Experiment: 3H3D

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.8	277	2.1M Ammonium sulfate, 100mM HEPES, 4% DMSO, 2mM DTT, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 94.58	α = 90
b = 94.58	β = 90
c = 229.27	γ = 120

Symmetry
Space Group	P 63

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	110	CCD	ADSC QUANTUM 315r		2000-06-01	M	SINGLE WAVELENGTH
2	2	x-ray	110	CCD	ADSC QUANTUM 315r		2000-06-01	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X25	1.1	NSLS	X25
2	SYNCHROTRON	NSLS BEAMLINE X25	1.009, 1.0084, 0.990	NSLS	X25

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	2.3	20	95.8	0.089	0.089	20.7	8.9	51334	49178			41.7

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)
	2.3	2.4	73.2		0.311	0.311	2.4	5	4917

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	none	2.3	19.78	49217	48553	2440	95.3	0.254	0.254	0.252	0.298	RANDOM	44.222

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]
-0.83	-0.41		-0.83		1.24

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	44.559
r_dihedral_angle_4_deg	22.685
r_dihedral_angle_3_deg	19.702
r_dihedral_angle_1_deg	7.366
r_scangle_it	5.908
r_scbond_it	4.016
r_angle_refined_deg	2.61
r_mcangle_it	2.443
r_mcbond_it	1.634
r_nbtor_refined	0.318

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	44.559
r_dihedral_angle_4_deg	22.685
r_dihedral_angle_3_deg	19.702
r_dihedral_angle_1_deg	7.366
r_scangle_it	5.908
r_scbond_it	4.016
r_angle_refined_deg	2.61
r_mcangle_it	2.443
r_mcbond_it	1.634
r_nbtor_refined	0.318
r_symmetry_vdw_refined	0.268
r_nbd_refined	0.267
r_symmetry_hbond_refined	0.229
r_xyhbond_nbd_refined	0.203
r_chiral_restr	0.176
r_bond_refined_d	0.033
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5009
Nucleic Acid Atoms
Solvent Atoms	335
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
CNS	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 R01GM133198.