2CLS

The crystal structure of the human RND1 GTPase in the active GTP bound state

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1M7B	PDB ENTRY 1M7B

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		8.5		0.2M NAI, 20%(W/V)PEG3350, 0.1M BISTRISPROPANE PH8.5, 10% (V/V) ETHYLENE GLYCOL, 0.5% (V/V) DIMETHYLSULPHOXIDE, pH 8.50

Crystal Properties
Matthews coefficient	Solvent content
2.66	54

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 67.168	α = 90
b = 67.762	β = 90
c = 206.409	γ = 90

Symmetry
Space Group	C 2 2 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	MARRESEARCH		2006-03-24	M	SINGLE WAVELENGTH

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

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	2.3	30	95.9	0.06	11	7.7		20279		-3	44.7

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	2.3	2.34	95.5		0.21	7	5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	PDB ENTRY 1M7B	2.31	30	19213	1021	95.6	0.207	0.205	0.236	RANDOM	30.73

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]
1.25			2.39		-3.65

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.716
r_dihedral_angle_4_deg	22.426
r_dihedral_angle_3_deg	16.369
r_dihedral_angle_1_deg	6.489
r_scangle_it	2.308
r_angle_refined_deg	1.601
r_scbond_it	1.56
r_angle_other_deg	1.52
r_mcangle_it	1.035
r_mcbond_it	0.609
r_symmetry_vdw_other	0.267
r_symmetry_hbond_refined	0.24
r_nbd_refined	0.202
r_nbd_other	0.196
r_nbtor_refined	0.175
r_xyhbond_nbd_refined	0.146
r_chiral_restr	0.128
r_symmetry_vdw_refined	0.127
r_nbtor_other	0.092
r_bond_refined_d	0.014
r_gen_planes_refined	0.005
r_bond_other_d	0.003
r_gen_planes_other	0.002
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
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2708
Nucleic Acid Atoms
Solvent Atoms	129
Heterogen Atoms	66

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing