Experiment: 5K20

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3IBF

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.5	293	2.1 M Sodium Formate 100 mM Sodium Citrate

Crystal Properties
Matthews coefficient	Solvent content
3.07	59.87

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 88.757	α = 90
b = 88.757	β = 90
c = 185.141	γ = 120

Symmetry
Space Group	P 32 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	ADSC QUANTUM 270		2011-12-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X6A	1.0000	NSLS	X6A

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	2.2	76.98	99.53	0.076	37.4	10.9		43569			66.3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.2	2.24	99.8		1.8	11

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	3IBF	2.2	76.98	39208	4298	99.53	0.1948	0.1912	0.2279	RANDOM	66.342

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]
1.54	0.77		1.54		-4.99

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.853
r_dihedral_angle_4_deg	19.119
r_dihedral_angle_3_deg	15.154
r_dihedral_angle_1_deg	6.238
r_mcangle_it	4.433
r_mcbond_other	3.356
r_mcbond_it	3.346
r_angle_refined_deg	1.769
r_angle_other_deg	1.15
r_chiral_restr	0.101

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.853
r_dihedral_angle_4_deg	19.119
r_dihedral_angle_3_deg	15.154
r_dihedral_angle_1_deg	6.238
r_mcangle_it	4.433
r_mcbond_other	3.356
r_mcbond_it	3.346
r_angle_refined_deg	1.769
r_angle_other_deg	1.15
r_chiral_restr	0.101
r_bond_refined_d	0.017
r_gen_planes_refined	0.009
r_bond_other_d	0.005
r_gen_planes_other	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3734
Nucleic Acid Atoms
Solvent Atoms	92
Heterogen Atoms	9

Software

Software
Software Name	Purpose
HKL-2000	data reduction
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

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.