5O0U

Crystal structure of tarantula venom peptide Protoxin-II

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP		293	2M lithium sulfate, 100 mM Tris-HCl (pH 8), 2% v/v PEG 400

Crystal Properties
Matthews coefficient	Solvent content
1.85	33.45

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 37.669	α = 90
b = 37.669	β = 90
c = 103.944	γ = 120

Symmetry
Space Group	H 3 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	93	PIXEL	DECTRIS PILATUS3 S 6M		2016-07-28	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 5.0.2	1.0000	ALS	5.0.2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	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	0.99	34.67	92.9	0.062	0.02	0.998	25	8.7		14967

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	0.993	1.01	43.3		0.496	0.361	0.7		3.4

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SIRAS	THROUGHOUT	0.99	34.65	14235	732	92.88	0.12668	0.12601	0.13985	RANDOM	13.675

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]
-0.02	-0.01		-0.02		0.06

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	44.705
r_dihedral_angle_2_deg	34.913
r_sphericity_bonded	12.61
r_dihedral_angle_4_deg	11.561
r_dihedral_angle_3_deg	11
r_dihedral_angle_1_deg	6.192
r_long_range_B_refined	3.75
r_long_range_B_other	3.734
r_angle_other_deg	3.505
r_rigid_bond_restr	2.904
r_scangle_other	2.756
r_scbond_it	2.294
r_scbond_other	2.289
r_angle_refined_deg	2.189
r_mcangle_it	1.471
r_mcangle_other	1.467
r_mcbond_other	1.242
r_mcbond_it	1.238
r_chiral_restr	0.109
r_bond_refined_d	0.017
r_gen_planes_refined	0.01
r_bond_other_d	0.003
r_gen_planes_other	0.003
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	258
Nucleic Acid Atoms
Solvent Atoms	54
Heterogen Atoms	10

Software

Software
Software Name	Purpose
REFMAC	refinement
SHELXL	refinement
SHARP	phasing