1PY2 | pdb_00001py2

Structure of a 60 nM Small Molecule Bound to a Hot Spot on IL-2

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.9	298	0.05 M Zinc Acetate, 0.075 M Magnesium Chloride, 18% (w/v) Polyethylene Glycol 10K, 0.1M Sodium Cacodylate, pH 5.9. , VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.2	44.11

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 59.982	α = 90
b = 52.448	β = 106.34
c = 89.469	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	93	CCD			2003-01-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL7-1	1.08	SSRL	BL7-1

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	2.8	15	97			13660	15034

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	2.8	2.91	97.3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	2.8	15	13660	12442	640	98.43	0.273	0.27343	0.27105	0.2668	0.31961	0.3189	RANDOM	21.459

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]
3.84		3.67	-2.69		0.92

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	3.556
r_mcangle_it	1.504
r_angle_refined_deg	1.233
r_scangle_it	1.164
r_mcbond_it	0.826
r_scbond_it	0.685
r_nbd_refined	0.141
r_symmetry_vdw_refined	0.105
r_xyhbond_nbd_refined	0.087
r_symmetry_hbond_refined	0.073

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	3.556
r_mcangle_it	1.504
r_angle_refined_deg	1.233
r_scangle_it	1.164
r_mcbond_it	0.826
r_scbond_it	0.685
r_nbd_refined	0.141
r_symmetry_vdw_refined	0.105
r_xyhbond_nbd_refined	0.087
r_symmetry_hbond_refined	0.073
r_chiral_restr	0.042
r_bond_refined_d	0.013
r_gen_planes_refined	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3832
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	183

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
d*TREK	data scaling
AMoRE	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.