8FHU

Structure of Pyruvate dehydrogenase phosphatase regulatory subunit epitope presented by H2-Dd

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		298.15	0.2M Potassium thiocyanate and 20% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.8	56.1

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 56.415	α = 90
b = 104.564	β = 90
c = 169.993	γ = 90

Symmetry
Space Group	P 21 21 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	PIXEL	DECTRIS EIGER X 16M		2022-02-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 24-ID-C	0.979180	APS	24-ID-C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.801	50	99	0.177	0.185	0.052	0.998	13.2	13.2		81134

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	1.89	1.93	82.6		0.261		11.7

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.801	49.819	69254	3480	73.729	0.21	0.2081	0.2488	30.284

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]
-0.64			0.722		-0.082

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	17.76
r_dihedral_angle_3_deg	16.878
r_dihedral_angle_2_deg	15.746
r_lrange_it	7.833
r_dihedral_angle_1_deg	7.362
r_scangle_it	6.154
r_scbond_it	4.175
r_mcangle_it	3.453
r_mcbond_it	2.444
r_angle_refined_deg	2.237
r_nbtor_refined	0.303
r_xyhbond_nbd_refined	0.232
r_nbd_refined	0.214
r_symmetry_nbd_refined	0.176
r_ncsr_local_group_1	0.14
r_metal_ion_refined	0.138
r_chiral_restr	0.133
r_ncsr_local_group_2	0.131
r_symmetry_xyhbond_nbd_refined	0.125
r_gen_planes_refined	0.015
r_bond_refined_d	0.012

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6141
Nucleic Acid Atoms
Solvent Atoms	184
Heterogen Atoms	2

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
BUCCANEER	model building
PHASER	phasing