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===Catalytic Loop===
===Catalytic Loop===
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[[Image:Openvsclosed..png|400 px|left|thumb|Figure 4: Open (Blue) vs. Closed (Red) conformation of the active site loop of ICL]]
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[[Image:Openvsclosed..png|400 px|left|thumb|Figure 4: Open (Blue) vs. Closed (Red) conformation of the active site loop of ICL. Glyoxylate is shown in yellow and succinate in purple. Hydrogen bond is shown between LYS189 and the catalytic loop.]]
The <scene name='69/697526/Catalytic_loop/1'>Catalytic Loop</scene> of the Isocitrate Lyase enzyme is composed of residues 185-196, and can exist in both the open and closed conformation. In the open conformation, the catalytic loop is oriented such that the catalytic CYS191 residue is located far from the active site, allowing for solvent accessibility and substrate binding.<ref name="solvent">Connely, M. L. Solvent-accessible surfaces of proteins and nucleic acids "Science" 221:709-713 (1983). DOI: 10.1126/science.6879170</ref> Upon substrate binding, the catalytic loop adopts a closed conformation, moving between ten and fifteen angstroms<ref name="ICL">PMID:10932251</ref>. This closed conformation will cause the binding site to become inaccessible to the solvent. The loop closure is triggered by the movement of the Mg ion that occurs upon binding of the succinate. This movement of the Mg ion results in electrostatic interactions at LYS189, causing the loop to close.
The <scene name='69/697526/Catalytic_loop/1'>Catalytic Loop</scene> of the Isocitrate Lyase enzyme is composed of residues 185-196, and can exist in both the open and closed conformation. In the open conformation, the catalytic loop is oriented such that the catalytic CYS191 residue is located far from the active site, allowing for solvent accessibility and substrate binding.<ref name="solvent">Connely, M. L. Solvent-accessible surfaces of proteins and nucleic acids "Science" 221:709-713 (1983). DOI: 10.1126/science.6879170</ref> Upon substrate binding, the catalytic loop adopts a closed conformation, moving between ten and fifteen angstroms<ref name="ICL">PMID:10932251</ref>. This closed conformation will cause the binding site to become inaccessible to the solvent. The loop closure is triggered by the movement of the Mg ion that occurs upon binding of the succinate. This movement of the Mg ion results in electrostatic interactions at LYS189, causing the loop to close.

Revision as of 17:24, 17 April 2015

Isocitrate Lyase from Mycobacterium Tuberculosis

PDB ID 1F8I

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3D Structures of Isocitrate Lyase

Updated on 17-April-2015

  • From Mycobacterium Tuberculosis
    • 1f61 ICL apoenzyme
    • 1f8m 3-bromopyruvate modified ICL
  • ICL from other bacteria
    • 3i4e ICL from B. pesudomallei
    • 3p0x, 3eol, 3oq8, 3e5b ICL from B. melitensis
    • 3lg3 ICL from Y. pestis CO92
    • 1dqu ICL from A. nidulans
    • 1igw ICL from the A216C mutant of E. coli

References

  1. Srivastava V, Jain A, Srivastava BS, Srivastava R. Selection of genes of Mycobacterium tuberculosis upregulated during residence in lungs of infected mice. Tuberculosis (Edinb). 2008 May;88(3):171-7. Epub 2007 Dec 3. PMID:18054522 doi:http://dx.doi.org/10.1016/j.tube.2007.10.002
  2. 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 2.9 Sharma V, Sharma S, Hoener zu Bentrup K, McKinney JD, Russell DG, Jacobs WR Jr, Sacchettini JC. Structure of isocitrate lyase, a persistence factor of Mycobacterium tuberculosis. Nat Struct Biol. 2000 Aug;7(8):663-8. PMID:10932251 doi:10.1038/77964
  3. 3.0 3.1 3.2 Beeching JR. High sequence conservation between isocitrate lyase from Escherichia coli and Ricinus communis. Protein Seq Data Anal. 1989 Dec;2(6):463-6. PMID:2696959
  4. 4.0 4.1 4.2 4.3 Masamune et al. Bio-Claisen condensation catalyzed by thiolase from Zoogloea ramigera. Active site cysteine residues. "Journal of the American Chemical Society" 111: 1879-1881 (1989). DOI: 10.1021/ja00187a053
  5. Connely, M. L. Solvent-accessible surfaces of proteins and nucleic acids "Science" 221:709-713 (1983). DOI: 10.1126/science.6879170
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