3D1P

Atomic resolution structure of uncharacterized protein from Saccharomyces cerevisiae

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.3	291	2.4 M Ammonium sulfate, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
1.73	28.76

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 58.343	α = 90
b = 37.429	β = 108.86
c = 52.198	γ = 90

Symmetry
Space Group	C 1 2 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	2008-03-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID	0.6525	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	0.98	40	98.3	0.062	20	3.9	60827	59810		1.8

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)
	0.98	1	95.5		0.65	1.9	3.9	2868

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (All)	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	SAD	THROUGHOUT	0.98	30	2	57110	55370	1740	98.48	0.10897	0.1085	0.12369	RANDOM	6.817

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]
-0.29		0.27	0.16		0.31

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.748
r_dihedral_angle_4_deg	19.302
r_dihedral_angle_3_deg	11.288
r_sphericity_free	9.189
r_dihedral_angle_1_deg	5.586
r_scangle_it	4.121
r_sphericity_bonded	3.989
r_scbond_it	3.08
r_mcangle_it	2.279
r_mcbond_it	1.791
r_angle_refined_deg	1.723
r_rigid_bond_restr	1.343
r_angle_other_deg	0.993
r_mcbond_other	0.648
r_nbd_refined	0.292
r_symmetry_hbond_refined	0.217
r_symmetry_vdw_refined	0.212
r_xyhbond_nbd_refined	0.207
r_nbd_other	0.197
r_symmetry_vdw_other	0.188
r_nbtor_refined	0.186
r_chiral_restr	0.108
r_nbtor_other	0.095
r_bond_refined_d	0.017
r_gen_planes_refined	0.009
r_bond_other_d	0.002
r_gen_planes_other	0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1097
Nucleic Acid Atoms
Solvent Atoms	249
Heterogen Atoms	5

Software

Software
Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
SHELXD	phasing
ARP/wARP	model building
MLPHARE	phasing
CCP4	phasing
Coot	model building