8PC2 | pdb_00008pc2

SelDeg51 in complex with FKBP51FK1 domain and pVHL:EloB:EloC

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	8CCA
experimental model	PDB	6HR2

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	15% PEG3350, 0.2 M tri-sodium citrate, 0.1 M HEPES-NaOH pH 7.5 and 10% glycol

Crystal Properties
Matthews coefficient	Solvent content
3.1	60.34

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 138.646	α = 90
b = 68.425	β = 114.453
c = 159.256	γ = 90

Symmetry
Space Group	I 1 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	PIXEL	DECTRIS PILATUS3 S 6M		2023-01-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.918400	BESSY	14.1

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	2.8	48.74	99.1	0.088	0.113	0.07	0.997	12	4.6		33478

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.8	2.94			0.523	0.668	0.409	0.925		4.7

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2.8	48.739	33477	1674	98.889	0.213	0.2104	0.21	0.2607	0.26	74.69

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]
3.195		6.89	-9.174		-0.204

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	16.272
r_dihedral_angle_6_deg	15.431
r_dihedral_angle_2_deg	10.829
r_lrange_other	8.86
r_lrange_it	8.859
r_dihedral_angle_1_deg	7.862
r_scangle_it	6.976
r_scangle_other	6.975
r_mcangle_it	6.707
r_mcangle_other	6.707
r_scbond_it	4.703
r_scbond_other	4.702
r_mcbond_it	4.515
r_mcbond_other	4.514
r_angle_refined_deg	1.581
r_chiral_restr_other	1.203
r_angle_other_deg	0.793
r_symmetry_xyhbond_nbd_refined	0.275
r_nbd_refined	0.227
r_symmetry_nbd_other	0.2
r_nbd_other	0.19
r_nbtor_refined	0.186
r_xyhbond_nbd_refined	0.169
r_ncsr_local_group_1	0.103
r_ncsr_local_group_4	0.101
r_symmetry_nbd_refined	0.099
r_ncsr_local_group_3	0.096
r_symmetry_nbtor_other	0.084
r_ncsr_local_group_2	0.083
r_chiral_restr	0.059
r_symmetry_xyhbond_nbd_other	0.036
r_bond_refined_d	0.009
r_gen_planes_refined	0.006
r_bond_other_d	0.003
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7018
Nucleic Acid Atoms
Solvent Atoms	14
Heterogen Atoms	192

Software

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