National Institutes of Health/Office of the Director
AG-04812
United States
National Science Foundation (NSF, United States)
MCB-0958111
United States
Citation
Journal: Science / Year: 2018 Title: Atomic structures of low-complexity protein segments reveal kinked β sheets that assemble networks. Authors: Michael P Hughes / Michael R Sawaya / David R Boyer / Lukasz Goldschmidt / Jose A Rodriguez / Duilio Cascio / Lisa Chong / Tamir Gonen / David S Eisenberg / Abstract: Subcellular membraneless assemblies are a reinvigorated area of study in biology, with spirited scientific discussions on the forces between the low-complexity protein domains within these assemblies. ...Subcellular membraneless assemblies are a reinvigorated area of study in biology, with spirited scientific discussions on the forces between the low-complexity protein domains within these assemblies. To illuminate these forces, we determined the atomic structures of five segments from protein low-complexity domains associated with membraneless assemblies. Their common structural feature is the stacking of segments into kinked β sheets that pair into protofilaments. Unlike steric zippers of amyloid fibrils, the kinked sheets interact weakly through polar atoms and aromatic side chains. By computationally threading the human proteome on our kinked structures, we identified hundreds of low-complexity segments potentially capable of forming such interactions. These segments are found in proteins as diverse as RNA binders, nuclear pore proteins, and keratins, which are known to form networks and localize to membraneless assemblies.
Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength
Wavelength: 0.9791 Å / Relative weight: 1
Reflection
Resolution: 1.1→100 Å / Num. obs: 1269 / % possible obs: 78.9 % / Redundancy: 25.7 % / Biso Wilson estimate: 3.1 Å2 / Rmerge(I) obs: 0.13 / Χ2: 1.091 / Net I/σ(I): 8.4 / Num. measured all: 32560
Reflection shell
Resolution (Å)
Redundancy (%)
Rmerge(I) obs
Num. unique obs
Χ2
Diffraction-ID
% possible all
1.1-1.14
4.7
0.248
41
0.948
1
26.8
1.14-1.18
10.7
0.271
62
1.082
1
38.5
1.18-1.24
16.9
0.197
79
1.2
1
54.1
1.24-1.3
22.7
0.201
118
1.264
1
83.7
1.3-1.39
26.6
0.2
154
1.028
1
96.9
1.39-1.49
31.4
0.182
153
1.22
1
99.4
1.49-1.64
28.5
0.161
148
0.951
1
87.6
1.64-1.88
32.8
0.142
143
1.049
1
96
1.88-2.37
28.4
0.113
179
1.097
1
97.8
2.37-100
24.9
0.1
192
1.05
1
99
-
Processing
Software
Name
Version
Classification
SCALEPACK
datascaling
PHENIX
1.9_1692
refinement
PDB_EXTRACT
3.24
dataextraction
DENZO
datareduction
SHELXD
phasing
Refinement
Method to determine structure: AB INITIO PHASING / Resolution: 1.1→20.486 Å / SU ML: 0.03 / Cross valid method: THROUGHOUT / σ(F): 1.56 / Phase error: 6.83
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