Protein Info for PP_4873 in Pseudomonas putida KT2440

Annotation: replicative DNA helicase (ATPase)

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 50 100 150 200 250 300 350 400 465 PF00772: DnaB" amino acids 20 to 121 (102 residues), 124.4 bits, see alignment E=3.6e-40 TIGR00665: replicative DNA helicase" amino acids 20 to 455 (436 residues), 578 bits, see alignment E=6e-178 PF03796: DnaB_C" amino acids 197 to 453 (257 residues), 360.9 bits, see alignment E=7.3e-112 PF13481: AAA_25" amino acids 213 to 376 (164 residues), 41.2 bits, see alignment E=3e-14

Best Hits

Swiss-Prot: 60% identical to DNAB_ECOL6: Replicative DNA helicase (dnaB) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K02314, replicative DNA helicase [EC: 3.6.4.12] (inferred from 100% identity to ppf:Pput_4754)

MetaCyc: 61% identical to replicative DNA helicase (Escherichia coli K-12 substr. MG1655)
RXN0-4261 [EC: 5.6.2.3]

Predicted SEED Role

"Replicative DNA helicase (EC 3.6.1.-)" in subsystem DNA-replication (EC 3.6.1.-)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.6.1.-, 3.6.4.12

Use Curated BLAST to search for 3.6.1.- or 3.6.4.12 or 5.6.2.3

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 Q88DF2 at UniProt or InterPro

Protein Sequence (465 amino acids)

>PP_4873 replicative DNA helicase (ATPase) (Pseudomonas putida KT2440)
MNEITTSEQLDLQTAALKVPPHSIEAEQAVLGGLMLDNNAWERVLDQVSDGDFYRHDHRL
IFRAVHKLADANQPFDVVTLHEQLDKEGLSSQVGGLAYLAELAKNTPSVANIKAYAAIIR
ERATLRQLISISTDIADNAFNPQGRNAAEILDDAERQIFQIAEARPKTGGPVGVNELLTM
AIDRIDTLFNSDSDITGISTGYTDLDEKTSGLQAADLIIVAGRPSMGKTTFAMNLVENAV
LRTDKAVLVFSLEMPGESLIMRMLSSLGRIDQTKVRSGQLDDDDWPRLTSAVNLLNDRKL
FIDDTAGISPSEMRARTRRLAREHGEIAMIMVDYLQLMQIPGSAGDNRTNEISEISRSLK
ALAKEFNCPVIALSQLNRSLEQRPNKRPVNSDLRESGAIEQDADVIMFVYRDEVYHPETE
HKGVAEIIIGKQRNGPIGFVRLAFIGKYTRFENLAPGMYNFDDDE