7VYY

The crystal structure of Non-hydrolyzing UDPGlcNAc 2-epimerase

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	293	0.2 M Potassium/Sodium tartrate, 0.1 M Bis Tris-propane pH 7.5, 20% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.98	58.79

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 112.349	α = 90
b = 106.052	β = 124.87
c = 94.343	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	CCD	RAYONIX MX300HE		2018-07-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSRRC BEAMLINE BL15A1	1	NSRRC	BL15A1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	Rrim I (All)	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	2.44	25.45	85.9	0.055	26.6	3.9		28957

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.44	2.55			0.055

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	NONE	1VGV	2.443	25.449	28957	1510	85.885	0.23	0.2277	0.2722	41.884

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]
0.81		-0.229	-0.053		-0.222

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.045
r_dihedral_angle_4_deg	17.367
r_dihedral_angle_3_deg	17.257
r_lrange_it	6.446
r_lrange_other	6.441
r_dihedral_angle_1_deg	6.168
r_scangle_it	3.623
r_scangle_other	3.623
r_mcangle_it	3.571
r_mcangle_other	3.57
r_mcbond_it	2.153
r_mcbond_other	2.153
r_scbond_it	2.119
r_scbond_other	2.118
r_angle_refined_deg	1.313
r_angle_other_deg	1.141
r_symmetry_xyhbond_nbd_refined	0.218
r_nbd_other	0.217
r_symmetry_nbd_other	0.192
r_xyhbond_nbd_refined	0.189
r_nbd_refined	0.179
r_nbtor_refined	0.14
r_symmetry_nbd_refined	0.132
r_ncsr_local_group_1	0.116
r_metal_ion_refined	0.111
r_symmetry_nbtor_other	0.08
r_xyhbond_nbd_other	0.071
r_symmetry_xyhbond_nbd_other	0.064
r_chiral_restr	0.052
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5418
Nucleic Acid Atoms
Solvent Atoms	158
Heterogen Atoms	2

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing