9EYE | pdb_00009eye

A-SPECTRIN SH3 DOMAIN V9L, A11V, L31V, V44I, V53I MUTANT

X-RAY DIFFRACTION

---

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1SHG

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	293	2.0M Ammonium Sulfate and 0.1M TRIS pH: 6.5

Crystal Properties
Matthews coefficient	Solvent content
2.41	49

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 33.007	α = 90
b = 42.857	β = 90
c = 49.68	γ = 90

Symmetry
Space Group	P 21 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	80	PIXEL	DECTRIS PILATUS 6M		2022-05-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALBA BEAMLINE XALOC	0.97918	ALBA	XALOC

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	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	1.13	32.451	99	0.05	0.999	13.7	6		26796

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.13	1.149			1.41	0.571	0.8

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.13	32.451	26793	1320	98.988	0.152	0.151	0.1522	0.1688	0.1693	16.711

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]
-0.469			0.982		-0.513

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.17
r_dihedral_angle_4_deg	25.063
r_dihedral_angle_3_deg	16.207
r_dihedral_angle_1_deg	5.699
r_scangle_it	5.598
r_rigid_bond_restr	5.259
r_lrange_it	5.061
r_scangle_other	4.758
r_scbond_it	4.718
r_lrange_other	4.609
r_scbond_other	4.303
r_mcbond_it	3.271
r_mcangle_other	3.26
r_mcangle_it	3.258
r_mcbond_other	2.699
r_angle_refined_deg	2.193
r_angle_other_deg	1.491
r_xyhbond_nbd_refined	0.22
r_nbd_refined	0.213
r_symmetry_xyhbond_nbd_refined	0.195
r_symmetry_nbd_other	0.188
r_nbtor_refined	0.176
r_symmetry_nbd_refined	0.164
r_chiral_restr	0.115
r_nbd_other	0.112
r_symmetry_nbtor_other	0.091
r_symmetry_xyhbond_nbd_other	0.044
r_bond_refined_d	0.022
r_gen_planes_refined	0.013
r_gen_planes_other	0.002
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	487
Nucleic Acid Atoms
Solvent Atoms	87
Heterogen Atoms	16

Software

Software
Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
autoPROC	data scaling
PHASER	phasing