIIVDEAHERSLNIDFLLGYLKTLLHRRPDLKLIITSATIDLERFSRHFDGAPII
EVSGRTFPVDTWYRPLTSEQDEEGNQIEDDLTVDQAILATLDELAQHERSEGKGPGDVLI
FLPGEREIRDAAEILRKAQLRHTEILPLYARLSPAEQQRIFQPHTGRRVVLATNVAETSL
TVPGIRYVIDTGTARISRYSYRAKVQRLPIEAVSQASANQRKGRCGRVEPGICVRLYSEE
DFNSRPAFTDPEILRTNLAAVILQMLHLRLGAIDAFPFIEPPDGKAISDGFNLLQELSAV
NRENQLTPIGRQLARLPIDPRLGRMLLEGARLGSLQEVLIVTSALSVQDPRERPPERQQA
ADQAHAQWKDVDSDFAALVNLWRGFEEQRQALTANPLRNWCRKQFLNYLRLREWRDAHRQ
LALICRDLQLTVNKEPTDYQKLHKAILSGLLSQIGQKTEEGDYQGARQRRFWVHPSSGLG
RKRPQWVMAAELVETTKLYARMVAKIEPDWIEPLAGHLIKKNHFEPHWEKKRGQVVAYEQ
ITLYGLILVGRRPVHYGPIDPATSRELFIREGLVGGEIQSRAKCLAANKRLLGELDELEA
KARRRDILADEETLYAFYEARLPAEIHQTATFDSWYRMGSQKDANLLIMREEDVLAREAS
EVTAAQYPDSMQVGDLRLPLSYHFEPGHPRDGVTVRVPAPLLPSLPGERLEWLVPGLLEA
KCVALVRNLPKALRKNFVPVPDFVKASLARMTFGQGALPQALGQELLRMTGARVSDEAWD
ESVNQVEGHLRMNIEVVDGQGKFLGEGRDLAELTARFAAASQAALAVPRDAKGEQPVQAK
AFSEVKQTAQQKIAGLSMTVYPALVEDNGTVREGRFSTQAEAEFQHRRALQRLLLQQLAE
PAKFLRGKLPGLTELGLLYREMGRVEALVEDILLASLDSCILEGEQPLPREGAALAALAE
RKRGSWAEHAERLARQTLEVLKLWHGLQKRFKGKIDLSQAVALNDIKQQLGNLVYPGFVR
ETPGVWFKELPRYLKAVELRLEKLGSQVQKDRVWSGELANLWAQYKARADKHAQEGKRDE
QLTVYRWWLEEYRVSLFAQQLGTKVPISDKRLSKQWSQVEG