8IN0

Structure of the Keap1 Kelch domain in complex with PGAM5-derived peptide

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

Crystal Properties
Matthews coefficient	Solvent content
2.19	43.93

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 103.655	α = 90
b = 103.655	β = 90
c = 56.167	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		2022-11-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-X	1.8

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	1.8	24.704	99.91	0.957	14.68	5.8		31965

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	1.8	1.864			0.605

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	1.8	24.704	31240	1536	97.485	0.255	0.2533	0.2847	17.466

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]
0.004	0.002		0.004		-0.014

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.322
r_dihedral_angle_4_deg	17.635
r_dihedral_angle_3_deg	14.244
r_dihedral_angle_1_deg	8.506
r_lrange_it	6.127
r_lrange_other	5.862
r_scangle_it	3.405
r_scangle_other	3.288
r_mcangle_other	2.614
r_mcangle_it	2.613
r_scbond_it	2.187
r_scbond_other	2.099
r_angle_refined_deg	1.669
r_mcbond_it	1.594
r_mcbond_other	1.558
r_angle_other_deg	1.35
r_nbd_refined	0.209
r_symmetry_nbd_other	0.203
r_symmetry_nbd_refined	0.203
r_xyhbond_nbd_refined	0.187
r_nbd_other	0.187
r_nbtor_refined	0.164
r_symmetry_xyhbond_nbd_refined	0.132
r_symmetry_nbtor_other	0.082
r_chiral_restr	0.072
r_symmetry_xyhbond_nbd_other	0.031
r_bond_refined_d	0.009
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2304
Nucleic Acid Atoms
Solvent Atoms	220
Heterogen Atoms	20

Software

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