7ESF

The Crystal Structure of human MTH1 from Biortus

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3Q93

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4	277	0.1 M Citric Acid pH 4.0, 30% PEG 6000

Crystal Properties
Matthews coefficient	Solvent content
1.81	32

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 36.276	α = 90
b = 60.533	β = 90
c = 66.135	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 PILATUS3 6M		2021-02-05	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	1.521200	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	1.55	44.653	99.4	0.076	28.3	11.1		21691

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	1.55	1.58			0.427

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	3Q93	1.55	44.653	21655	1045	99.267	0.19	0.1885	0.215	16.016

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]
0.594			-0.516		-0.078

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.526
r_dihedral_angle_3_deg	13.171
r_dihedral_angle_4_deg	10.806
r_dihedral_angle_1_deg	7.937
r_lrange_it	5.313
r_lrange_other	5.259
r_scangle_it	4.232
r_scangle_other	4.23
r_scbond_it	2.832
r_scbond_other	2.83
r_mcangle_it	2.299
r_mcangle_other	2.298
r_angle_refined_deg	1.867
r_mcbond_it	1.603
r_mcbond_other	1.601
r_angle_other_deg	1.507
r_symmetry_nbd_refined	0.273
r_nbd_other	0.242
r_nbd_refined	0.217
r_symmetry_xyhbond_nbd_refined	0.214
r_symmetry_nbd_other	0.183
r_nbtor_refined	0.18
r_xyhbond_nbd_refined	0.18
r_chiral_restr	0.097
r_symmetry_nbtor_other	0.086
r_bond_refined_d	0.014
r_gen_planes_refined	0.011
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1254
Nucleic Acid Atoms
Solvent Atoms	113
Heterogen Atoms	20

Software

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