DNA protection during starvation protein (P0ABT2)

Identification
Name:DNA protection during starvation protein
Synonyms:Not Available
Gene Name:dps
Enzyme Class:Not Available
Biological Properties
General Function:Inorganic ion transport and metabolism
Specific Function:During stationary phase, binds the chromosome non- specifically, forming a highly ordered and stable dps-DNA co- crystal within which chromosomal DNA is condensed and protected from diverse damages. It protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral, which can be released after reduction. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction. Dps also protects the cell from UV and gamma irradiation, iron and copper toxicity, thermal stress and acid and base shocks. Also shows a weak catalase activity
Cellular Location:Cytoplasm, nucleoid
SMPDB Pathways:Not Available
KEGG Pathways:Not Available
Complex Reactions:
2.0Thumb+1.0Thumb+2.0Thumb → 2.0Thumb+2.0Thumb
2.0Iron + 1.0Hydrogen peroxide + 2.0Hydrogen ion → 2.0Fe3+ + 2.0Water
ReactionCard
Metabolites:
ECMDB IDNameView
ECMDB21395Fe3+MetaboCard
ECMDB21225Hydrogen ionMetaboCard
ECMDB21232Hydrogen peroxideMetaboCard
ECMDB00692IronMetaboCard
ECMDB00494WaterMetaboCard
GO Classification:
Function
binding
catalytic activity
cation binding
ferric iron binding
ion binding
iron ion binding
metal ion binding
oxidoreductase activity
transition metal ion binding
Process
biological regulation
cellular cation homeostasis
cellular di-, tri-valent inorganic cation homeostasis
cellular ion homeostasis
cellular iron ion homeostasis
chemical homeostasis
homeostatic process
ion homeostasis
metabolic process
oxidation reduction
regulation of biological quality
response to stimulus
response to stress
Gene Properties
Blattner:Not Available
Gene OrientationNot Available
Centisome Percentage:Not Available
Left Sequence EndNot Available
Right Sequence EndNot Available
Gene Sequence:
>504 bp
ATGAGTACCGCTAAATTAGTTAAATCAAAAGCGACCAATCTGCTTTATACCCGCAACGAT
GTCTCCGACAGCGAGAAAAAAGCAACAGTAGAGTTGCTGAATCGCCAGGTTATCCAGTTT
ATTGATCTTTCTTTGATTACCAAACAAGCGCACTGGAACATGCGCGGCGCTAACTTCATT
GCCGTACATGAAATGCTGGATGGCTTCCGCACCGCACTGATCGATCATCTGGATACCATG
GCAGAACGTGCAGTGCAGCTGGGCGGTGTAGCTCTGGGGACCACTCAAGTTATCAACAGC
AAAACCCCGCTGAAAAGTTACCCGCTGGACATCCACAACGTTCAGGATCACCTGAAAGAA
CTGGCTGACCGTTACGCAATCGTCGCTAATGACGTACGCAAAGCGATTGGCGAAGCGAAA
GATGACGACACCGCAGATATCCTGACCGCCGCGTCTCGCGACCTGGATAAATTCCTGTGG
TTTATCGAGTCTAACATCGAATAA
Protein Properties
Pfam Domain Function:
Protein Residues:167
Protein Molecular Weight:18695
Protein Theoretical pI:6
PDB File:1F33
Signaling Regions:
  • None
Transmembrane Regions:
  • None
Protein Sequence:
>DNA protection during starvation protein
MSTAKLVKSKATNLLYTRNDVSDSEKKATVELLNRQVIQFIDLSLITKQAHWNMRGANFI
AVHEMLDGFRTALIDHLDTMAERAVQLGGVALGTTQVINSKTPLKSYPLDIHNVQDHLKE
LADRYAIVANDVRKAIGEAKDDDTADILTAASRDLDKFLWFIESNIE
References
External Links:
ResourceLink
Uniprot ID:P0ABT2
Uniprot Name:DPS_ECOLI
GenBank Gene ID:U00096
Genebank Protein ID:1787032
PDB ID:1F33
CCDB:DPS_ECOLI
General Reference:
  • Almiron, M., Link, A. J., Furlong, D., Kolter, R. (1992). "A novel DNA-binding protein with regulatory and protective roles in starved Escherichia coli." Genes Dev 6:2646-2654. Pubmed: 1340475
  • Altuvia, S., Almiron, M., Huisman, G., Kolter, R., Storz, G. (1994). "The dps promoter is activated by OxyR during growth and by IHF and sigma S in stationary phase." Mol Microbiol 13:265-272. Pubmed: 7984106
  • 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
  • Ceci, P., Cellai, S., Falvo, E., Rivetti, C., Rossi, G. L., Chiancone, E. (2004). "DNA condensation and self-aggregation of Escherichia coli Dps are coupled phenomena related to the properties of the N-terminus." Nucleic Acids Res 32:5935-5944. Pubmed: 15534364
  • Foster, S. J. (1993). "Purification and characterization of an 'actomyosin' complex from Escherichia coli W3110." FEMS Microbiol Lett 110:295-298. Pubmed: 8354462
  • Grant, R. A., Filman, D. J., Finkel, S. E., Kolter, R., Hogle, J. M. (1998). "The crystal structure of Dps, a ferritin homolog that binds and protects DNA." Nat Struct Biol 5:294-303. Pubmed: 9546221
  • 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
  • Ilari, A., Ceci, P., Ferrari, D., Rossi, G. L., Chiancone, E. (2002). "Iron incorporation into Escherichia coli Dps gives rise to a ferritin-like microcrystalline core." J Biol Chem 277:37619-37623. Pubmed: 12163499
  • Link, A. J., Robison, K., Church, G. M. (1997). "Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12." Electrophoresis 18:1259-1313. Pubmed: 9298646
  • Lomovskaya, O. L., Kidwell, J. P., Matin, A. (1994). "Characterization of the sigma 38-dependent expression of a core Escherichia coli starvation gene, pexB." J Bacteriol 176:3928-3935. Pubmed: 8021175
  • Nair, S., Finkel, S. E. (2004). "Dps protects cells against multiple stresses during stationary phase." J Bacteriol 186:4192-4198. Pubmed: 15205421
  • Nohno, T., Saito, T., Hong, J. S. (1986). "Cloning and complete nucleotide sequence of the Escherichia coli glutamine permease operon (glnHPQ)." Mol Gen Genet 205:260-269. Pubmed: 3027504
  • Noll, M., Petrukhin, K., Lutsenko, S. (1998). "Identification of a novel transcription regulator from Proteus mirabilis, PMTR, revealed a possible role of YJAI protein in balancing zinc in Escherichia coli." J Biol Chem 273:21393-21401. Pubmed: 9694902
  • Oshima, T., Aiba, H., Baba, T., Fujita, K., Hayashi, K., Honjo, A., Ikemoto, K., Inada, T., Itoh, T., Kajihara, M., Kanai, K., Kashimoto, K., Kimura, S., Kitagawa, M., Makino, K., Masuda, S., Miki, T., Mizobuchi, K., Mori, H., Motomura, K., Nakamura, Y., Nashimoto, H., Nishio, Y., Saito, N., Horiuchi, T., et, a. l. .. (1996). "A 718-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 12.7-28.0 min region on the linkage map." DNA Res 3:137-155. Pubmed: 8905232
  • Stephani, K., Weichart, D., Hengge, R. (2003). "Dynamic control of Dps protein levels by ClpXP and ClpAP proteases in Escherichia coli." Mol Microbiol 49:1605-1614. Pubmed: 12950924
  • Wolf, S. G., Frenkiel, D., Arad, T., Finkel, S. E., Kolter, R., Minsky, A. (1999). "DNA protection by stress-induced biocrystallization." Nature 400:83-85. Pubmed: 10403254
  • Zhao, G., Ceci, P., Ilari, A., Giangiacomo, L., Laue, T. M., Chiancone, E., Chasteen, N. D. (2002). "Iron and hydrogen peroxide detoxification properties of DNA-binding protein from starved cells. A ferritin-like DNA-binding protein of Escherichia coli." J Biol Chem 277:27689-27696. Pubmed: 12016214