Experiment: 2I6S

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	hanging drop vapor diffusion	7	293	35% PEG 1000, 0.025 M sodium malonate, 0.0375 M imidazole, 0.0375 M boric acid, 20 mM LiCl, pH 7.0, hanging drop vapor diffusion, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.2	44.18

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 51.16	α = 90
b = 75.08	β = 110.32
c = 71.56	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	CCD	ADSC QUANTUM 4		2004-04-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-2	0.9393	ESRF	ID14-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.7	37.54	98.5	0.085	0.085	7.4	3.6		13881

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.7	2.85	90.4		0.42	0.42	1.8	3.1	1850

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 (All)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB Entries: 1DLE (SP-domain) and 1Q0P (VWA-domain)	2.7	37.5	13867	690	98.53	0.216	0.212	0.287	RANDOM	32.118

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]
3.84		1.34	-0.56		-2.36

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.502
r_dihedral_angle_3_deg	18.684
r_dihedral_angle_4_deg	18.096
r_dihedral_angle_1_deg	6.536
r_scangle_it	1.403
r_scbond_it	0.722
r_angle_refined_deg	0.67
r_mcangle_it	0.463
r_nbtor_refined	0.312
r_mcbond_it	0.249

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.502
r_dihedral_angle_3_deg	18.684
r_dihedral_angle_4_deg	18.096
r_dihedral_angle_1_deg	6.536
r_scangle_it	1.403
r_scbond_it	0.722
r_angle_refined_deg	0.67
r_mcangle_it	0.463
r_nbtor_refined	0.312
r_mcbond_it	0.249
r_symmetry_hbond_refined	0.206
r_nbd_refined	0.195
r_symmetry_vdw_refined	0.159
r_xyhbond_nbd_refined	0.139
r_chiral_restr	0.051
r_bond_refined_d	0.004
r_gen_planes_refined	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3928
Nucleic Acid Atoms
Solvent Atoms	38
Heterogen Atoms	144

Software

Software
Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
DNA	data collection
MOSFLM	data reduction
CCP4	data scaling
PHASER	phasing

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.