Experiment: 3RY3

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	289	2.8 M sodium acetate trihydrate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Properties
Matthews coefficient	Solvent content
3.69	66.69

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 157.036	α = 90
b = 171.322	β = 90
c = 128.842	γ = 90

Symmetry
Space Group	C 2 2 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	ADSC QUANTUM 315r		2010-07-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID	0.9792	APS	19-ID

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	2.43	43.1	100	0.121	8.3	7.3	64629	64629			56.2

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	2.43	2.51	99.9		0.804	2.32	6.8	3185

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	SAD	THROUGHOUT	2.43	43.1	64459	64459	3265	97.88	0.1745	0.1745	0.1728	0.208	RANDOM	43.9043

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]
-0.33			-2.01		2.35

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_2_deg	39.568
f_dihedral_angle_4_deg	21.944
f_dihedral_angle_3_deg	17.145
f_dihedral_angle_1_deg	6.208
f_scangle_it	4.734
f_scbond_it	2.925
f_mcangle_it	1.929
f_angle_refined_deg	1.634
f_mcbond_it	0.983
f_angle_other_deg	0.93

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_2_deg	39.568
f_dihedral_angle_4_deg	21.944
f_dihedral_angle_3_deg	17.145
f_dihedral_angle_1_deg	6.208
f_scangle_it	4.734
f_scbond_it	2.925
f_mcangle_it	1.929
f_angle_refined_deg	1.634
f_mcbond_it	0.983
f_angle_other_deg	0.93
f_mcbond_other	0.179
f_chiral_restr	0.095
f_bond_refined_d	0.02
f_gen_planes_refined	0.008
f_bond_other_d	0.001
f_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7617
Nucleic Acid Atoms
Solvent Atoms	200
Heterogen Atoms	8

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
SHELXD	phasing
MLPHARE	phasing
DM	phasing
SOLVE	phasing
RESOLVE	phasing
HKL-3000	phasing
PHENIX	refinement

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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.