Protein Info for PP_1061 in Pseudomonas putida KT2440

Annotation: putative ATP-dependent DNA helicase lhr

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 1300 1434 PF00270: DEAD" amino acids 30 to 217 (188 residues), 104.9 bits, see alignment E=1.6e-33 PF04851: ResIII" amino acids 43 to 214 (172 residues), 28 bits, see alignment E=7.5e-10 PF00271: Helicase_C" amino acids 274 to 371 (98 residues), 67.4 bits, see alignment 5e-22 PF22590: Cas3-like_C_2" amino acids 278 to 370 (93 residues), 28 bits, see alignment 9.2e-10 PF19306: WHD_Lhr" amino acids 400 to 561 (162 residues), 100.4 bits, see alignment E=3e-32 PF08494: DEAD_assoc" amino acids 636 to 838 (203 residues), 161.8 bits, see alignment E=7.2e-51 PF23235: WHD_3rd_Lhr" amino acids 1064 to 1142 (79 residues), 83.8 bits, see alignment 2.7e-27 PF23234: WHD_4th_Lhr" amino acids 1272 to 1356 (85 residues), 97.1 bits, see alignment 1.5e-31

Best Hits

Predicted SEED Role

"FIG003033: Helicase domain protein"

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

See Q88NZ2 at UniProt or InterPro

Protein Sequence (1434 amino acids)

>PP_1061 putative ATP-dependent DNA helicase lhr (Pseudomonas putida KT2440)
MNLPAKHHPVLELFHPAVSTWFRRHFATVTDAQAQAWPLIHAGQSMLLAAPTGSGKTLSA
FLAVLDELLREGMKHQGELPAQTLVIYVSPLKALSNDIRLNLQAPLEGISQAIAEQGLNA
PRITTAVRTGDTPQKERAAMRKLAPHILVTTPESLYVLMGSASGREGLAHVHTVIVDEIH
ALAGNKRGAHLALTLERLQALCKKPLRRIGLSATQRPVERVAQFLVGSGRPCAIVDIGHA
RKRDLAIEVPPVPLGAVMAIDVWGLVYDRLATLAREHRTTLVFVNTRRLAERITRHLSDR
LGKEAVAAHHGSLSKALRLDAEQRLKSGQLQVLVATASLELGIDIGDIDLVCQVASPGSI
AAFLQRVGRAGHQVDGVPKGRLFPTSRDDLIECVALLDCVRQGELDALHIPRAPLDVLAQ
QIVAEASNQAWHEQELLDCLRQATPYAELDQHHYQALLRMLAEGYNGRQGVRSAYLHRDA
VSGTLRGRRGSQLTALTSGGTIPDNADYAVLLEPQALNIGSVNEDFAVESIAGDIFQLGN
ASYRILRVEPGRVRVEDAHGLPPTIPFWLGEAPGRSDELSAAVARLQARIDQQLALAGGD
TVEVLAWLQATFELDEACAGQLLDYLARTREVLGALPSQDTLVMERFFDESGGTQLIIHS
PYGSRINRAWGLALRKRFCRTFNFELQAAASEDAIVLSLSTSHSFELDEVWRYLNSRSAE
PILIQALLDAPLFGVRWRWNAGVAMALPRFVGGRKVAPQIQRMKSEDLVAAVFPDQIACL
ENIAGERQIPDHPLVEQTLDDCLHEAMDSEGWLALLRRMESGAVRLLCRDLPAPSPLASA
ILNARPYAFLDDAPLEERRTQAVLNRRWNDVHSSDDLGALDADAIAAVAAEAWPQPANPD
EMHEALMSLGAIGQVEVDANPCWDLLLRQLAKAGRALRLPDDKLWLARERLNLLLALYPT
AHREPALERLAGFDQPIEPDHALSELLRARLSGHGPQTLAQIAAPLGKPVTDIEQALARL
EAEGYVLRGHFSPGATDLQWCERHLLARIHRYTVKRLRREIEPVSLQDFMRFLFDWQHLA
PDERLRGPQAVAEVLGQLQGFPSAAAAWEAELLPARIKDYSPHWLDEACRSGQFAWSRLA
ATVASSTLTSTPLVLLPRDQLNTWRSLAPAPAVDALGLRAQRVHEALKTQGALFFDELAH
EAHLLPSELETALQELVGSGLARADSFTGLRSLITPATKRSSRNSRRGHPPLSSSMAHAG
RWALLRRSDAPPDHDQRLEHIARTLLRRYGVICWRLLARESDVLPPWRELLRCYHRLEAR
GEIRGGRFIAGLAGEQFALPEAVVLLRQVRRREPDGTLQVVSAGDPLNLIGSLLPGAKVP
AVIGNRLLYRDGIPVAVRMAGRYAYLVEASAQEQESWRQKLLRDTLERVYPRIR