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X-ray and molecular-dynamics studies on Mycobacterium leprae single-stranded DNA-binding protein and comparison with other eubacterial SSB structures.

Kaushal PS, Singh P, Sharma A, Muniyappa K, Vijayan M
Acta Crystallogr D Biol Crystallogr 66 1048-58 (2010)
Related entries: 1kaw, 1ue1, 1ue5, 1ue6, 1ue7, 1x3e, 1x3f, 1x3g, 3afp, 3ull

Cited: 9 times
EuropePMC logo PMID: 20944238

Abstract

The crystal structures of two forms of Mycobacterium leprae single-stranded DNA-binding protein (SSB) have been determined at 2.05 and 2.8 Å resolution. Comparison of these structures with the structures of other eubacterial SSBs indicates considerable variation in their quaternary association, although the DNA-binding domains in all of them exhibit the same OB-fold. This variation has no linear correlation with sequence variation, but could be related to variation in protein stability. Molecular-dynamics simulations have been carried out on tetrameric molecules derived from the two forms and the prototype Escherichia coli SSB and the individual subunits of both proteins. Together, the X-ray studies and molecular-dynamics simulations yield information on the relatively rigid and flexible regions of the molecule and on the effect of oligomerization on flexibility. The simulations provide insight into the changes in subunit structure on oligomerization. They also provide insight into the stability and time evolution of the hydrogen bonds/water bridges that connect the two pairs of monomers in the tetramer.

Reviews - 3afq mentioned but not cited (1)

  1. Structure-Guided Computational Approaches to Unravel Druggable Proteomic Landscape of Mycobacterium leprae. Vedithi SC, Malhotra S, Acebrón-García-de-Eulate M, Matusevicius M, Torres PHM, Blundell TL. Front Mol Biosci 8 663301 (2021)


Reviews citing this publication (1)

  1. Generation and Repair of Postreplication Gaps in Escherichia coli. Cox MM, Goodman MF, Keck JL, van Oijen A, Lovett ST, Robinson A. Microbiol Mol Biol Rev 87 e0007822 (2023)

Articles citing this publication (7)

  1. Intramolecular binding mode of the C-terminus of Escherichia coli single-stranded DNA binding protein determined by nuclear magnetic resonance spectroscopy. Shishmarev D, Wang Y, Mason CE, Su XC, Oakley AJ, Graham B, Huber T, Dixon NE, Otting G. Nucleic Acids Res 42 2750-2757 (2014)
  2. Plasmodium falciparum SSB tetramer wraps single-stranded DNA with similar topology but opposite polarity to E. coli SSB. Antony E, Weiland EA, Korolev S, Lohman TM. J Mol Biol 420 269-283 (2012)
  3. Structural Mechanisms of Cooperative DNA Binding by Bacterial Single-Stranded DNA-Binding Proteins. Dubiel K, Myers AR, Kozlov AG, Yang O, Zhang J, Ha T, Lohman TM, Keck JL. J Mol Biol 431 178-195 (2019)
  4. Development of a single-stranded DNA-binding protein fluorescent fusion toolbox. Dubiel K, Henry C, Spenkelink LM, Kozlov AG, Wood EA, Jergic S, Dixon NE, van Oijen AM, Cox MM, Lohman TM, Sandler SJ, Keck JL. Nucleic Acids Res 48 6053-6067 (2020)
  5. Chimeras of Escherichia coli and Mycobacterium tuberculosis single-stranded DNA binding proteins: characterization and function in Escherichia coli. Bharti SK, Rex K, Sreedhar P, Krishnan N, Varshney U. PLoS One 6 e27216 (2011)
  6. A genetic analysis of the functional interactions within Mycobacterium tuberculosis single-stranded DNA binding protein. Rex K, Bharti SK, Sah S, Varshney U. PLoS One 9 e94669 (2014)
  7. Structure of the second Single Stranded DNA Binding protein (SSBb) from Mycobacterium smegmatis. Singh A, Varshney U, Vijayan M. J Struct Biol 196 448-454 (2016)


Related citations provided by authors (4)

  1. Structure of Mycobacterium smegmatis single-stranded DNA-binding protein and a comparative study involving homologus SSBs: biological implications of structural plasticity and variability in quaternary association.. Saikrishnan K, Manjunath GP, Singh P, Jeyakanthan J, Dauter Z, Sekar K, Muniyappa K, Vijayan M Acta Crystallogr D Biol Crystallogr 61 1140-8 (2005)
  2. Structure of Mycobacterium tuberculosis single-stranded DNA-binding protein. Variability in quaternary structure and its implications.. Saikrishnan K, Jeyakanthan J, Venkatesh J, Acharya N, Sekar K, Varshney U, Vijayan M J Mol Biol 331 385-93 (2003)
  3. Crystal structure of human mitochondrial single-stranded DNA binding protein at 2.4 A resolution.. Yang C, Curth U, Urbanke C, Kang C Nat Struct Biol 4 153-7 (1997)
  4. Crystal structure of the homo-tetrameric DNA binding domain of Escherichia coli single-stranded DNA-binding protein determined by multiwavelength x-ray diffraction on the selenomethionyl protein at 2.9-A resolution.. Raghunathan S, Ricard CS, Lohman TM, Waksman G Proc Natl Acad Sci U S A 94 6652-7 (1997)

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