2ZU6 | pdb_00002zu6

crystal structure of the eIF4A-PDCD4 complex

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6	277	14% MPD, 0.1M Sodium Citrate, pH6.0, 100mM Ammonium acetate, 5mM DTT, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.64	53.44

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 156.893	α = 90
b = 165.384	β = 90
c = 100.424	γ = 90

Symmetry
Space Group	P 21 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	113	CCD	ADSC QUANTUM 315		2008-04-20	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID		APS	19-ID

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	2.8	50	99.9	0.094	0.061	26.8	7.3	64680	64611

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	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	SAD	THROUGHOUT	2.8	50	0.19	61093	3253	98.97	0.25003	0.24768	0.2485	0.29363	0.2566	RANDOM	88.554

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]
1.31			3.55		-4.86

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_2_deg	39.089
f_dihedral_angle_3_deg	23.197
f_dihedral_angle_4_deg	21.507
f_dihedral_angle_1_deg	7.979
f_scangle_it	4.19
f_scbond_it	2.645
f_mcangle_it	1.938
f_angle_refined_deg	1.446
f_mcbond_it	1.169
f_symmetry_vdw_refined	0.367
f_nbtor_refined	0.33
f_nbd_refined	0.278
f_symmetry_hbond_refined	0.236
f_xyhbond_nbd_refined	0.193
f_chiral_restr	0.106
f_bond_refined_d	0.013
f_gen_planes_refined	0.007
f_bond_other_d
f_angle_other_deg
f_gen_planes_other
f_nbd_other
f_nbtor_other
f_xyhbond_nbd_other
f_metal_ion_refined
f_metal_ion_other
f_symmetry_vdw_other
f_symmetry_hbond_other
f_symmetry_metal_ion_refined
f_symmetry_metal_ion_other
f_mcbond_other
f_rigid_bond_restr
f_sphericity_free
f_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	14933
Nucleic Acid Atoms
Solvent Atoms	41
Heterogen Atoms	12

Software

Software
Software Name	Purpose
PHENIX	refinement
HKL-3000	data collection
HKL-3000	data reduction
HKL-3000	data scaling
SHELXS	phasing