9ETN | pdb_00009etn

Crystal structure of murine CRTAC1

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
in silico model	AlphaFold	AF-Q8R555-F1

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5	293	100 mM sodium-malonate pH 5.0, 12% PEG3350

Crystal Properties
Matthews coefficient	Solvent content
3.2	61.59

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 167.514	α = 90
b = 84.204	β = 102.702
c = 59.718	γ = 90

Symmetry
Space Group	C 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 EIGER2 X 9M		2022-08-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I24	0.6702	Diamond	I24

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	1.582	81.707	86.5	0.086	0.099	0.042	0.998	10.9	4.9		54952

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	1.582	1.786	67.9		0.777	0.885	0.409	0.667		4.1

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	FREE R-VALUE	1.584	81.707	54950	2798	49.996	0.152	0.1501	0.16	0.1946	0.2	24.695

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]
-0.82		-0.569	-1.047		1.927

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	15.703
r_dihedral_angle_6_deg	15.618
r_dihedral_angle_3_deg	12.723
r_dihedral_angle_1_deg	7.602
r_lrange_it	3.729
r_lrange_other	3.474
r_rigid_bond_restr	2.834
r_scangle_it	2.402
r_scangle_other	2.402
r_mcangle_other	2.186
r_mcangle_it	2.185
r_scbond_it	1.641
r_scbond_other	1.64
r_mcbond_it	1.465
r_mcbond_other	1.451
r_angle_refined_deg	1.298
r_angle_other_deg	0.725
r_nbd_refined	0.234
r_symmetry_nbd_other	0.211
r_nbd_other	0.205
r_symmetry_nbd_refined	0.2
r_symmetry_xyhbond_nbd_refined	0.177
r_nbtor_refined	0.172
r_xyhbond_nbd_refined	0.151
r_metal_ion_refined	0.097
r_symmetry_nbtor_other	0.086
r_chiral_restr	0.06
r_dihedral_angle_other_1_deg	0.022
r_gen_planes_other	0.008
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4231
Nucleic Acid Atoms
Solvent Atoms	314
Heterogen Atoms	48

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
STARANISO	data scaling
PHASER	phasing