Experiment: 3PV4

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.5	292	23.5% (v/v) PEG 400, 100 mM CdCl2, 100 mM acetate pH 4.5, vapor diffusion, hanging drop, temperature 292K

Crystal Properties
Matthews coefficient	Solvent content
2.14	42.61

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 110.89	α = 90
b = 110.89	β = 90
c = 67.933	γ = 120

Symmetry
Space Group	H 3

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 MX-225		2010-03-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.1	0.91841	BESSY	14.1

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	3.1	55.46	99.8	0.135	4.3	2.6	5626	5626

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.1	3.27	99.8		0.401	0.401	1.8	2.6	824

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 3PV2	3.1	55.46	5367	258	99.7	0.24584	0.24187	0.32997	RANDOM	95.7645

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]
-3.31	-1.66		-3.31		4.97

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.913
r_dihedral_angle_3_deg	22.434
r_dihedral_angle_4_deg	19.217
r_dihedral_angle_1_deg	7.281
r_scangle_it	1.507
r_angle_refined_deg	1.377
r_mcangle_it	0.985
r_angle_other_deg	0.898
r_scbond_it	0.839
r_mcbond_it	0.536

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.913
r_dihedral_angle_3_deg	22.434
r_dihedral_angle_4_deg	19.217
r_dihedral_angle_1_deg	7.281
r_scangle_it	1.507
r_angle_refined_deg	1.377
r_mcangle_it	0.985
r_angle_other_deg	0.898
r_scbond_it	0.839
r_mcbond_it	0.536
r_chiral_restr	0.066
r_mcbond_other	0.049
r_bond_refined_d	0.012
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2081
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	1

Software

Software
Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
PHASER	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.