2AZT

Crystal structure of H176N mutant of human Glycine N-Methyltransferase

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	5.8	289	10% PEG4000, 0.1M Na citrate, 5% glycerol, pH 5.8, VAPOR DIFFUSION, temperature 289K

Crystal Properties
Matthews coefficient	Solvent content
2.79	55.98

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 76.116	α = 90
b = 83.279	β = 90
c = 115.45	γ = 90

Symmetry
Space Group	P 21 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	IMAGE PLATE	MARRESEARCH	mirrors	2002-04-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	ENRAF-NONIUS FR571	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	2.65	20	96.2	0.058	28.6	4.5	21138	21138	-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.65	2.74	93.5		0.379	4.5	4.1	2015

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	pdb entry 1R74	2.7	13	18950	18950	1369	98.9	0.23918	0.23918	0.23599	0.28172	RANDOM	26.855

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]
0.22			0.63		-0.85

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	7.86
r_scangle_it	2.545
r_angle_refined_deg	2.001
r_scbond_it	1.941
r_mcangle_it	1.061
r_mcbond_it	0.592
r_symmetry_vdw_refined	0.244
r_nbd_refined	0.241
r_chiral_restr	0.134
r_xyhbond_nbd_refined	0.128

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	7.86
r_scangle_it	2.545
r_angle_refined_deg	2.001
r_scbond_it	1.941
r_mcangle_it	1.061
r_mcbond_it	0.592
r_symmetry_vdw_refined	0.244
r_nbd_refined	0.241
r_chiral_restr	0.134
r_xyhbond_nbd_refined	0.128
r_symmetry_hbond_refined	0.124
r_bond_refined_d	0.02
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4268
Nucleic Acid Atoms
Solvent Atoms	40
Heterogen Atoms	47

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.