3C3Y

Crystal Structure of PFOMT, Phenylpropanoid and Flavonoid O-methyltransferase from M. crystallinum

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	298	20% PEG 4000, 0.2M CaCl2, 100mM HEPES/NaOH, pH 7.0, vapor diffusion, sitting drop, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.11	41.78

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 48.89	α = 90
b = 71.83	β = 90
c = 128.12	γ = 90

Symmetry
Space Group	P 21 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	MARRESEARCH		2004-05-20	M	SINGLE WAVELENGTH
2	1	x-ray	100	CCD	MARRESEARCH		2004-05-20	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MPG/DESY, HAMBURG BEAMLINE BW6	1.05	MPG/DESY, HAMBURG	BW6
2	SYNCHROTRON	MPG/DESY, HAMBURG BEAMLINE BW6	0.97905 0.9500	MPG/DESY, HAMBURG	BW6

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.37	20	98.4	0.069	0.069	11.88	4.677	95653	94082		-3	19.18

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)
	1.37	1.45	94.7		0.397	3.9

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.371	19.27	94023	4041	100	0.189	0.187	0.222	RANDOM	18.399

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]
2.31			-0.73		-1.59

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.998
r_dihedral_angle_4_deg	17.254
r_dihedral_angle_3_deg	11.389
r_dihedral_angle_1_deg	5.353
r_sphericity_free	4.543
r_sphericity_bonded	4.513
r_scangle_it	2.363
r_mcangle_it	2.145
r_scbond_it	1.634
r_mcbond_it	1.455

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.998
r_dihedral_angle_4_deg	17.254
r_dihedral_angle_3_deg	11.389
r_dihedral_angle_1_deg	5.353
r_sphericity_free	4.543
r_sphericity_bonded	4.513
r_scangle_it	2.363
r_mcangle_it	2.145
r_scbond_it	1.634
r_mcbond_it	1.455
r_rigid_bond_restr	1.323
r_angle_refined_deg	1.26
r_chiral_restr	0.083
r_bond_refined_d	0.009
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3577
Nucleic Acid Atoms
Solvent Atoms	480
Heterogen Atoms	55

Software

Software
Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection
XDS	data reduction
SHELXD	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.