7ZUA | pdb_00007zua

Crystal Structure of Ljungan virus 4 2A2 protein I222 crystal form

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7ZTW

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.25	277	0.1M Na acetate pH 5.25 10% PEG 6000

Crystal Properties
Matthews coefficient	Solvent content
2.31	46.73

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 58.513	α = 90
b = 59.562	β = 90
c = 72.827	γ = 90

Symmetry
Space Group	I 2 2 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 2M		2014-06-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	1.00003	SLS	X06DA

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	1.68	46.11	99.6	0.041	0.037	0.999	11.4	3.3		14774

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.68	1.71			0.638	0.467	0.642

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	7ZTW	1.68	46.106	14772	760	99.448	0.212	0.2092	0.22	0.2558	0.27	31.593

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]
0.503			-0.45		-0.053

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.092
r_dihedral_angle_2_deg	15.86
r_dihedral_angle_3_deg	11.95
r_lrange_other	9.731
r_lrange_it	9.713
r_scangle_it	9.188
r_scangle_other	9.181
r_dihedral_angle_1_deg	7.159
r_scbond_it	6.887
r_scbond_other	6.88
r_mcangle_other	6.855
r_mcangle_it	6.781
r_mcbond_it	5.407
r_mcbond_other	5.367
r_angle_refined_deg	1.384
r_angle_other_deg	0.483
r_nbd_refined	0.222
r_symmetry_nbd_other	0.193
r_nbtor_refined	0.183
r_symmetry_xyhbond_nbd_refined	0.177
r_nbd_other	0.161
r_xyhbond_nbd_refined	0.138
r_symmetry_nbd_refined	0.118
r_symmetry_nbtor_other	0.081
r_chiral_restr	0.064
r_chiral_restr_other	0.046
r_bond_refined_d	0.007
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	927
Nucleic Acid Atoms
Solvent Atoms	44
Heterogen Atoms	4

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing