9YIS

Crystal structure of glutamate dehydrogenase from Babesia microti

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	NSLS-II BEAMLINE 19-ID
Synchrotron site	NSLS-II
Beamline	19-ID
Temperature [K]	100
Detector technology	PIXEL
Collection date	2025-05-25
Detector	DECTRIS EIGER2 XE 9M
Wavelength(s)	0.9786
Spacegroup name	C 2 2 21
Unit cell lengths	154.068, 197.300, 229.680
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	48.580 - 2.180
R-factor	0.1841
Rwork	0.183
R-free	0.20940
Structure solution method	MOLECULAR REPLACEMENT
RMSD bond length	0.005
RMSD bond angle	0.708
Data reduction software	XDS
Data scaling software	Aimless
Phasing software	PHASER
Refinement software	PHENIX ((dev_5438: ???))

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	49.630	2.240
High resolution limit [Å]	2.180	2.180
Rmerge	0.178	1.830
Rmeas	0.185	1.899
Rpim	0.050	0.506
Total number of observations	2475202	186105
Number of reflections	181027	13326
<I/σ(I)>	12.9	1.7
Completeness [%]	100.0
Redundancy	13.7	14
CC(1/2)	0.999	0.691

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, SITTING DROP	6.5	291	25% 3350, 0.1M BT 6.5, 0.2M sodium acetate. BamiA.17991.a.A21.PW39288 at 16.7 mg/mL. 2mM NADP added to the protein prior to crystallization. plate 19938 D3 drop1, Puck: PSL-0516, Cryo: 12.5% P200 + 87.5% crystallant.