7Z0I

human PEX13 SH3 domain

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5	293	0.01M Zinc chloride, 0.1M Sodium acetate, 20% w/v PEG 6000

Crystal Properties
Matthews coefficient	Solvent content
2.36	48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 43.949	α = 90
b = 43.949	β = 90
c = 86.78	γ = 90

Symmetry
Space Group	I 41

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 2M-F		2020-02-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X06DA	0.999995	SLS	X06DA

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	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	1.8	43.39	99.9	0.082	0.089	0.034	1	19.7	13.6		7660

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.8	1.84	99.5		1.443	1.559	0.588	0.738		13.4

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1wxu	1.8	39.238	7649	387	99.83	0.184	0.1817	0.2292	RANDOM	34.564

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]
1.568			1.568		-3.137

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	27.72
r_dihedral_angle_3_deg	14.498
r_dihedral_angle_4_deg	11.799
r_lrange_it	7.488
r_lrange_other	7.482
r_dihedral_angle_1_deg	6.882
r_scangle_it	5.525
r_scangle_other	5.519
r_mcangle_it	3.851
r_mcangle_other	3.848
r_scbond_it	3.561
r_scbond_other	3.556
r_mcbond_it	2.681
r_mcbond_other	2.676
r_angle_refined_deg	1.498
r_angle_other_deg	1.282
r_nbd_other	0.254
r_symmetry_nbd_refined	0.201
r_nbd_refined	0.18
r_xyhbond_nbd_refined	0.174
r_symmetry_nbd_other	0.171
r_nbtor_refined	0.158
r_symmetry_xyhbond_nbd_refined	0.147
r_symmetry_nbtor_other	0.077
r_symmetry_metal_ion_refined	0.074
r_chiral_restr	0.062
r_bond_refined_d	0.009
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	608
Nucleic Acid Atoms
Solvent Atoms	51
Heterogen Atoms	5

Software

Software
Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
MOLREP	phasing
BUCCANEER	phasing