2EVW

Crystal structure analysis of a fluorescent form of H-Ras p21 in complex with R-caged GTP

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.2	291.15	protein solution: 64 mM TRIS pH 7.6, 20 mM magnesium chloride, 10 mM DTT, 0,1 mM sodium azide; reservoir solution: 100 mM HEPES pH 7.2, 200 mM magnesium acetate, 16% PEG 8000 (freshly prepared) mixture of equal volumes of protein and reservoir solution, VAPOR DIFFUSION, HANGING DROP, temperature 291.15K

Crystal Properties
Matthews coefficient	Solvent content
2.27	45.76

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 69.3	α = 90
b = 69.3	β = 90
c = 35.51	γ = 90

Symmetry
Space Group	P 41

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 4	mirrors	2004-12-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.939	ESRF	ID14-4

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	1	69.34	99.9	0.052	0.052	13.82	5.9	536019	78838	-3	-3	14

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	1	1.05	99.9		0.679	0.679	2.43	4	12300

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	pdb entry 5p21	1.05	69.34	78796	78796	3909	99.93	0.157	0.157	0.156	0.181	RANDOM	6.21

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]
-0.68			-0.68		1.36

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.73
r_dihedral_angle_4_deg	19.607
r_dihedral_angle_3_deg	14.091
r_dihedral_angle_1_deg	6.228
r_scangle_it	2.845
r_scbond_it	2.209
r_angle_refined_deg	1.855
r_mcangle_it	1.287
r_mcbond_it	1.183
r_angle_other_deg	0.86
r_symmetry_vdw_other	0.285
r_symmetry_hbond_refined	0.27
r_xyhbond_nbd_refined	0.255
r_nbd_refined	0.24
r_mcbond_other	0.235
r_symmetry_vdw_refined	0.195
r_nbd_other	0.193
r_nbtor_refined	0.191
r_symmetry_hbond_other	0.11
r_chiral_restr	0.095
r_nbtor_other	0.09
r_metal_ion_refined	0.02
r_bond_refined_d	0.015
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1317
Nucleic Acid Atoms
Solvent Atoms	239
Heterogen Atoms	65

Software

Software
Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
ProDC	data collection
MOLREP	phasing