8XQK

The Crystal Structure of Apaf from Biortus.

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	1.6M Na/KPO4 pH6.5

Crystal Properties
Matthews coefficient	Solvent content
2.15	42.81

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 31.641	α = 90
b = 75.336	β = 90
c = 161.067	γ = 90

Symmetry
Space Group	P 2 21 21

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 9M		2020-08-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	1.1806	CLSI	08ID-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.85	48.75	100	0.036	29.9	9.5		18178

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.85	1.89			0.843

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	MOLECULAR REPLACEMENT	FREE R-VALUE	2.85	37.696	9582	470	99.584	0.228	0.225	0.2831	41.291

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]
-2.255			5.109		-2.855

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.684
r_dihedral_angle_2_deg	15.465
r_dihedral_angle_6_deg	14.349
r_dihedral_angle_1_deg	5.336
r_angle_refined_deg	0.965
r_angle_other_deg	0.327
r_symmetry_nbd_refined	0.241
r_nbd_refined	0.224
r_symmetry_xyhbond_nbd_refined	0.191
r_symmetry_nbd_other	0.189
r_nbd_other	0.181
r_nbtor_refined	0.176
r_xyhbond_nbd_refined	0.134
r_ncsr_local_group_5	0.13
r_ncsr_local_group_6	0.121
r_ncsr_local_group_2	0.118
r_ncsr_local_group_1	0.115
r_ncsr_local_group_3	0.113
r_ncsr_local_group_4	0.097
r_symmetry_nbtor_other	0.075
r_chiral_restr	0.047
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	3042
Nucleic Acid Atoms
Solvent Atoms	155
Heterogen Atoms	25

Software

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