9LR4

Crystal Structure of 5'-Deoxy-5'-methylthioadenosine phosphorylase from Aeropyrum pernix 343K

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	PHOTON FACTORY BEAMLINE BL-17A
Synchrotron site	Photon Factory
Beamline	BL-17A
Temperature [K]	343
Detector technology	PIXEL
Collection date	2024-11-24
Detector	DECTRIS EIGER X 16M
Wavelength(s)	0.98
Spacegroup name	H 3 2
Unit cell lengths	79.044, 79.044, 233.312
Unit cell angles	90.00, 90.00, 120.00

Refinement procedure

Resolution	44.400 - 1.700
Rwork	0.145
R-free	0.18190
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	1wta
RMSD bond length	0.010
RMSD bond angle	1.831
Data reduction software	XDS
Data scaling software	Aimless
Phasing software	MOLREP
Refinement software	REFMAC (5.8.0430 (refmacat 0.4.82))

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	44.400	44.330	1.730
High resolution limit [Å]	1.700	9.000	1.700
Rmerge	0.095	0.024	1.179
Rmeas	0.105	0.027	1.288
Rpim	0.046	0.012	0.572
Number of reflections	31368	252	1651
<I/σ(I)>	20.8	70.1	2.5
Completeness [%]	100.0	98.6	100
Redundancy	10	7.9	9.8
CC(1/2)	0.999	0.999	0.676

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	COUNTER-DIFFUSION	5.4	293.2	The mixture of protein solution and agarose was filled into a glass capillary, and the capillary was immersed in the reservoir solution for crystallization. The composition of the reservoir solution was as follows.15%(v/v)PEG#200,0.1 M phosphate citrate pH 5.4