4KLZ

Inhibition of Small GTPases by Stabilization of the GDP Complex, a Novel Approach applied to Rit1, a Target for Rheumatoid Arthritis

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2ERY	pdb entry 2ery

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291	11-14% w/v PEG4000, 5-8% v/v Jeffamine M600, imidazole , VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 40.278	α = 90
b = 37.048	β = 95.9
c = 40.736	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	99	CCD	Bruker Platinum 135		2007-02-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	OTHER	1.54146

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	2.3	40.5	98	0.0547	36.45		5464	5464

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	pdb entry 2ery	2.3	40.5	82115	4860	520	98.57	0.19786	0.18538	0.19	0.31099	0.31	RANDOM	15.06

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]
2.07		-0.12	-1.11		-0.99

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.123
r_dihedral_angle_3_deg	23.608
r_dihedral_angle_4_deg	21.704
r_dihedral_angle_1_deg	12.193
r_scangle_it	4.403
r_scbond_it	3.337
r_angle_refined_deg	3.177
r_mcangle_it	2.063
r_mcbond_it	1.678
r_angle_other_deg	1.567
r_symmetry_hbond_refined	0.446
r_mcbond_other	0.368
r_symmetry_vdw_other	0.36
r_nbd_refined	0.307
r_nbd_other	0.27
r_xyhbond_nbd_refined	0.27
r_symmetry_vdw_refined	0.251
r_nbtor_refined	0.221
r_chiral_restr	0.181
r_nbtor_other	0.108
r_bond_refined_d	0.042
r_gen_planes_refined	0.014
r_xyhbond_nbd_other	0.012
r_gen_planes_other	0.004
r_bond_other_d	0.002
r_metal_ion_refined
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	1278
Nucleic Acid Atoms
Solvent Atoms	18
Heterogen Atoms	29

Software

Software
Software Name	Purpose
PROTEUM PLUS	data collection
Coot	model building
REFMAC	refinement
PROTEUM PLUS	data reduction
PROTEUM PLUS	data scaling