Protein Info for Shew_3714 in Shewanella loihica PV-4

Annotation: DNA polymerase I (RefSeq)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 930 PF02739: 5_3_exonuc_N" amino acids 23 to 184 (162 residues), 206.2 bits, see alignment E=5.2e-65 TIGR00593: DNA polymerase I" amino acids 23 to 930 (908 residues), 916.6 bits, see alignment E=1e-279 PF01367: 5_3_exonuc" amino acids 185 to 286 (102 residues), 93.1 bits, see alignment E=2.7e-30 PF01612: DNA_pol_A_exo1" amino acids 332 to 518 (187 residues), 134.5 bits, see alignment E=6.9e-43 PF00476: DNA_pol_A" amino acids 553 to 927 (375 residues), 542.8 bits, see alignment E=8.8e-167

Best Hits

Swiss-Prot: 66% identical to DPO1_ECOLI: DNA polymerase I (polA) from Escherichia coli (strain K12)

KEGG orthology group: K02335, DNA polymerase I [EC: 2.7.7.7] (inferred from 66% identity to ecp:ECP_4074)

MetaCyc: 66% identical to DNA polymerase I (Escherichia coli K-12 substr. MG1655)
3.1.11.-; 3.1.11.-; DNA-directed DNA polymerase. [EC: 2.7.7.7]

Predicted SEED Role

"DNA polymerase I (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)

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 A3QJD2 at UniProt or InterPro

Protein Sequence (930 amino acids)

>Shew_3714 DNA polymerase I (RefSeq) (Shewanella loihica PV-4)
MLAPSSHTEKIDKIMPNIAENPLILVDGSSYLYRAYYAPPHLTNSKGEATGAVYGVINML
RSLLNQYKPTQMAVVFDAKGKTFRNEMYAEYKAHRPPMPDDLRTQIEPLHRIIRALGLPL
VCIPGVEADDVIGTIARQASQEGRAVLISTGDKDMAQLVDDKITLINTMTNTILGPDEVS
EKFGVGPELIIDLLALQGDKADNIPGLPGVGEKTALAMLQGVGGVEAILANPEKMPELGF
RGAKTMPAKIAEHGDMLKLSYELATIKCDVELEQDWHQLNIQGADRDELIKCYGEMEFKR
WLAEVLDNKSSASSQEEADEVPAPQAIDTQYDTILTWEALDEWLKALAAAPLFALDTETT
SLNYMEAKMVGLSFAIEPGKAAYLPLAHDYADAPEQLDSEQVLAKLKPLLEDPSLLKVGQ
NLKYDMSILANVGIALKGVAFDTMLESYVFNSVASKHNMDDLALKYLGHKNISFEEIAGK
GVKQLTFNQIPLETAAPYAAEDADITLRLHQHLWPRLQKASELASVFTDIELPLVSILSQ
IERQGVLIDSMLLGQQSDELARKIDELEQKAYEIAGEPFNLGSTKQLQALFFEKLGYPVL
KKTPKGAPSTAEEVLVELALDYPLPKIILEHRSLSKLKSTYTDKLPLMVDGKTGRVHTSY
HQAIAATGRLSSSEPNLQNIPIRTEEGRRIRHAFVAPEGRKILAADYSQIELRIMAHLSQ
DKGLLSAFAEGKDIHRATAAEVFDVDFSEVTSEQRRRAKAVNFGLIYGMSAFGLARQLDI
PRHEAQQYIDIYFKRYPGVLKYMEDTRAAAAEQGYVSTLYGRRLYLPAIKDRNAMRRQAA
ERAAINAPMQGTAADIIKKAMINIAQWIETETQGEITMIMQVHDELVFEVDADKADSLKL
KVCELMAQAASLDVELLAEAGIGDNWEQAH