8EHO | pdb_00008eho

PRRSV-1 PLP2 domain bound to ubiquitin

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	20% PEG 3350, 0.2M Mg(NO3)2

Crystal Properties
Matthews coefficient	Solvent content
3.38	63.59

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 91.686	α = 90
b = 159.492	β = 90
c = 147.325	γ = 90

Symmetry
Space Group	C 2 2 21

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	RIGAKU RAXIS IV++		2017-09-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU MICROMAX-007 HF	1.5406

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.85	45.84	97.1	0.987	7.9	4.7		24728

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.85	9.01			0.685

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1ubq	2.85	43.94	23538	1156	96.45	0.21408	0.21247	0.22	0.24658	0.26	RANDOM	44.2

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]
-2.57			2.14		0.42

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.674
r_dihedral_angle_4_deg	16.624
r_dihedral_angle_3_deg	14.202
r_dihedral_angle_1_deg	5.937
r_long_range_B_refined	4.217
r_long_range_B_other	4.205
r_mcangle_it	1.756
r_mcangle_other	1.756
r_scangle_other	1.417
r_angle_refined_deg	1.18
r_mcbond_other	0.973
r_mcbond_it	0.972
r_angle_other_deg	0.954
r_scbond_it	0.772
r_scbond_other	0.772
r_chiral_restr	0.061
r_bond_refined_d	0.006
r_gen_planes_refined	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5577
Nucleic Acid Atoms
Solvent Atoms	172
Heterogen Atoms	61

Software

Software
Software Name	Purpose
PDB-REDO	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing