NMR data collection and analysis protocol for high-throughput protein structure determination.
A standardized protocol enabling rapid NMR data collection for high-quality protein structure determination is presented that allows one to capitalize on high spectrometer sensitivity: a set of five G-matrix Fourier transform NMR experiments for resonance assignment based on highly resolved 4D and 5D spectral information is acquired in conjunction with a single simultaneous 3D 15N,13C(aliphatic),13C(aromatic)-resolved [1H,1H]-NOESY spectrum providing 1H-1H upper distance limit constraints. The protocol was integrated with methodology for semiautomated data analysis and used to solve eight NMR protein structures of the Northeast Structural Genomics Consortium pipeline. The molecular masses of the hypothetical target proteins ranged from 9 to 20 kDa with an average of approximately 14 kDa. Between 1 and 9 days of instrument time were invested per structure, which is less than approximately 10-25% of the measurement time routinely required to date with conventional approaches. The protocol presented here effectively removes data collection as a bottleneck for high-throughput solution structure determination of proteins up to at least approximately 20 kDa, while concurrently providing spectra that are highly amenable to fast and robust analysis.
Liu
Gaohua
G
Department of Chemistry, University at Buffalo, State University of New York, Buffalo, NY 14260, USA.
Shen
Yang
Y
Atreya
Hanudatta S
HS
Parish
David
D
Shao
Ying
Y
Sukumaran
Dinesh K
DK
Xiao
Rong
R
Yee
Adelinda
A
Lemak
Alexander
A
Bhattacharya
Aneerban
A
Acton
Thomas A
TA
Arrowsmith
Cheryl H
CH
Montelione
Gaetano T
GT
Szyperski
Thomas
T
D003625:Data Collection / Q000379:methods; D005583:Fourier Analysis; D008958:Models, Molecular; D019906:Nuclear Magnetic Resonance, Biomolecular / Q000379:methods*; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*
D011506:Proteins