2OLM | pdb_00002olm

ArfGap domain of HIV-1 Rev binding protein

X-RAY DIFFRACTION

---

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7	291	2.27M Ammonium phosphate, 0.09M BTP, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
2.3	45.6

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.883	α = 90
b = 57.883	β = 90
c = 83.696	γ = 90

Symmetry
Space Group	P 43 21 2

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		2006-11-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 17-ID	1.00000	APS	17-ID

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	1.48	50	99.7	0.055	18.9	7.2		45446

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	1.48	1.53	97.3		0.237		4.4

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE-R	PDB entry 2IQJ	1.48	30	24481	1239	99.825	0.18	0.1797	0.21	0.1948	0.21	random	12.863

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]
0.172			0.172		-0.344

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.201
r_dihedral_angle_4_deg	17.554
r_dihedral_angle_3_deg	10.657
r_dihedral_angle_1_deg	5.842
r_scangle_it	4.116
r_scbond_it	2.835
r_mcangle_it	2.683
r_mcbond_it	2.268
r_angle_refined_deg	1.459
r_angle_other_deg	0.922
r_mcbond_other	0.495
r_symmetry_vdw_other	0.251
r_nbd_refined	0.212
r_nbd_other	0.201
r_nbtor_refined	0.179
r_symmetry_vdw_refined	0.133
r_xyhbond_nbd_refined	0.113
r_chiral_restr	0.095
r_symmetry_hbond_refined	0.093
r_nbtor_other	0.085
r_bond_refined_d	0.016
r_gen_planes_refined	0.007
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1056
Nucleic Acid Atoms
Solvent Atoms	75
Heterogen Atoms	33

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection