7YEN

Crystal structure of the Keap1 Kelch domain in complex with Caffeic acid

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		298	Ammonium sulfate, Lithium sulfate, Sodium citrate, pH 5.5

Crystal Properties
Matthews coefficient	Solvent content
2.6	52.74

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 103.08	α = 90
b = 103.08	β = 90
c = 54.761	γ = 120

Symmetry
Space Group	P 61

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	RIGAKU HyPix-6000HE		2021-12-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-X	2.0

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	2.8	23.328	99.772	0.998	45.15	7.8		8306

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	2.8	2.871			0.998

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	AB INITIO PHASING	FREE R-VALUE	2.8	23.328	8303	366	99.772	0.185	0.1827	0.2369	10.3

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]
-1.226	-0.613		-1.226		3.978

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.649
r_dihedral_angle_4_deg	17.565
r_dihedral_angle_3_deg	16.289
r_dihedral_angle_1_deg	8.771
r_lrange_it	4.626
r_lrange_other	4.625
r_scangle_it	1.937
r_scangle_other	1.936
r_mcangle_it	1.645
r_mcangle_other	1.645
r_angle_refined_deg	1.568
r_angle_other_deg	1.233
r_scbond_it	1.184
r_scbond_other	1.184
r_mcbond_it	0.898
r_mcbond_other	0.895
r_symmetry_nbd_refined	0.239
r_nbd_other	0.237
r_symmetry_nbd_other	0.205
r_nbd_refined	0.201
r_xyhbond_nbd_refined	0.167
r_nbtor_refined	0.166
r_symmetry_xyhbond_nbd_refined	0.099
r_symmetry_nbtor_other	0.075
r_symmetry_xyhbond_nbd_other	0.073
r_chiral_restr	0.064
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.005
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2226
Nucleic Acid Atoms
Solvent Atoms	12
Heterogen Atoms	62

Software

Software
Software Name	Purpose
REFMAC	refinement
CrysalisPro	data reduction
Aimless	data scaling
MOLREP	phasing