Experiment: 3BDN

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.6	294	14% PEG 4000, 0.1 M Sodium Acetate pH 4.6, 0.2 M Ammonium Sulfate, 0.05 M Magnesium Chloride, 20% Glycerol, 1 mM Spermine, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
3.15	60.95

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 74.431	α = 90
b = 161.099	β = 90
c = 135.256	γ = 90

Symmetry
Space Group	C 2 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	100	CCD	ADSC QUANTUM 315		2002-11-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X25	1.0	NSLS	X25

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	3.909	34.61	99	0.048	21.2	10	7810	7238			111

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)
	3.909	4.14	100		0.176	8	9.2	629

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		THROUGHOUT	1LMB, 1F39	3.909	34.61	7238	7238	350	98.92	0.29597	0.29597	0.29211	0.37413	RANDOM	170.2

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]
-0.14			0.89		-0.75

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.503
r_dihedral_angle_1_deg	9.183
r_angle_refined_deg	1.773
r_scangle_it	1.523
r_scbond_it	1.166
r_mcangle_it	1.135
r_mcbond_it	0.701
r_symmetry_vdw_refined	0.306
r_nbd_refined	0.304
r_symmetry_hbond_refined	0.295

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.503
r_dihedral_angle_1_deg	9.183
r_angle_refined_deg	1.773
r_scangle_it	1.523
r_scbond_it	1.166
r_mcangle_it	1.135
r_mcbond_it	0.701
r_symmetry_vdw_refined	0.306
r_nbd_refined	0.304
r_symmetry_hbond_refined	0.295
r_xyhbond_nbd_refined	0.259
r_chiral_restr	0.114
r_bond_refined_d	0.02
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3626
Nucleic Acid Atoms	779
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
CBASS	data collection
MLPHARE	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

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.