2ODF | pdb_00002odf

The crystal structure of gene product Atu2144 from Agrobacterium tumefaciens

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6	298	5% Isopropanol, 2M Ammonium sulfate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.65	53.66

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 110.523	α = 90
b = 89.765	β = 91.35
c = 120.365	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 315	mirrors	2006-03-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID	0.97980	APS	19-ID

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	1.9	120	98.98	0.083	22	4.6	175032	173247		2	24.2

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)
1	1.9	1.952	95.72		0.42	2.3	3.8	13470

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.9	120	173247	9148	98.98	0.19113	0.18891	0.19	0.23394	0.24	RANDOM	23.245

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]
-0.24		0.43	-1.25		1.51

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.119
r_dihedral_angle_4_deg	18.017
r_dihedral_angle_3_deg	14.397
r_dihedral_angle_1_deg	5.956
r_scangle_it	2.889
r_scbond_it	2.015
r_angle_refined_deg	1.358
r_mcangle_it	1.166
r_mcbond_it	1.072
r_angle_other_deg	0.939
r_symmetry_vdw_other	0.238
r_nbd_refined	0.219
r_nbd_other	0.203
r_symmetry_vdw_refined	0.19
r_xyhbond_nbd_refined	0.179
r_nbtor_refined	0.172
r_mcbond_other	0.16
r_symmetry_hbond_refined	0.148
r_nbtor_other	0.085
r_chiral_restr	0.079
r_xyhbond_nbd_other	0.042
r_bond_refined_d	0.012
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	15391
Nucleic Acid Atoms
Solvent Atoms	1613
Heterogen Atoms	50

Software

Software
Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data reduction
HKL-2000	data scaling
HKL-3000	phasing
SHELXE	model building
SOLVE	phasing
RESOLVE	phasing
ARP/wARP	model building