Protein Info for SO1644 in Shewanella oneidensis MR-1

Name: dnaE
Annotation: DNA polymerase III, alpha subunit (NCBI ptt file)

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 1158 TIGR00594: DNA polymerase III, alpha subunit" amino acids 6 to 1029 (1024 residues), 1348.2 bits, see alignment E=0 PF02811: PHP" amino acids 8 to 171 (164 residues), 139.4 bits, see alignment E=4.4e-44 PF07733: DNA_pol3_alpha" amino acids 292 to 558 (267 residues), 350 bits, see alignment E=2.8e-108 PF17657: DNA_pol3_finger" amino acids 561 to 735 (175 residues), 215.3 bits, see alignment E=1e-67 PF14579: HHH_6" amino acids 808 to 896 (89 residues), 96.7 bits, see alignment 2.2e-31 PF01336: tRNA_anti-codon" amino acids 995 to 1068 (74 residues), 36.8 bits, see alignment 9.1e-13 PF20914: DNA_pol_IIIA_C" amino acids 1099 to 1149 (51 residues), 46.2 bits, see alignment (E = 9.9e-16)

Best Hits

Swiss-Prot: 73% identical to DPO3A_ECO57: DNA polymerase III subunit alpha (dnaE) from Escherichia coli O157:H7

KEGG orthology group: K02337, DNA polymerase III subunit alpha [EC: 2.7.7.7] (inferred from 73% identity to aha:AHA_1188)

MetaCyc: 72% identical to DNA polymerase III subunit alpha (Escherichia coli K-12 substr. MG1655)
DNA-directed DNA polymerase. [EC: 2.7.7.7]

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 Q8EGG0 at UniProt or InterPro

Protein Sequence (1158 amino acids)

>SO1644 DNA polymerase III, alpha subunit (NCBI ptt file) (Shewanella oneidensis MR-1)
MSDPRFVHLRVHSDFSMSDGVAKVKPILAQVEAKGMAAVALTDQNNLCGLVKFYGGCHGA
GIKPIIGADFWMQVPGFEDEFCAVTIIAMDNEGYQNLTQIISQAYLRGQVQGRVVIDQEW
LITYNPGILLLSGGKEGDIGKALLKGNNTQVESLCEFYQQHFEGRYFLELLRTGRPDEER
YLHMAVGVAQEKGIPVVATNQVVFLKPEDFEAHEIRVAIHDGFTLADPRRPKKYSEQQYL
RSEDEMCELFADIPAALANTVEIAKRCNVTIRLNEYFLPNFPTGDMSIEDFLVDCSKKGL
EERLAFLFPDPQVRAERRGEYDERLDVELKVINQMGFPGYFLIVMEFIQWGKDNGIPVGP
GRGSGAGSLVAYALKITDLDPLEFDLLFERFLNPERVSMPDFDVDFCMDRRDEVIDHVAE
LYGREAVSQIITFGTMAAKAVIRDVGRVLGHPYGFVDRISKLIPPEPGMTLAKAFEVEPA
LQESYDADEDVKDLIDMCRKLEGVTRNAGKHAGGVVIAPTKITDFSPLYCDAEGKNPVTQ
FDKNDVETAGLVKFDFLGLRTLTIVDWALEMINKVEVKNGRSPIRIEAIPLDDPASFRLL
QRYETTAVFQLESRGMKDLIKRLQPDCFEDMIALVALFRPGPLQSGMVDNFIERKHGREE
VSYPDSQYQHESLKELLSPTYGIILYQEQVMQIAQVLSGYTLGGADMLRRAMGKKKPEEM
AKQRSIFKEGAIKNGVDGELSMKIFDLVEKFAGYGFNKSHSAAYALVSYQTLWLKTHFPP
QFMAAVMSADMDNTDKIVTLVDECERMGLTIIPPDVNKGLFKFTVDDDLRIVYGIGAIKG
VGEGPVESILEARKDGPFTDLFDFCARIDLKKLNKRVIEKLICAGALDALGPHRASMMAT
LPEAISAADQHAKAEAIGQHDMFGLLNSDPEDSKQQFVECTPWPDKIWLEGERETLGLYL
TGHPINQYLKELKHYTSGRLKDVHPTDRGKTVKAAGLVVATRVMLTKRGSKMGLLTLDDK
SARLEVMLFTEAFEKFNHLLEKDRILICEGEVSFDDFAGGNRMTARNIIDISEARSHFAS
ALEIDLEASQLTPSMLDSIEQAISPWRNGAVPVLINYSQAQAKGQFRLAEAWRVNPSDEL
VFALESLLGPHKVRIVFP