2GSU

Structure of Xac Nucleotide Pyrophosphatase/Phosphodiesterase in Complex with AMP

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6	293	0.1M Bis-Tris HCl, 19% PEG 3350, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K

Crystal Properties
Matthews coefficient	Solvent content
1.99	38.33

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 65.578	α = 90
b = 78.45	β = 90
c = 129.49	γ = 90

Symmetry
Space Group	P 21 21 21

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		2005-11-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.2	0.9537	ALS	8.2.2

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	50	91.3	0.142			41903	41903

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2	2.05	60.3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	FOURIER SYNTHESIS	THROUGHOUT	2	46.88	41903	39774	2128	91.3	0.23606	0.23606	0.23249	0.3026	RANDOM	28.653

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]
-0.13			0.32		-0.18

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.449
r_dihedral_angle_3_deg	14.003
r_dihedral_angle_4_deg	13.636
r_dihedral_angle_1_deg	6.673
r_scangle_it	1.617
r_angle_refined_deg	1.356
r_scbond_it	1.13
r_angle_other_deg	0.833
r_mcangle_it	0.69
r_mcbond_it	0.557
r_symmetry_vdw_other	0.254
r_symmetry_vdw_refined	0.22
r_nbd_refined	0.218
r_xyhbond_nbd_refined	0.211
r_symmetry_hbond_refined	0.21
r_nbd_other	0.194
r_nbtor_refined	0.175
r_mcbond_other	0.132
r_metal_ion_refined	0.108
r_nbtor_other	0.083
r_chiral_restr	0.081
r_xyhbond_nbd_other	0.023
r_bond_refined_d	0.012
r_gen_planes_refined	0.005
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5882
Nucleic Acid Atoms
Solvent Atoms	504
Heterogen Atoms	50

Software

Software
Software Name	Purpose
REFMAC	refinement
BOS	data collection
SCALEPACK	data scaling