5Y2H

Crystal structure of the oligomerization domain of NSP4 from the rotavirus strain MF66

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	3.5	299	0.1M Citric acid, pH 3.5, 3.0M NaCl

Crystal Properties
Matthews coefficient	Solvent content
2.8	56.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 87.44	α = 90
b = 87.44	β = 90
c = 60.6	γ = 120

Symmetry
Space Group	P 32 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	IMAGE PLATE	MAR scanner 345 mm plate		2008-08-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU MICROMAX-007 HF	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	2.6	75.73	99.8	0.15	0.073	0.993	8.9	5.9		8464

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2.6	75.73	8459	430	99.55	0.2362	0.2348	0.2627	RANDOM	51.4056

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
1.28	0.64		1.28		-4.15

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.715
r_dihedral_angle_4_deg	27.882
r_dihedral_angle_3_deg	21.715
r_mcangle_it	9.189
r_mcbond_it	6.945
r_mcbond_other	6.924
r_dihedral_angle_1_deg	4.371
r_angle_other_deg	3.449
r_angle_refined_deg	1.229
r_chiral_restr	0.068

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.715
r_dihedral_angle_4_deg	27.882
r_dihedral_angle_3_deg	21.715
r_mcangle_it	9.189
r_mcbond_it	6.945
r_mcbond_other	6.924
r_dihedral_angle_1_deg	4.371
r_angle_other_deg	3.449
r_angle_refined_deg	1.229
r_chiral_restr	0.068
r_bond_refined_d	0.012
r_gen_planes_other	0.011
r_gen_planes_refined	0.005
r_bond_other_d

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1462
Nucleic Acid Atoms
Solvent Atoms	24
Heterogen Atoms

Software

Software
Software Name	Purpose
PHENIX	refinement
iMOSFLM	data processing
Aimless	data reduction
Aimless	data scaling
PHASER	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.