2CYD

Crystal structure of Lithium bound rotor ring of the V-ATPase from Enterococcus hirae

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	296	PEG 400, Lithium chroride, Potassium citrate, Tris-HCl, Glycerol, Undecyl-maltoside, Dodecyl-maltoside, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Properties
Matthews coefficient	Solvent content
4.9	74.9

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 119.648	α = 90
b = 125.779	β = 90
c = 210.196	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	IMAGE PLATE	RIGAKU		2005-05-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL26B1	1.0000	SPring-8	BL26B1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.8	107.83		0.094	0.094	11.2	4.1	78734	77244			56

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.8	2.95			0.706	0.706	1.9	3.6	10723

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	MOLECULAR REPLACEMENT	THROUGHOUT	2.8	107.8	1.9	77318	73353	3890	98.11	0.20861	0.20811	0.21813	RANDOM	55.981

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]
-4			2.38		1.62

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	43.354
r_dihedral_angle_3_deg	14.449
r_dihedral_angle_1_deg	4.201
r_scangle_it	2.295
r_scbond_it	1.243
r_angle_refined_deg	1.134
r_mcangle_it	0.947
r_mcbond_it	0.539
r_nbtor_refined	0.301
r_symmetry_vdw_refined	0.213
r_nbd_refined	0.202
r_xyhbond_nbd_refined	0.126
r_symmetry_hbond_refined	0.101
r_chiral_restr	0.081
r_metal_ion_refined	0.021
r_bond_refined_d	0.009
r_gen_planes_refined	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	11280
Nucleic Acid Atoms
Solvent Atoms	322
Heterogen Atoms	968

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling
AMoRE	phasing