8WSW

The Crystal Structure of LIMK2a from Biortus

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277	0.1M HEPES ,7.3,10% w/vPEG 8000, 8%v/v Ethylene glycol

Crystal Properties
Matthews coefficient	Solvent content
2.86	57.03

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 88.223	α = 90
b = 104.175	β = 116.683
c = 96.443	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	100	PIXEL	DECTRIS PILATUS 6M		2023-06-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL45XU	1	SPring-8	BL45XU

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	2.5	48.35	98.6	0.071	12.3	3.3		53195

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.5	2.58			0.721	1.7

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	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.5	48.35	53175	2728	98.443	0.212	0.2093	0.2563	59.277

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]
-3.695		1.732	-3.07		3.338

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.973
r_dihedral_angle_4_deg	18.07
r_dihedral_angle_3_deg	14.654
r_lrange_other	8.066
r_lrange_it	8.062
r_dihedral_angle_1_deg	6.234
r_scangle_it	5.213
r_scangle_other	5.213
r_mcangle_it	5.054
r_mcangle_other	5.054
r_scbond_it	3.121
r_scbond_other	3.121
r_mcbond_it	3.087
r_mcbond_other	3.087
r_angle_refined_deg	1.367
r_angle_other_deg	1.1
r_symmetry_nbd_refined	0.193
r_nbd_refined	0.191
r_nbd_other	0.17
r_symmetry_nbd_other	0.165
r_nbtor_refined	0.157
r_xyhbond_nbd_refined	0.136
r_symmetry_nbtor_other	0.071
r_ncsr_local_group_2	0.062
r_ncsr_local_group_3	0.061
r_ncsr_local_group_5	0.058
r_ncsr_local_group_4	0.057
r_ncsr_local_group_6	0.053
r_chiral_restr	0.05
r_ncsr_local_group_1	0.049
r_bond_refined_d	0.004
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	8948
Nucleic Acid Atoms
Solvent Atoms	301
Heterogen Atoms	180

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing