Protein Info for PP_2393 in Pseudomonas putida KT2440

Annotation: DNA polymerase II

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 786 PF21474: DNApolII_N" amino acids 6 to 41 (36 residues), 72.7 bits, see alignment (E = 3.2e-24) PF22587: DNApolII_insertion" amino acids 42 to 102 (61 residues), 97.7 bits, see alignment 6e-32 PF03104: DNA_pol_B_exo1" amino acids 195 to 246 (52 residues), 24.7 bits, see alignment 2.9e-09 PF00136: DNA_pol_B" amino acids 381 to 765 (385 residues), 127.2 bits, see alignment E=1.6e-40

Best Hits

Swiss-Prot: 69% identical to DPO2_ECOLI: DNA polymerase II (polB) from Escherichia coli (strain K12)

KEGG orthology group: K02336, DNA polymerase II [EC: 2.7.7.7] (inferred from 89% identity to ppg:PputGB1_1999)

MetaCyc: 69% identical to DNA polymerase II (Escherichia coli K-12 substr. MG1655)
3.1.11.-; DNA-directed DNA polymerase. [EC: 2.7.7.7]

Predicted SEED Role

"DNA polymerase II (EC 2.7.7.7)" in subsystem DNA-replication or DNA Repair Base Excision (EC 2.7.7.7)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.7.7

Use Curated BLAST to search for 2.7.7.7

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 Q88K98 at UniProt or InterPro

Protein Sequence (786 amino acids)

>PP_2393 DNA polymerase II (Pseudomonas putida KT2440)
MELQQGFVLTRHWHDTPEGTCVEFWLATDAGPRLLRLAAQESVAFIPQAQAEHARVLLAN
ETGTKLKPLRLKDFEHRPMLGLYTRQHRQLMQLEQRLRTAGIDVFEADIRPPERYLMERF
ITAPVQFTGQPDAQGVYRDAQLKPQPGYRPALRLVSLDIETSERGELYSIALEGCGQRQV
YMLGPANGDASGLDFDLEYCADRAALITRLNQWMARHDPDAIIGWNLVQFDLRLLHEHAK
SLQVPLALGRNGAVMTLRSHAGGGHVFADAPGRLLIDGIEALRSATWSFASFSLENVAQT
LLGEGKAIDTPYQRMDEINRRFAEDKPALARYNLKDCELVTRIFAHTRLLDFLLERASVT
GLAVDRSGGSVAAFCHLYIPQMHRLGFVAPSLGSRPDEASPGGFVMDSRPGLYDSVLVLD
YKSLYPSIIRTFLIDPVGLIEGLRQPDDAHSVEGFRGGRFSRTQHCLPAIVERVWQGREA
AKREGNAPLSQALKIIMNAFYGVLGSSGCRFFDPRLASSITMRGHQIMRQTRSLIEACGY
DVIYGDTDSTFVWLKGAHAEEDAARIGRELVAKVNQWWQAHLHETMNLHSALELQFEVHY
RRFLMPTIRGTDEGSKKRYAGLVQRADGAEEMVYKGLESVRTDWSPLARQFQQELYGRVF
RSEPYRDYVREYVRRTLAGEQDELLVYRKRLRRPLADYQRNVPPHVRAARLADDYNKRLQ
RPLQYQRGGWISYVITTAGPEPLENLQAPIDYDHYISRQLLPVADAILPFVGDDFARLTD
HQLLLF