Protein Info for PFR28_00411 in Pseudomonas sp. RS175

Annotation: DNA polymerase III subunit alpha

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 1173 TIGR00594: DNA polymerase III, alpha subunit" amino acids 5 to 1045 (1041 residues), 1289.9 bits, see alignment E=0 PF02811: PHP" amino acids 7 to 171 (165 residues), 149.8 bits, see alignment E=2.7e-47 PF07733: DNA_pol3_alpha" amino acids 291 to 560 (270 residues), 346.3 bits, see alignment E=3.9e-107 PF17657: DNA_pol3_finger" amino acids 563 to 737 (175 residues), 223.4 bits, see alignment E=3.4e-70 PF14579: HHH_6" amino acids 812 to 893 (82 residues), 92.4 bits, see alignment 5.1e-30 PF01336: tRNA_anti-codon" amino acids 1009 to 1084 (76 residues), 45.1 bits, see alignment 2.3e-15 PF20914: DNA_pol_IIIA_C" amino acids 1118 to 1164 (47 residues), 41.1 bits, see alignment (E = 3.9e-14)

Best Hits

Swiss-Prot: 94% identical to DPO3A_PSEFL: DNA polymerase III subunit alpha (dnaE) from Pseudomonas fluorescens

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)

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

Find the best match in UniProt

Protein Sequence (1173 amino acids)

>PFR28_00411 DNA polymerase III subunit alpha (Pseudomonas sp. RS175)
MPASFVHLRLHTEYSLVDGLVRIKPLIKTLAGMNMPAVAVTDQNNMCSLVKFYKAAMGGG
IKPICGADLWLASKDPDAPLSRISLLVMNAVGYRNLTELISRGFIDGQRNGSIIIEREWV
AEASEGLIMLSAAKEGEIGLALLSGNNEEAETLAREWMDVFPDRFYIEVQRTNRPNDEEH
LHAAVALADRIGAPLVATNDVRFIKQEDFEAHETRVCIGEGRALDDPRRPKNYSDQQYLK
SAEEMAELFSDLPEALENTVEIAKRCNIEVKLGKHFLPNFPIPDGMTIDEYFRKVSFDGL
EERLSVLLPKDTTEDYEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIQWAKNNGVPV
GPGRGSGAGSLVAYVQKITDLDPLEYDLLFERFLNPERVSMPDFDVDFCMDGRDRVIDYV
AEKYGRNAVSQIITFGSMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLEKAYEQE
EILRDFIKVDEEAAEIWEMARKLEGVVRNVGKHAGGVVIAPTKLTDFSPIYCDEEGDGLV
TQFDKDDVEAAGLVKFDFLGLRTLTIIDWALKTINRDRARAGEEPLDIAFIPLDDKPTYN
LLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFRPGPLQSGMVDDFINRKHGR
AELAYPHPDYQYDGLRPVLAPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPE
EMAKQRGGFIEGCANNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKAHY
PAPFMAAVLSADMHNTDKVVTLIEEVRTMKLRLDAPDVNASEFKFTVNDEGRIIYGLGAI
KGVGEGPVEAITEARQDGPFKDLFDFCARVDLKRINKRTLDGLIRSGALDRLGPYFHDEP
KAYQANIDRNRAVLLAAMEEAIKAAEQTARTHDSGHADLFGGLFVEEDADVYSNHRKAKE
LTLKERLKGEKDTLGLYLTGHPIDEYEGEIRRFARQRIIDLKPARDTQTVAGMIIALRVM
KNKKGDKMGFITLDDRSGRIEASLFADAFHSAQSLLQTDAMVVVEGEVSNDDFSGGLRLR
VKRVMSMEDARTNLAESLRLKLQTQDLKGDQLRWLGELFTRHRGACPITMEYVRPDAKAV
LQFGEGWRIDPADALIQALRDQFGKDNVFLQYR