3HXD

Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 9)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.2	284	14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K

Crystal Properties
Matthews coefficient	Solvent content
2.32	46.93

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 66.837	α = 90
b = 90.786	β = 90
c = 115.1	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	CCD	MARMOSAIC 225 mm CCD		2009-03-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	0.9787	SLS	X10SA

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	1.95	30	99.1	0.04	24.2	4.9	51797	51356		5.55	34.9

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.95	2.05	99.9		0.308	5.55	4.9	7129

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	MOLECULAR REPLACEMENT	THROUGHOUT	1.95	29.4	48765	2588	99.18	0.1739	0.17141	0.22197	RANDOM	33.005

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]
1.2			-0.47		-0.73

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.94
r_dihedral_angle_4_deg	18.595
r_dihedral_angle_3_deg	14.427
r_dihedral_angle_1_deg	5.19
r_angle_other_deg	4.202
r_scangle_it	3.167
r_scbond_it	2.191
r_mcangle_it	1.696
r_angle_refined_deg	1.14
r_mcbond_it	0.985
r_mcbond_other	0.981
r_nbd_other	0.238
r_symmetry_vdw_other	0.222
r_nbd_refined	0.215
r_xyhbond_nbd_refined	0.183
r_nbtor_refined	0.18
r_xyhbond_nbd_other	0.177
r_symmetry_vdw_refined	0.172
r_nbtor_other	0.113
r_symmetry_hbond_refined	0.097
r_metal_ion_refined	0.075
r_chiral_restr	0.068
r_symmetry_metal_ion_refined	0.012
r_bond_refined_d	0.009
r_gen_planes_other	0.006
r_gen_planes_refined	0.004
r_bond_other_d

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4969
Nucleic Acid Atoms
Solvent Atoms	339
Heterogen Atoms	48

Software

Software
Software Name	Purpose
PHASER	phasing
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling