1S99

The structure and function of B. subtilis YkoF gene product: ligand free protein

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	295	20% PEG 8000, 0.2 M calcium acetate, 0.1 M MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 295.0K

Crystal Properties
Matthews coefficient	Solvent content
2.76	55.07

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.93	α = 90
b = 83.28	β = 90
c = 85.9	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	120	CCD	MARRESEARCH	mirrors	2003-08-29	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 22-ID	0.9642, 0.9795, 0.9794	APS	22-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	1.6	34		0.24	24	4.1	212643	51209	1	-3

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)
	1.6	1.66	43.4		0.322	1.9	2.5

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	1.65	34.3	47795	1265	100	0.17353	0.17223	0.22375	RANDOM	23.29

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]
2.9			-0.89		-2.01

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	6.344
r_sphericity_free	4.894
r_scangle_it	4.166
r_scbond_it	2.911
r_sphericity_bonded	2.748
r_mcangle_it	2.105
r_rigid_bond_restr	1.691
r_angle_refined_deg	1.517
r_mcbond_it	1.337
r_angle_other_deg	0.885
r_symmetry_vdw_other	0.316
r_symmetry_hbond_refined	0.282
r_nbd_other	0.266
r_nbd_refined	0.234
r_symmetry_vdw_refined	0.209
r_xyhbond_nbd_refined	0.169
r_chiral_restr	0.098
r_nbtor_other	0.088
r_metal_ion_refined	0.068
r_bond_refined_d	0.016
r_gen_planes_refined	0.007
r_gen_planes_other	0.006
r_bond_other_d	0.003
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_mcbond_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2819
Nucleic Acid Atoms
Solvent Atoms	362
Heterogen Atoms	9

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SHELXS	phasing