7C24

Glycosidase F290Y at pH8.0

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	293	0.2 M Ammonium citrate (pH 8.0), 8% PEG monomethyl ether 2000

Crystal Properties
Matthews coefficient	Solvent content
2.8	56.06

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 104.806	α = 90
b = 104.806	β = 90
c = 89.819	γ = 90

Symmetry
Space Group	P 4 21 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 PILATUS3 S 2M		2019-12-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PHOTON FACTORY BEAMLINE AR-NW12A	1.0	Photon Factory	AR-NW12A

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym I (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	1.71	41.59	99.9	0.222	0.226	0.999	0.134	26.1		54864

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.71	1.81	99.7		4.575	4.667	0.529	0.0084	25.5

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	5Z3D	1.71	41.59	54862	2740	99.893	0.165	0.1633	0.1894	27.482

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]
0.489			0.489		-0.978

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.326
r_dihedral_angle_4_deg	20.009
r_dihedral_angle_3_deg	12.412
r_dihedral_angle_1_deg	5.998
r_lrange_it	5.753
r_lrange_other	5.5
r_scangle_it	4.303
r_scangle_other	4.302
r_scbond_other	3.047
r_scbond_it	3.046
r_mcangle_other	2.962
r_mcangle_it	2.955
r_mcbond_it	2.264
r_mcbond_other	2.232
r_angle_refined_deg	1.65
r_angle_other_deg	1.548
r_symmetry_nbd_refined	0.309
r_nbd_other	0.244
r_nbd_refined	0.22
r_xyhbond_nbd_refined	0.193
r_chiral_restr_other	0.186
r_symmetry_nbd_other	0.183
r_nbtor_refined	0.174
r_symmetry_xyhbond_nbd_refined	0.151
r_chiral_restr	0.088
r_symmetry_nbtor_other	0.084
r_bond_refined_d	0.01
r_gen_planes_refined	0.01
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2865
Nucleic Acid Atoms
Solvent Atoms	349
Heterogen Atoms	31

Software

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