8BR7 | pdb_00008br7

Discovery of IRAK4 Inhibitors BAY1834845 and BAY1830839

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	0.1M sodium acetate buffer at pH 4.9, 1.5-1.7M ammonium citrate and 0.02M hexaaminecobalt(III)chloride

Crystal Properties
Matthews coefficient	Solvent content
2.7	54.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 87.258	α = 90
b = 117.97	β = 90
c = 139.861	γ = 90

Symmetry
Space Group	I 2 2 2

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		2021-10-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)	0.9763	PETRA III, EMBL c/o DESY	P14 (MX2)

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim 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	2.119	19.77	86.2	0.115	0.999	16.69	6.49		35635

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	2.12	2.25			0.701	1.66

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	in house model	2.119	19.768	35633	1782	86.176	0.241	0.2387	0.25	0.2879	0.29	60.235

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]
-1.059			4.994		-3.935

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.303
r_dihedral_angle_4_deg	19.593
r_dihedral_angle_3_deg	14.972
r_lrange_other	14.255
r_lrange_it	14.24
r_scangle_it	11.666
r_scangle_other	11.639
r_mcangle_it	9.914
r_mcangle_other	9.913
r_scbond_it	8.016
r_scbond_other	7.999
r_mcbond_it	7.269
r_mcbond_other	7.267
r_dihedral_angle_1_deg	5.993
r_angle_refined_deg	1.239
r_angle_other_deg	1.11
r_symmetry_xyhbond_nbd_refined	0.26
r_symmetry_nbd_refined	0.239
r_nbd_other	0.221
r_nbd_refined	0.185
r_symmetry_nbd_other	0.177
r_nbtor_refined	0.156
r_xyhbond_nbd_refined	0.134
r_xyhbond_nbd_other	0.105
r_symmetry_nbtor_other	0.074
r_chiral_restr	0.044
r_symmetry_xyhbond_nbd_other	0.025
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4344
Nucleic Acid Atoms
Solvent Atoms	41
Heterogen Atoms	76

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing