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3S70

Crystal structure of active caspase-6 bound with Ac-VEID-CHO solved by As-SAD

Summary for 3S70
Entry DOI10.2210/pdb3s70/pdb
Related PRD IDPRD_000976
DescriptorCaspase-6, aldehyde inhibitor Ac-VEID-CHO, CACODYLATE ION, ... (6 entities in total)
Functional Keywordscaspase-6, hydrolase-hydrolase inhibitor complex, hydrolase/hydrolase inhibitor
Biological sourceHomo sapiens (human)
More
Cellular locationCytoplasm: P55212
Total number of polymer chains4
Total formula weight66257.62
Authors
Su, X.-D.,Liu, X.,Wang, X.-J. (deposition date: 2011-05-26, release date: 2012-04-11, Last modification date: 2024-10-16)
Primary citationLiu, X.,Zhang, H.,Wang, X.-J.,Li, L.-F.,Su, X.-D.
Get phases from arsenic anomalous scattering: de novo SAD phasing of two protein structures crystallized in cacodylate buffer
Plos One, 6:e24227-e24227, 2011
Cited by
PubMed Abstract: The crystal structures of two proteins, a putative pyrazinamidase/nicotinamidase from the dental pathogen Streptococcus mutans (SmPncA) and the human caspase-6 (Casp6), were solved by de novo arsenic single-wavelength anomalous diffraction (As-SAD) phasing method. Arsenic (As), an uncommonly used element in SAD phasing, was covalently introduced into proteins by cacodylic acid, the buffering agent in the crystallization reservoirs. In SmPncA, the only cysteine was bound to dimethylarsinoyl, which is a pentavalent arsenic group (As (V)). This arsenic atom and a protein-bound zinc atom both generated anomalous signals. The predominant contribution, however, was from the As anomalous signals, which were sufficient to phase the SmPncA structure alone. In Casp6, four cysteines were found to bind cacodyl, a trivalent arsenic group (As (III)), in the presence of the reducing agent, dithiothreitol (DTT), and arsenic atoms were the only anomalous scatterers for SAD phasing. Analyses and discussion of these two As-SAD phasing examples and comparison of As with other traditional heavy atoms that generate anomalous signals, together with a few arsenic-based de novo phasing cases reported previously strongly suggest that As is an ideal anomalous scatterer for SAD phasing in protein crystallography.
PubMed: 21912678
DOI: 10.1371/journal.pone.0024227
PDB entries with the same primary citation
Experimental method
X-RAY DIFFRACTION (1.625 Å)
Structure validation

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