Protein Info for Shew_2620 in Shewanella loihica PV-4

Name: dnaE
Annotation: DNA polymerase III subunit alpha (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

1 100 200 300 400 500 600 700 800 900 1000 1100 1157 TIGR00594: DNA polymerase III, alpha subunit" amino acids 6 to 1029 (1024 residues), 1349.6 bits, see alignment E=0 PF02811: PHP" amino acids 8 to 172 (165 residues), 142.5 bits, see alignment E=4.8e-45 PF07733: DNA_pol3_alpha" amino acids 291 to 558 (268 residues), 344.9 bits, see alignment E=1e-106 PF17657: DNA_pol3_finger" amino acids 561 to 735 (175 residues), 217.6 bits, see alignment E=2e-68 PF14579: HHH_6" amino acids 808 to 896 (89 residues), 94.2 bits, see alignment 1.3e-30 PF01336: tRNA_anti-codon" amino acids 998 to 1068 (71 residues), 39.1 bits, see alignment 1.8e-13 PF20914: DNA_pol_IIIA_C" amino acids 1098 to 1149 (52 residues), 51.2 bits, see alignment (E = 2.6e-17)

Best Hits

Swiss-Prot: 74% identical to DPO3A_ECOL6: DNA polymerase III subunit alpha (dnaE) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K02337, DNA polymerase III subunit alpha [EC: 2.7.7.7] (inferred from 75% identity to aha:AHA_1188)

MetaCyc: 74% 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 A3QG88 at UniProt or InterPro

Protein Sequence (1157 amino acids)

>Shew_2620 DNA polymerase III subunit alpha (RefSeq) (Shewanella loihica PV-4)
MSEPRFVHLRVHSDFSMSDGLAKVKPILAKASEDQMAALALTDNTNLCGLVKFYGGCHGA
GIKPIVGCDFFMLVPGFEDEFCSLTVLAMNNEGYKNLTLLISDAYLRGHVKDRAVIDQAW
LERYSEGLILLSGAKDGDVGKALLKGNQGQVDSLVAFYQTHFPDRYYLELIRTGRPDEER
YLHMAVELAGEKDLPVVATNQVVFIQPEQFEAHEIRVAISDGFTLADPRRPRRYSEQQYF
RIQDEMCELFDDIPEALQNSVEIAKRCNVTVRLGEYFLPNFPTGDLSIEDFLVEVSKKGL
EERLEFLFPDEAQRAERRGEYDERLDVELTVINNMGFPGYFLIVMEFIQWGKDNGIPIGP
GRGSGAGSLVAYALKITDLDPLEFDLLFERFLNPERVSMPDFDVDFCMDRRDEVIDHVAE
LYGRDAVSQIITFGTMAAKAVVRDVGRVLGHPYGFVDRISKMIPAEPGMTLAKAFEAEPA
LPEAYDADEEVKDLIDMCRVLEGVTRNAGKHAGGVVIAPTVITDFAPLYCDAEGHNPVTQ
FDKNDVETAGLVKFDFLGLRTLTIIDWALQMINPHLAKQGKEPVRIEAIVLDDPASFRLL
QRYETTAVFQLESRGMKDLIKRLQPDCFEDMIALVALFRPGPLQSGMVDNFIERKHGREE
VSYPDQQWQHESLKPILEPTYGIILYQEQVMQIAQVLAGYTLGGADMLRRAMGKKKPEEM
AKQRSVFEEGAVKNGVDGELAMKIFDLVEKFAGYGFNKSHSAAYALVSYQTLWLKTHFPA
QFMAAVMSADMDNTDKIVTLVDECERMGLPLLPPDVNKGLFRFTVDDDLNIVYGIGAIKG
VGEGPVESILKAREDGPFIDLFDFCARVDLKKLNRRVIEKLICAGALDNLGPHRAAMMAT
LPEAIRAADQHAKAEAIGQHDMFGLLNSEPEDNKQQFVHCTPWPDKVWLEGERDTLGLYL
TGHPINQYLKELKHYTSGRLKDVHPTERGKTTKAAGLVVATRVMMTKRGSKMGLVTLDDK
SARLEVMLFTEAFEKFGELLEKDRILIVEGEVSFDDFSGGNRMTARSIIDMGEARSHFAH
AVEVDLDGASITPEWLGQFQQAVEPWKAGSVPLVINYAQPTAKAQFRLGDEWRVNPTDEL
MLALETLTGSDKVRILF