8ADK

Poly(ADP-ribose) glycohydrolase (PARG) from Drosophila melanogaster

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.2	277.15	19% (v/v) PEG3350, 210 mM Na2SO4, 100 mM BisTris propane pH 7.2

Crystal Properties
Matthews coefficient	Solvent content
3.48	64.65

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 93.433	α = 90
b = 115.622	β = 112.214
c = 122.913	γ = 90

Symmetry
Space Group	P 1 21 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	PIXEL	DECTRIS PILATUS3 6M		2018-06-29	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I24	0.97958	Diamond	I24

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	2.458	59.025	100	0.11	0.046	0.996	9.7	6.7		88137

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	2.46	2.52	100		1.618	0.673	0.579	1.2	6.7

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	6hmk	2.474	59.025	85715	4166	99.239	0.18	0.1771	0.2277	66.609

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]
-1.529		-1.236	3.181		-0.482

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	24.115
r_dihedral_angle_3_deg	19.051
r_dihedral_angle_6_deg	16.647
r_lrange_other	11.867
r_lrange_it	11.864
r_scangle_it	10.288
r_scangle_other	10.062
r_mcangle_other	9.476
r_mcangle_it	9.474
r_scbond_it	8.26
r_dihedral_angle_1_deg	7.813
r_scbond_other	7.565
r_mcbond_it	7.052
r_mcbond_other	7.047
r_angle_refined_deg	1.895
r_angle_other_deg	0.653
r_symmetry_nbd_refined	0.257
r_nbd_refined	0.213
r_symmetry_nbd_other	0.202
r_nbd_other	0.192
r_symmetry_xyhbond_nbd_refined	0.181
r_nbtor_refined	0.178
r_xyhbond_nbd_refined	0.15
r_chiral_restr	0.084
r_symmetry_nbtor_other	0.084
r_ncsr_local_group_3	0.074
r_ncsr_local_group_1	0.073
r_ncsr_local_group_2	0.066
r_bond_refined_d	0.012
r_bond_other_d	0.012
r_gen_planes_refined	0.009
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	12552
Nucleic Acid Atoms
Solvent Atoms	277
Heterogen Atoms	70

Software

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