Experiment: 2PNN

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		5		3% PEG 8000, 0.1M SODIUM CITRATE, 5MM ATP, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K, pH 5.00

Crystal Properties
Matthews coefficient	Solvent content
3.34	63.14

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 99.469	α = 90
b = 99.469	β = 90
c = 106.729	γ = 120

Symmetry
Space Group	H 3

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	IMAGE PLATE	RIGAKU RAXIS IV	mirrors	2006-04-21	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU	1.5418

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	2.7	50	100	0.107	24.9	4.5		13575		1

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.7	2.8	99.7		0.56	3.1

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	MOLECULAR REPLACEMENT	THROUGHOUT	2.7	20	9618	488	93.7	0.202	0.199	0.248	RANDOM	37.68

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]
2.84	1.42		2.84		-4.25

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.913
r_dihedral_angle_3_deg	21.463
r_dihedral_angle_4_deg	16.581
r_dihedral_angle_1_deg	7.12
r_scangle_it	1.787
r_angle_refined_deg	1.718
r_scbond_it	1.095
r_mcangle_it	0.709
r_mcbond_it	0.391
r_nbtor_refined	0.317

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.913
r_dihedral_angle_3_deg	21.463
r_dihedral_angle_4_deg	16.581
r_dihedral_angle_1_deg	7.12
r_scangle_it	1.787
r_angle_refined_deg	1.718
r_scbond_it	1.095
r_mcangle_it	0.709
r_mcbond_it	0.391
r_nbtor_refined	0.317
r_symmetry_hbond_refined	0.277
r_nbd_refined	0.245
r_symmetry_vdw_refined	0.243
r_xyhbond_nbd_refined	0.158
r_chiral_restr	0.108
r_bond_refined_d	0.012
r_gen_planes_refined	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1932
Nucleic Acid Atoms
Solvent Atoms	71
Heterogen Atoms	31

Software

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

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.