11MM

The structure of human Vacuolar Protein Sorting 34 catalytic domain bound to RD-II-81

This is a non-PDB format compatible entry.

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	SSRL BEAMLINE BL12-2
Synchrotron site	SSRL
Beamline	BL12-2
Temperature [K]	100
Detector technology	PIXEL
Collection date	2024-11-08
Detector	DECTRIS EIGER X 16M
Wavelength(s)	0.73, 1.85
Spacegroup name	P 41 21 2
Unit cell lengths	114.448, 114.448, 145.847
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	53.270 - 2.690
R-factor	0.2076
Rwork	0.205
R-free	0.26460
Structure solution method	MOLECULAR REPLACEMENT
RMSD bond length	0.004
RMSD bond angle	0.622
Data reduction software	autoPROC
Data scaling software	autoPROC
Phasing software	PHASER
Refinement software	PHENIX (1.20.1_4487)

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	53.270	2.786
High resolution limit [Å]	2.690	2.690
Rmerge	0.017	4.455
Rmeas	0.024	4.536
Number of reflections	27560	2688
<I/σ(I)>	17.88	0.77
Completeness [%]	99.9	99.3
Redundancy	26.9	28.3
CC(1/2)	0.998	0.477

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION	6	298	BIS-TRIS pH 6.5, 20% w/v Polyethylene glycol monomethyl ether 5,000