7OQV

Crystal structure of the polymerising VEL domain of VIN3 (I575D mutant)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION		291	1M potassium phosphate monobasic, 3 % v/v 2 propanol, 0.1M sodium cacodylate pH6.5

Crystal Properties
Matthews coefficient	Solvent content
2	38.48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 31.498	α = 90
b = 91.273	β = 90
c = 98.413	γ = 90

Symmetry
Space Group	P 21 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 EIGER2 X 16M		2020-09-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04	0.97950	Diamond	I04

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	2.4	29.07	100	1	13.3	8.7		11740

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	2.4	2.49			0.91

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	SAD	THROUGHOUT	2.4	29.07	11697	590	99.923	0.226	0.2234	0.2695	56.228

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]
7.125			-4.445		-2.68

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.297
r_dihedral_angle_4_deg	25.54
r_dihedral_angle_3_deg	19.017
r_lrange_it	11.503
r_lrange_other	11.502
r_scangle_it	9.224
r_scangle_other	9.222
r_mcangle_it	6.32
r_mcangle_other	6.318
r_scbond_it	5.883
r_scbond_other	5.88
r_dihedral_angle_1_deg	5.543
r_mcbond_other	4.364
r_mcbond_it	4.363
r_angle_refined_deg	1.532
r_angle_other_deg	1.314
r_symmetry_xyhbond_nbd_refined	0.374
r_symmetry_nbd_refined	0.238
r_nbd_refined	0.216
r_symmetry_nbd_other	0.203
r_xyhbond_nbd_refined	0.19
r_nbd_other	0.177
r_nbtor_refined	0.171
r_symmetry_nbtor_other	0.08
r_symmetry_xyhbond_nbd_other	0.076
r_xyhbond_nbd_other	0.072
r_chiral_restr	0.071
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2319
Nucleic Acid Atoms
Solvent Atoms	38
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
CRANK2	phasing
Coot	model building
PDB_EXTRACT	data extraction