2DWR

Crystal structure of the human Wa rotavirus VP8* carbohydrate-recognising domain

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		Homology model based on the structure of porcine CRW-8 VP8* that we have solved.

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.6	295	25% PEG 4000, 20% 2-propanol, 0.1M sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Properties
Matthews coefficient	Solvent content
3.07	59.97

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 74.762	α = 90
b = 74.762	β = 90
c = 70.09	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	CCD	MAR CCD 165 mm	mirrors	2004-07-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE BM30A	0.9794	ESRF	BM30A

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.5	64.6					8135

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (All)	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	Homology model based on the structure of porcine CRW-8 VP8* that we have solved.	2.5	64.55	2	8114	7491	355	96.54	0.17973	0.17718	0.23508	RANDOM	31.888

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]
1.36	0.68		1.36		-2.04

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.678
r_dihedral_angle_3_deg	16.865
r_dihedral_angle_4_deg	12.765
r_dihedral_angle_1_deg	6.653
r_scangle_it	1.973
r_scbond_it	1.193
r_angle_refined_deg	1.106
r_mcangle_it	0.949
r_mcbond_it	0.528
r_nbtor_refined	0.307
r_symmetry_vdw_refined	0.206
r_nbd_refined	0.197
r_symmetry_hbond_refined	0.169
r_xyhbond_nbd_refined	0.115
r_chiral_restr	0.082
r_bond_refined_d	0.008
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1300
Nucleic Acid Atoms
Solvent Atoms	93
Heterogen Atoms	20

Software

Software
Software Name	Purpose
REFMAC	refinement
XNEMO	data collection
FIP	data collection
MOSFLM	data reduction
CCP4	data scaling
AMoRE	phasing