3AAF

Structure of WRN RQC domain bound to double-stranded DNA

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	9	293	20% PEG 4000, 0.2M sodium acetate, 0.1M CAPS-NaOH, pH 9, VAPOR DIFFUSION, temperature 293K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 84.077	α = 90
b = 84.077	β = 90
c = 145.291	γ = 90

Symmetry
Space Group	P 43 2 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	90	CCD	Bruker DIP-6040		2007-09-30	M	SINGLE WAVELENGTH
2	2	x-ray	90	CCD	RAYONIX MX225HE		2008-07-19	M	MAD
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL44XU	0.9000	SPring-8	BL44XU
2	SYNCHROTRON	SPRING-8 BEAMLINE BL41XU	1.0057, 1.0090, 1.0257	SPring-8	BL41XU

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	1.9	20	100	0.043	14.7	9.7		41719

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	1.9	1.97	99.9		0.488	6.2	9.5

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	1.9	20	39605	2107	99.88	0.21339	0.21177	0.24354	RANDOM	41.246

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]
1.6			1.6		-3.2

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.188
r_dihedral_angle_3_deg	15.281
r_dihedral_angle_4_deg	12.815
r_dihedral_angle_1_deg	5.44
r_scangle_it	2.308
r_scbond_it	1.491
r_angle_refined_deg	1.409
r_mcangle_it	1.038
r_mcbond_it	0.614
r_nbtor_refined	0.298
r_nbd_refined	0.203
r_symmetry_hbond_refined	0.18
r_xyhbond_nbd_refined	0.155
r_symmetry_vdw_refined	0.153
r_chiral_restr	0.094
r_bond_refined_d	0.009
r_gen_planes_refined	0.005
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1776
Nucleic Acid Atoms	568
Solvent Atoms	338
Heterogen Atoms	8

Software

Software
Software Name	Purpose
HKL-2000	data collection
SHARP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling