DNA polymerase III subunit beta (P0A988)

Identification
Name:DNA polymerase III subunit beta
Synonyms:Not Available
Gene Name:dnaN
Enzyme Class:
Biological Properties
General Function:Involved in DNA binding
Specific Function:DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The beta chain is required for initiation of replication once it is clamped onto DNA, it slides freely (bidirectional and ATP- independent) along duplex DNA
Cellular Location:Cytoplasm
SMPDB Pathways:
KEGG Pathways:
KEGG Reactions:
1.0Thumb+1.0DNA ↔ 1.0Thumb+1.0DNA
1.0dATP + 1.0DNA ↔ 1.0Pyrophosphate + 1.0DNA
ReactionCard
1.0Thumb+1.0DNA ↔ 1.0Thumb+1.0DNA
1.0dGTP + 1.0DNA ↔ 1.0Pyrophosphate + 1.0DNA
ReactionCard
1.0Thumb+1.0DNA ↔ 1.0Thumb+1.0DNA
1.0dCTP + 1.0DNA ↔ 1.0Pyrophosphate + 1.0DNA
ReactionCard
1.0Thumb+1.0DNA ↔ 1.0Thumb+1.0DNA
1.0Thymidine 5'-triphosphate + 1.0DNA ↔ 1.0Pyrophosphate + 1.0DNA
ReactionCard
1.0Deoxynucleoside triphosphate+1.0DNA ↔ 1.0Thumb
1.0Deoxynucleoside triphosphate + 1.0DNA ↔ 1.0Pyrophosphate
ReactionCard
Metabolites:
ECMDB IDNameView
ECMDB01532dATPMetaboCard
ECMDB00998dCTPMetaboCard
ECMDB01440dGTPMetaboCard
ECMDB04142PyrophosphateMetaboCard
ECMDB01342Thymidine 5'-triphosphateMetaboCard
GO Classification:
Component
DNA polymerase complex
DNA polymerase III complex
macromolecular complex
protein complex
Function
3'-5' exonuclease activity
binding
catalytic activity
DNA binding
DNA polymerase activity
DNA-directed DNA polymerase activity
exonuclease activity
hydrolase activity
hydrolase activity, acting on ester bonds
nuclease activity
nucleic acid binding
nucleotidyltransferase activity
transferase activity
transferase activity, transferring phosphorus-containing groups
Process
cellular macromolecule metabolic process
DNA metabolic process
DNA replication
macromolecule metabolic process
metabolic process
Gene Properties
Blattner:b3701
Gene OrientationCounterclockwise
Centisome Percentage:83.61
Left Sequence End3879244
Right Sequence End3880344
Gene Sequence:
>1101 bp
ATGACCCCCGAACACCTTCCAACAGAACAGTATGAAGCGCAGTTAGCCGAAAAAGTGGTA
CGTTTGCAAAGTATGATGGCACCGTTTTCTGACCTGGTTCCGGAAGTGTTTCGCTCGCCG
GTCAGTCATTACCGGATGCGCGCGGAGTTCCGCATCTGGCACGATGGCGATGACCTGTAT
CACATCATTTTCGATCAACAAACCAAAAGCCGCATCCGCGTGGATAGCTTCCCCGCCGCC
AGTGAACTTATCAACCAGTTGATGACGGCGATGATTGCGGGTGTGCGTAATAATCCCGTT
CTGCGCCACAAGTTGTTCCAGATTGATTACCTCACTACACTGAGTAATCAGGCGGTGGTT
TCCCTGCTATACCATAAGAAGCTGGATGATGAGTGGCGTCAGGAAGCGGAGGCCCTGCGC
GATGCACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAA
ATCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATC
TACCGTCAGGTAGAAAACAGCTTTACCCAGCCGAACGCGGCGATGAATATTCAGATGCTG
GAATGGGCGCTGGACGTAACCAAAGGCTCAAAAGGCGATTTACTGGAGCTGTACTGCGGC
AACGGTAACTTTTCATTAGCGCTGGCGCGTAATTTTGATCGGGTATTAGCCACCGAAATC
GCTAAGCCGTCGGTTGCTGCTGCGCAATACAACATCGCAGCTAACCATATTGATAACGTA
CAAATTATTCGTATGGCGGCAGAAGAATTTACTCAGGCGATGAATGGTGTGCGCGAGTTT
AACCGCCTGCAAGGGATCGACTTAAAGAGTTATCAGTGCGAAACCATTTTTGTCGACCCT
CCGCGCAGCGGTCTGGACAGTGAAACCGAGAAAATGGTGCAGGCGTATCCGCGTATTTTG
TACATCTCCTGTAACCCGGAAACGTTATGCAAGAATCTGGAAACATTAAGCCAGACGCAC
AAGGTCGAACGTCTGGCTCTGTTTGATCAGTTCCCCTACACGCACCATATGGAGTGCGGC
GTATTACTGACCGCGAAGTAA
Protein Properties
Pfam Domain Function:
Protein Residues:366
Protein Molecular Weight:40586
Protein Theoretical pI:5
PDB File:1OK7
Signaling Regions:
  • None
Transmembrane Regions:
  • None
Protein Sequence:
>DNA polymerase III subunit beta
MKFTVEREHLLKPLQQVSGPLGGRPTLPILGNLLLQVADGTLSLTGTDLEMEMVARVALV
QPHEPGATTVPARKFFDICRGLPEGAEIAVQLEGERMLVRSGRSRFSLSTLPAADFPNLD
DWQSEVEFTLPQATMKRLIEATQFSMAHQDVRYYLNGMLFETEGEELRTVATDGHRLAVC
SMPIGQSLPSHSVIVPRKGVIELMRMLDGGDNPLRVQIGSNNIRAHVGDFIFTSKLVDGR
FPDYRRVLPKNPDKHLEAGCDLLKQAFARAAILSNEKFRGVRLYVSENQLKITANNPEQE
EAEEILDVTYSGAEMEIGFNVSYVLDVLNALKCENVRMMLTDSVSSVQIEDAASQSAAYV
VMPMRL
References
External Links:
ResourceLink
Uniprot ID:P0A988
Uniprot Name:DPO3B_ECOLI
GenBank Gene ID:AP009048
Genebank Protein ID:85676096
PDB ID:1OK7
Ecogene ID:EG10242
Ecocyc:EG10242
ColiBase:b3701
Kegg Gene:b3701
EchoBASE ID:EB0238
CCDB:DPO3B_ECOLI
BacMap:16131569
General Reference:
  • Adachi, T., Mizuuchi, K., Menzel, R., Gellert, M. (1984). "DNA sequence and transcription of the region upstream of the E. coli gyrB gene." Nucleic Acids Res 12:6389-6395. Pubmed: 6089112
  • Armengod, M. E., Garcia-Sogo, M., Lambies, E. (1988). "Transcriptional organization of the dnaN and recF genes of Escherichia coli K-12." J Biol Chem 263:12109-12114. Pubmed: 2841344
  • Armengod, M. E., Lambies, E. (1986). "Overlapping arrangement of the recF and dnaN operons of Escherichia coli; positive and negative control sequences." Gene 43:183-196. Pubmed: 3527871
  • Blanar, M. A., Sandler, S. J., Armengod, M. E., Ream, L. W., Clark, A. J. (1984). "Molecular analysis of the recF gene of Escherichia coli." Proc Natl Acad Sci U S A 81:4622-4626. Pubmed: 6379647
  • Blattner, F. R., Plunkett, G. 3rd, Bloch, C. A., Perna, N. T., Burland, V., Riley, M., Collado-Vides, J., Glasner, J. D., Rode, C. K., Mayhew, G. F., Gregor, J., Davis, N. W., Kirkpatrick, H. A., Goeden, M. A., Rose, D. J., Mau, B., Shao, Y. (1997). "The complete genome sequence of Escherichia coli K-12." Science 277:1453-1462. Pubmed: 9278503
  • Bunting, K. A., Roe, S. M., Pearl, L. H. (2003). "Structural basis for recruitment of translesion DNA polymerase Pol IV/DinB to the beta-clamp." EMBO J 22:5883-5892. Pubmed: 14592985
  • Burland, V., Plunkett, G. 3rd, Daniels, D. L., Blattner, F. R. (1993). "DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication." Genomics 16:551-561. Pubmed: 7686882
  • Hayashi, K., Morooka, N., Yamamoto, Y., Fujita, K., Isono, K., Choi, S., Ohtsubo, E., Baba, T., Wanner, B. L., Mori, H., Horiuchi, T. (2006). "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Mol Syst Biol 2:2006.0007. Pubmed: 16738553
  • Kong, X. P., Onrust, R., O'Donnell, M., Kuriyan, J. (1992). "Three-dimensional structure of the beta subunit of E. coli DNA polymerase III holoenzyme: a sliding DNA clamp." Cell 69:425-437. Pubmed: 1349852
  • O'Donnell, M. (1992). "Accessory protein function in the DNA polymerase III holoenzyme from E. coli." Bioessays 14:105-111. Pubmed: 1575709
  • Oakley, A. J., Prosselkov, P., Wijffels, G., Beck, J. L., Wilce, M. C., Dixon, N. E. (2003). "Flexibility revealed by the 1.85 A crystal structure of the beta sliding-clamp subunit of Escherichia coli DNA polymerase III." Acta Crystallogr D Biol Crystallogr 59:1192-1199. Pubmed: 12832762
  • Ohmori, H., Kimura, M., Nagata, T., Sakakibara, Y. (1984). "Structural analysis of the dnaA and dnaN genes of Escherichia coli." Gene 28:159-170. Pubmed: 6234204