8XFL

The Crystal Structure of MARK4 from Biortus.

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5ES1

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		293	0.2M Potassium sodium tartrate, 20% PEG 3350

Crystal Properties
Matthews coefficient	Solvent content
2.17	43.41

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 114.447	α = 90
b = 78.103	β = 122
c = 86.155	γ = 90

Symmetry
Space Group	C 1 2 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		2022-10-27	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	3	48.53	99.9	0.074	15.1	4.2		13003

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	3	3.18			0.727	2.2

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	3	41.697	13003	623	99.823	0.21	0.2066	0.2695	70

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]
3.305		1.477	-0.638		-2.534

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	15.203
r_dihedral_angle_6_deg	13.064
r_lrange_it	11.877
r_lrange_other	11.877
r_dihedral_angle_1_deg	6.136
r_mcangle_it	6.029
r_mcangle_other	6.028
r_scangle_it	5.562
r_scangle_other	5.561
r_dihedral_angle_2_deg	4.624
r_mcbond_it	3.571
r_mcbond_other	3.571
r_scbond_it	3.18
r_scbond_other	3.179
r_angle_refined_deg	0.941
r_angle_other_deg	0.325
r_symmetry_xyhbond_nbd_refined	0.221
r_nbd_refined	0.211
r_symmetry_nbd_other	0.191
r_nbtor_refined	0.179
r_nbd_other	0.151
r_xyhbond_nbd_refined	0.136
r_symmetry_nbd_refined	0.125
r_ncsr_local_group_1	0.122
r_symmetry_nbtor_other	0.076
r_chiral_restr_other	0.065
r_chiral_restr	0.045
r_symmetry_xyhbond_nbd_other	0.006
r_gen_planes_refined	0.004
r_bond_refined_d	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4688
Nucleic Acid Atoms
Solvent Atoms	25
Heterogen Atoms

Software

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