1kuk: Difference between revisions
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|PDB= 1kuk |SIZE=350|CAPTION= <scene name='initialview01'>1kuk</scene>, resolution 1.45Å | |PDB= 1kuk |SIZE=350|CAPTION= <scene name='initialview01'>1kuk</scene>, resolution 1.45Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand=CD:CADMIUM ION'>CD</scene> | |LIGAND= <scene name='pdbligand=CD:CADMIUM+ION'>CD</scene> | ||
|ACTIVITY= [http://en.wikipedia.org/wiki/Atrolysin_E Atrolysin E], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.44 3.4.24.44] | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Atrolysin_E Atrolysin E], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.24.44 3.4.24.44] </span> | ||
|GENE= | |GENE= | ||
|DOMAIN= | |||
|RELATEDENTRY=[[1kuf|1KUF]], [[1kug|1KUG]], [[1kui|1KUI]] | |||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kuk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kuk OCA], [http://www.ebi.ac.uk/pdbsum/1kuk PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1kuk RCSB]</span> | |||
}} | }} | ||
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[[Category: Ko, T P.]] | [[Category: Ko, T P.]] | ||
[[Category: Wang, A H.J.]] | [[Category: Wang, A H.J.]] | ||
[[Category: alpha/beta protein]] | [[Category: alpha/beta protein]] | ||
[[Category: retro-binding manner]] | [[Category: retro-binding manner]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:53:47 2008'' | ||
Revision as of 21:53, 30 March 2008
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| , resolution 1.45Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Activity: | Atrolysin E, with EC number 3.4.24.44 | ||||||
| Related: | 1KUF, 1KUG, 1KUI
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| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of a Taiwan Habu Venom Metalloproteinase complexed with pEKW.
OverviewOverview
Venoms from crotalid and viperid snakes contain several peptide inhibitors which regulate the proteolytic activities of their snake-venom metalloproteinases (SVMPs) in a reversible manner under physiological conditions. In this report, we describe the high-resolution crystal structures of a SVMP, TM-3, from Taiwan habu (Trimeresurus mucrosquamatus) cocrystallized with the endogenous inhibitors pyroGlu-Asn-Trp (pENW), pyroGlu-Gln-Trp (pEQW) or pyroGlu-Lys-Trp (pEKW). The binding of inhibitors causes some of the residues around the inhibitor-binding environment of TM-3 to slightly move away from the active-site center, and displaces two metal-coordinated water molecules by the C-terminal carboxylic group of the inhibitors. This binding adopts a retro-manner principally stabilized by four possible hydrogen bonds. The Trp indole ring of the inhibitors is stacked against the imidazole of His143 in the S-1 site of the proteinase. Results from the study of synthetic inhibitor analogues showed the primary specificity of Trp residue of the inhibitors at the P-1 site, corroborating the stacking effect observed in our structures. Furthermore, we have made a detailed comparison of our structures with the binding modes of other inhibitors including batimastat, a hydroxamate inhibitor, and a barbiturate derivative. It suggests a close correlation between the inhibitory activity of an inhibitor and its ability to fill the S-1 pocket of the proteinase. Our work may provide insights into the rational design of small molecules that bind to this class of zinc-metalloproteinases.
About this StructureAbout this Structure
1KUK is a Single protein structure of sequence from Protobothrops mucrosquamatus. Full crystallographic information is available from OCA.
ReferenceReference
Determinants of the inhibition of a Taiwan habu venom metalloproteinase by its endogenous inhibitors revealed by X-ray crystallography and synthetic inhibitor analogues., Huang KF, Chiou SH, Ko TP, Wang AH, Eur J Biochem. 2002 Jun;269(12):3047-56. PMID:12071970
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