8QKT

Structure of a nucleosome composed of a palindromic 167-base pair blunt-ended DNA fragment

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		291	MnCl2-containing buffers

Crystal Properties
Matthews coefficient	Solvent content
2.76	55.47

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 108.437	α = 90
b = 103.722	β = 93.59
c = 185.405	γ = 90

Symmetry
Space Group	P 1 21 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	PIXEL	DECTRIS PILATUS 2M-F		2014-10-10	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	0.9	SLS	X06DA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	3.26	48.66	96	0.997	8.9	3.2		61655

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.26	3.44			0.541

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	3.261	48.655	57291	2865	89.061	0.272	0.2692	0.321	88.517

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]
-2.504		-0.466	-1.818		4.346

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.49
r_dihedral_angle_3_deg	16.373
r_dihedral_angle_4_deg	15.954
r_lrange_it	7.703
r_lrange_other	7.703
r_dihedral_angle_1_deg	5.064
r_scangle_it	4.717
r_scangle_other	4.716
r_mcangle_it	4.115
r_mcangle_other	4.115
r_scbond_it	2.758
r_scbond_other	2.758
r_mcbond_it	2.351
r_mcbond_other	2.351
r_angle_other_deg	2.296
r_angle_refined_deg	1.232
r_symmetry_nbd_refined	0.264
r_nbd_other	0.249
r_symmetry_nbd_other	0.222
r_nbtor_refined	0.211
r_nbd_refined	0.178
r_symmetry_xyhbond_nbd_refined	0.165
r_xyhbond_nbd_refined	0.128
r_chiral_restr	0.093
r_symmetry_nbtor_other	0.075
r_symmetry_xyhbond_nbd_other	0.045
r_bond_other_d	0.027
r_bond_refined_d	0.009
r_gen_planes_refined	0.003
r_gen_planes_other	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	11980
Nucleic Acid Atoms	13682
Solvent Atoms
Heterogen Atoms	33

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
MOLREP	phasing