Protein Info for GFF3235 in Pseudomonas sp. DMC3

Annotation: Replicative DNA helicase

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 TIGR00665: replicative DNA helicase" amino acids 20 to 455 (436 residues), 579.3 bits, see alignment E=2.4e-178 PF00772: DnaB" amino acids 20 to 121 (102 residues), 126.1 bits, see alignment E=1.1e-40 PF03796: DnaB_C" amino acids 197 to 453 (257 residues), 361 bits, see alignment E=6.6e-112 PF13481: AAA_25" amino acids 215 to 376 (162 residues), 44.7 bits, see alignment E=2.5e-15

Best Hits

Swiss-Prot: 62% identical to DNAB_ECOLI: Replicative DNA helicase (dnaB) from Escherichia coli (strain K12)

KEGG orthology group: K02314, replicative DNA helicase [EC: 3.6.4.12] (inferred from 98% identity to pfl:PFL_0583)

MetaCyc: 62% 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

Find the best match in UniProt

Protein Sequence (465 amino acids)

>GFF3235 Replicative DNA helicase (Pseudomonas sp. DMC3)
MNDISAPEQYDLQTAALKVPPHSIEAEQAVLGGLMLDNNAWERVLDQVSDGDFYRHDHRL
IFRAIAKLADQNSPIDVVTLAEQLDKEGQTSQVGGLGYLGELAKNTPSVANIKAYAQIVR
QRATLRQLIGISTEIADSAFNPEGRTAEEILDEAERQIFQIAEARPKTGGPVGVNELLTK
AIDRIDTLFNTADAITGLSTGYTDLDEKTSGLQPSDLIIVAGRPSMGKTTFAMNLVENAV
LRSEKAVLVYSLEMPGESLIMRMLSSLGRIDQTKVRSGQLEDDDWPRLTSAVNLLNDRKL
FIDDTAGISPSEMRARTRRLVREHGDVGLIMIDYLQLMQIPGSSGDNRTNEISEISRSLK
ALAKEFNCPVVALSQLNRSLEQRPNKRPVNSDLRESGAIEQDADVIMFVYRDEVYHPETE
HKGIAEIIIGKQRNGPIGFIRLAFIGKYTRFENLAPGSYNFDDDE