1dhp Citations

The crystal structure of dihydrodipicolinate synthase from Escherichia coli at 2.5 A resolution.

J. Mol. Biol. 246 227-39 (1995)
Cited: 68 times
EuropePMC logo PMID: 7853400

Abstract

The crystal structure of dihydrodipicolinate synthase from E. coli was determined by multiple isomorphous replacement methods. The structure was refined at a resolution of 2.5 A and the final R-factor is 19.6% for 32,190 reflections between 10.0 A and 2.5 A and F > 2 sigma (F). The crystallographic asymmetric unit contains two monomers related by approximate 2-fold symmetry. A tetramer with approximate 222 symmetry is built up by crystallographic symmetry. The tetramer is almost planar with no contacts between the subunits related by the non-crystallographic dyad. The active sites are accessible from a wide water-filled channel in the center of the tetramer. The dihydrodipicolinate synthase monomer is composed of two domains. Each polypeptide chain is folded into an 8-fold alpha/beta barrel and a C-terminal alpha-helical domain comprising residues 224 to 292. The fold is similar to that of N-acetylneuraminate lyase. The active site lysine 161 is located in the alpha/beta barrel and has access via two entrances from the C-terminal side of the barrel.

Articles - 1dhp mentioned but not cited (3)

  1. Generic algorithm to predict the speed of translational elongation: implications for protein biogenesis. Zhang G, Ignatova Z. PLoS ONE 4 e5036 (2009)
  2. Crystallization, preliminary X-ray diffraction and structure solution of MosA, a dihydrodipicolinate synthase from Sinorhizobium meliloti L5-30. Leduc YA, Phenix CP, Puttick J, Nienaber K, Palmer DR, Delbaere LT. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 62 49-51 (2006)
  3. Characterization of a novel N-acetylneuraminic acid lyase favoring N-acetylneuraminic acid synthesis. Ji W, Sun W, Feng J, Song T, Zhang D, Ouyang P, Gu Z, Xie J. Sci Rep 5 9341 (2015)


Reviews citing this publication (5)

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  5. Circular permutations of natural protein sequences: structural evidence. Lindqvist Y, Schneider G. Curr. Opin. Struct. Biol. 7 422-427 (1997)

Articles citing this publication (60)

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  11. Crystal structure of dihydrodipicolinate synthase (BA3935) from Bacillus anthracis at 1.94 A resolution. Blagova E, Levdikov V, Milioti N, Fogg MJ, Kalliomaa AK, Brannigan JA, Wilson KS, Wilkinson AJ. Proteins 62 297-301 (2006)
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  21. Characterization and crystal structure of lysine insensitive Corynebacterium glutamicum dihydrodipicolinate synthase (cDHDPS) protein. Rice EA, Bannon GA, Glenn KC, Jeong SS, Sturman EJ, Rydel TJ. Arch. Biochem. Biophys. 480 111-121 (2008)
  22. Biosynthesis of tetrahydrofolate in plants: crystal structure of 7,8-dihydroneopterin aldolase from Arabidopsis thaliana reveals a novel adolase class. Bauer S, Schott AK, Illarionova V, Bacher A, Huber R, Fischer M. J. Mol. Biol. 339 967-979 (2004)
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  25. Cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of DapA (Rv2753c) from Mycobacterium tuberculosis. Kefala G, Weiss MS. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 62 1116-1119 (2006)
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  44. Structural, kinetic and computational investigation of Vitis vinifera DHDPS reveals new insight into the mechanism of lysine-mediated allosteric inhibition. Atkinson SC, Dogovski C, Downton MT, Czabotar PE, Dobson RC, Gerrard JA, Wagner J, Perugini MA. Plant Mol. Biol. 81 431-446 (2013)
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  51. Crystal structure of YagE, a putative DHDPS-like protein from Escherichia coli K12. Manicka S, Peleg Y, Unger T, Albeck S, Dym O, Greenblatt HM, Bourenkov G, Lamzin V, Krishnaswamy S, Sussman JL. Proteins 71 2102-2108 (2008)
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  54. Crystal structure and in silico studies of dihydrodipicolinate synthase (DHDPS) from Aquifex aeolicus. Sridharan U, Ebihara A, Kuramitsu S, Yokoyama S, Kumarevel T, Ponnuraj K. Extremophiles 18 973-985 (2014)
  55. Cloning, expression, purification, crystallization and X-ray diffraction analysis of dihydrodipicolinate synthase from the human pathogenic bacterium Bartonella henselae strain Houston-1 at 2.1 Å resolution. Naqvi KF, Staker BL, Dobson RC, Serbzhinskiy D, Sankaran B, Myler PJ, Hudson AO. Acta Crystallogr F Struct Biol Commun 72 2-9 (2016)
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  58. Structure and Function of Cyanobacterial DHDPS and DHDPR. Christensen JB, Soares da Costa TP, Faou P, Pearce FG, Panjikar S, Perugini MA. Sci Rep 6 37111 (2016)
  59. Letter Structure and inhibition of N-acetylneuraminate lyase from methicillin-resistant Staphylococcus aureus. North RA, Watson AJ, Pearce FG, Muscroft-Taylor AC, Friemann R, Fairbanks AJ, Dobson RC. FEBS Lett. 590 4414-4428 (2016)
  60. A Metagenomic Analysis of Bacterial Microbiota in the Digestive Tract of Triatomines. Carels N, Gumiel M, da Mota FF, de Carvalho Moreira CJ, Azambuja P. Bioinform Biol Insights 11 1177932217733422 (2017)


Related citations provided by authors (1)

  1. Escherichia Coli Dihydrodipicolinate Synthase. Identification of the Active Site and Crystallization. Laber B, Gomis-Ruth FX, Romao MJ, Huber R Biochem. J. 288 691- (1992)