2A5D

Structural basis for the activation of cholera toxin by human ARF6-GTP

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1O3Y	1. mouse ARF1 (1O3Y) 2. CTA1 (1S5E)
experimental model	PDB	1S5E	1. mouse ARF1 (1O3Y) 2. CTA1 (1S5E)

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	298	PEG2000mme, cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.41	48.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 44.915	α = 90
b = 91.446	β = 90
c = 98.547	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	ADSC QUANTUM 315		2004-04-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.2	1.0781	ALS	8.2.2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.8	50	93.3			36064	36064	1.5	1.5

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.86	56.7

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1. mouse ARF1 (1O3Y) 2. CTA1 (1S5E)	1.8	45.74	34206	34206	1798	93.34	0.16855	0.16686	0.18	0.19939	0.21	RANDOM	21.063

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]
0.3			-0.05		-0.25

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.837
r_dihedral_angle_4_deg	18.044
r_dihedral_angle_3_deg	13.128
r_dihedral_angle_1_deg	6.128
r_scangle_it	2.708
r_mcangle_it	2.495
r_angle_refined_deg	2.025
r_scbond_it	1.87
r_mcbond_it	1.578
r_angle_other_deg	0.869
r_mcbond_other	0.449
r_symmetry_vdw_other	0.357
r_symmetry_hbond_refined	0.236
r_nbd_refined	0.235
r_xyhbond_nbd_refined	0.231
r_nbd_other	0.219
r_nbtor_refined	0.19
r_xyhbond_nbd_other	0.165
r_symmetry_vdw_refined	0.161
r_chiral_restr	0.115
r_nbtor_other	0.101
r_metal_ion_refined	0.09
r_bond_refined_d	0.017
r_gen_planes_refined	0.009
r_bond_other_d	0.001
r_gen_planes_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2762
Nucleic Acid Atoms
Solvent Atoms	291
Heterogen Atoms	40

Software

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