Protein Info for PP_1606 in Pseudomonas putida KT2440

Annotation: DNA polymerase III, alpha subunit

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 1174 TIGR00594: DNA polymerase III, alpha subunit" amino acids 5 to 1046 (1042 residues), 1284.6 bits, see alignment E=0 PF02811: PHP" amino acids 7 to 171 (165 residues), 143.2 bits, see alignment E=3e-45 PF07733: DNA_pol3_alpha" amino acids 290 to 560 (271 residues), 345.7 bits, see alignment E=5.9e-107 PF17657: DNA_pol3_finger" amino acids 563 to 737 (175 residues), 223.6 bits, see alignment E=2.8e-70 PF14579: HHH_6" amino acids 812 to 896 (85 residues), 96.4 bits, see alignment 2.9e-31 PF01336: tRNA_anti-codon" amino acids 1010 to 1085 (76 residues), 44.5 bits, see alignment 3.6e-15 PF20914: DNA_pol_IIIA_C" amino acids 1119 to 1165 (47 residues), 39.4 bits, see alignment (E = 1.3e-13)

Best Hits

Swiss-Prot: 84% identical to DPO3A_PSEAE: DNA polymerase III subunit alpha (dnaE) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

Predicted SEED Role

"DNA polymerase III alpha subunit (EC 2.7.7.7)" in subsystem DNA-replication (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 Q88MG5 at UniProt or InterPro

Protein Sequence (1174 amino acids)

>PP_1606 DNA polymerase III, alpha subunit (Pseudomonas putida KT2440)
MSVPFVHLRVHSEFSLVDGLVRIKPLAKALTGMNMPAVAITDQSNMCSLVKFYKTAMGAG
IKPICGADLWLAGADPEAPLSRICFLAMDPKGYRNLTELISRGWTDGQRNGLVILQREWI
APASEGLIALSAGKEGDIGMALLAGRQDEAEALLQDWMGMFPERFYVEVQRTNRARDEEY
VHAAVALADKLGAPLVATNDVRFIKQADFDAHETRVCIGEGWTLDDPRRPRCYSDQQYLK
SAEEMAELFSDLPDAIANTVEIAKRCNIQVQLGKYFLPDFPTPNGMGIDDYLRHVAHEGL
EERLAVLWPKETTPNYEEKRQVYLDRLKFELDIIIQMGFPGYFLIVMDFIKWAKNNDVPV
GPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERVSMPDFDVDFCMDGRDRVIDYV
AEAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLEKAYEQE
EILRDFLKGDEDAREIWDMALKLEGVTRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLV
TQFDKDDVEAAGLVKFDFLGLRTLTIIKWAMEIINREQAKKNLPDLNIDFIPLDDRKTYE
LLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFRPGPLQSGMVDDFINRKHGR
AELAYPHSDYQYEGLKPVLAPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPE
EMAKQRGGFIEGCVANNIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHY
PAPFMAAVLSADMHNTDKVVVLVEEVRSMKLRLDAPDVNFSDFKFTVNNDGRIVYGLGAI
KGVGEGPVEAIVEARAQGGPFKDLFDFCERIDLKRVNKRTLDALVRSGALDRLGPHFHDE
IKAYHANIDINRATLLSALGEAIKAAEQAAHTADSGHVDLFGSMFDAADVDVYANHRKVR
ELTLKERLKGEKDTLGLYLTGHPIDEYETEIRRFARQRIVDLKPSRETQTIAGMIIALRV
MKNKKGDKMGFVTLDDRSGRIEASLFADAFMAAQSLLQTDAMVVVEGEVSNDDFSGGLRL
RVKQVMTMEDARTKLAESLRLKVAHDALKGDRLKWLGELITRHRGACPITLEYTGSDAKA
MLQFGEQWAIDPADGLIQALRDQFGRENVFLQYR