9SUY | pdb_00009suy

TPX2 7-20 fused to Aurora-A residues 116-389, covalently modified on Cys290 by F104 (7-((perfluorophenyl)sulfonyl)-3-(trifluoromethyl)-5,6,7,8-tetrahydro-[1,2,4]triazolo[4,3-a]pyrazine)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6VPG

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		291	Morpheus fusion condition E4 (0.1M Carboxylic acids, 1.2% Cholic acid derivative, 0.1M Buffer system 1, 30% precipitant mix 3).

Crystal Properties
Matthews coefficient	Solvent content
3.79	67.55

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 85.085	α = 90
b = 85.085	β = 90
c = 141.439	γ = 90

Symmetry
Space Group	P 41 21 2

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 EIGER2 S 16M		2025-08-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03	0.9762	Diamond	I03

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	2.27	60.164	100	1	8.4	26.7		24779

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.27	2.31			0.3

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	2.27	60.164	24715	1264	99.915	0.209	0.2068	0.2111	0.2506	0.2516	62.444

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]
1.392			1.392		-2.784

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	12.995
r_dihedral_angle_3_deg	12.521
r_dihedral_angle_2_deg	8.227
r_lrange_it	7.819
r_lrange_other	7.807
r_dihedral_angle_1_deg	6.739
r_scangle_it	5.65
r_scangle_other	5.648
r_mcangle_it	3.79
r_mcangle_other	3.789
r_scbond_it	3.472
r_scbond_other	3.463
r_mcbond_it	2.384
r_mcbond_other	2.384
r_dihedral_angle_other_2_deg	1.843
r_angle_refined_deg	1.415
r_angle_other_deg	0.485
r_nbd_refined	0.221
r_symmetry_nbd_other	0.2
r_nbtor_refined	0.187
r_nbd_other	0.181
r_symmetry_xyhbond_nbd_refined	0.168
r_xyhbond_nbd_refined	0.15
r_symmetry_nbd_refined	0.136
r_symmetry_nbtor_other	0.083
r_chiral_restr	0.076
r_symmetry_xyhbond_nbd_other	0.046
r_bond_refined_d	0.005
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2223
Nucleic Acid Atoms
Solvent Atoms	119
Heterogen Atoms	83

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
DIALS	data scaling
MOLREP	phasing
REFMAC	refinement
PDB-REDO	refinement