6M9B image
Deposition Date 2018-08-23
Release Date 2019-04-17
Last Version Date 2024-03-13
Entry Detail
PDB ID:
6M9B
Title:
Wild-type streptavidin in complex with biotin solved by native SAD with data collected at 6 keV
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.55 Å
R-Value Free:
0.18
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Streptavidin
Chain IDs:A, B, C, D
Chain Length:127
Number of Molecules:4
Biological Source:Streptomyces avidinii
Ligand Molecules
Primary Citation
Making routine native SAD a reality: lessons from beamline X06DA at the Swiss Light Source.
Acta Crystallogr D Struct Biol 75 262 271 (2019)
PMID: 30950397 DOI: 10.1107/S2059798319003103

Abstact

Native single-wavelength anomalous dispersion (SAD) is the most attractive de novo phasing method in macromolecular crystallography, as it directly utilizes intrinsic anomalous scattering from native crystals. However, the success of such an experiment depends on accurate measurements of the reflection intensities and therefore on careful data-collection protocols. Here, the low-dose, multiple-orientation data-collection protocol for native SAD phasing developed at beamline X06DA (PXIII) at the Swiss Light Source is reviewed, and its usage over the last four years on conventional crystals (>50 µm) is reported. Being experimentally very simple and fast, this method has gained popularity and has delivered 45 de novo structures to date (13 of which have been published). Native SAD is currently the primary choice for experimental phasing among X06DA users. The method can address challenging cases: here, native SAD phasing performed on a streptavidin-biotin crystal with P21 symmetry and a low Bijvoet ratio of 0.6% is highlighted. The use of intrinsic anomalous signals as sequence markers for model building and the assignment of ions is also briefly described.

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Primary Citation of related structures
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