1O59

Crystal structure of Allantoicase (yir029w) from Saccharomyces cerevisiae at 2.40 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP,NANODROP		293	30% Ethylene Glycol , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
2	VAPOR DIFFUSION,SITTING DROP,NANODROP		293	30% Ethylene Glycol, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 107.209	α = 90
b = 107.209	β = 90
c = 134.918	γ = 120

Symmetry
Space Group	P 63 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		2003-04-17	M	SINGLE WAVELENGTH
2	1	x-ray	100	CCD	ADSC QUANTUM 315		2003-04-17	M	MAD
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL11-1		SSRL	BL11-1
2	SYNCHROTRON	SSRL BEAMLINE BL9-2	0.979608, 0.918370, 0.979413	SSRL	BL9-2

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	2.4	54.554	99.8	0.099	13	5.1	18532	18532			56.4

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)
1,2	2.4	2.46	98.8		0.707	1.8	2.6	1325

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	MAD	THROUGHOUT	2.4	41.97	17676	830	99.77	0.17765	0.17542	0.22238	RANDOM	57.277

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]
-2.4	-1.2		-2.4		3.61

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.267
r_dihedral_angle_4_deg	17.963
r_dihedral_angle_3_deg	17.738
r_dihedral_angle_1_deg	7.304
r_scangle_it	2.603
r_scbond_it	1.706
r_angle_refined_deg	1.505
r_mcangle_it	1.285
r_angle_other_deg	0.832
r_mcbond_it	0.832
r_symmetry_vdw_other	0.302
r_nbd_other	0.199
r_nbd_refined	0.185
r_symmetry_hbond_refined	0.164
r_symmetry_vdw_refined	0.148
r_chiral_restr	0.093
r_nbtor_other	0.091
r_xyhbond_nbd_refined	0.022
r_bond_refined_d	0.017
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2548
Nucleic Acid Atoms
Solvent Atoms	218
Heterogen Atoms

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
SOLVE	phasing
RESOLVE	model building
REFMAC	refinement
CCP4	data scaling
RESOLVE	phasing