9GQL | pdb_00009gql

Human MTH1 in complex with stanozolol

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3ZR0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	22 % PEG6000, 0.1 M sodium acetate pH 4.0, 0.2 M LiSO4

Crystal Properties
Matthews coefficient	Solvent content
2.03	39.38

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 36.526	α = 90
b = 59.71	β = 90
c = 66.875	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	CCD	MARMOSAIC 225 mm CCD		2014-03-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.987	BESSY	14.1

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	1.4	44.54	99.5	1	18.9	7.1		29373

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	1.4	1.42			0.666

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.401	44.54	29330	1512	99.555	0.15	0.1476	0.1533	0.1922	0.194	18.893

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]
0.039			0.141		-0.179

RMS Deviations
Key	Refinement Restraint Deviation
r_lrange_it	19.326
r_lrange_other	19.242
r_dihedral_angle_6_deg	14.228
r_dihedral_angle_3_deg	11.869
r_scangle_it	11.171
r_scangle_other	10.85
r_scbond_it	7.699
r_dihedral_angle_1_deg	7.613
r_scbond_other	7.472
r_dihedral_angle_2_deg	7.195
r_mcangle_it	7.192
r_mcangle_other	7.191
r_mcbond_it	5.011
r_mcbond_other	4.996
r_rigid_bond_restr	4.405
r_angle_refined_deg	2.067
r_angle_other_deg	0.739
r_chiral_restr_other	0.739
r_nbd_refined	0.266
r_xyhbond_nbd_refined	0.255
r_symmetry_xyhbond_nbd_refined	0.247
r_symmetry_nbd_refined	0.24
r_symmetry_nbd_other	0.218
r_nbd_other	0.203
r_nbtor_refined	0.19
r_chiral_restr	0.102
r_symmetry_nbtor_other	0.092
r_bond_refined_d	0.013
r_gen_planes_refined	0.01
r_bond_other_d	0.003
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1254
Nucleic Acid Atoms
Solvent Atoms	103
Heterogen Atoms	35

Software

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