Experiment: 3POY

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3BOD	PDB ENTRIES 3BOD, 2HOB, 2R16
experimental model	PDB	2HOB	PDB ENTRIES 3BOD, 2HOB, 2R16
experimental model	PDB	2R16	PDB ENTRIES 3BOD, 2HOB, 2R16

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	9	287	12% PEG20000, 100 mM bicine, 1 mM EDTA, 150 mM NaCl , pH 9.0, VAPOR DIFFUSION, temperature 287K

Crystal Properties
Matthews coefficient	Solvent content
3.61	65.97

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 199.74	α = 90
b = 61.24	β = 121.21
c = 155.58	γ = 90

Symmetry
Space Group	C 1 2 1

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 325 mm CCD		2010-03-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL11-1		SSRL	BL11-1

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	3.02	38.564	97.9	0.14	8.7	3.4	32190	31504		-3	63.4

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	3.02	3.13	99.5		0.628	2	3.4	3223

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRIES 3BOD, 2HOB, 2R16	3.02	38.56	29917	1586	98.17	0.21642	0.21356	0.22	0.26913	0.26	RANDOM	40.449

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]
3.09		3.05	1.24		-1.17

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.038
r_dihedral_angle_3_deg	17.235
r_dihedral_angle_4_deg	15.855
r_dihedral_angle_1_deg	7.316
r_angle_other_deg	4.284
r_angle_refined_deg	1.369
r_mcangle_it	1.235
r_mcbond_it	0.881
r_scangle_it	0.671
r_scbond_it	0.46

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.038
r_dihedral_angle_3_deg	17.235
r_dihedral_angle_4_deg	15.855
r_dihedral_angle_1_deg	7.316
r_angle_other_deg	4.284
r_angle_refined_deg	1.369
r_mcangle_it	1.235
r_mcbond_it	0.881
r_scangle_it	0.671
r_scbond_it	0.46
r_chiral_restr	0.081
r_bond_refined_d	0.013
r_gen_planes_refined	0.004
r_gen_planes_other	0.004
r_bond_other_d
r_mcbond_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7791
Nucleic Acid Atoms
Solvent Atoms	33
Heterogen Atoms	50

Software

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

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 R01GM157729.