8Z2N

Crystal structure of 5-phosphomethyl-2'-deoxyuridine (5-PmdU) glycinyltransferase gp46/PUGT from Pseudomonads phage PaMx11 in complex with dsDNA

This is a non-PDB format compatible entry.

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	SSRF BEAMLINE BL02U1
Synchrotron site	SSRF
Beamline	BL02U1
Temperature [K]	100
Detector technology	PIXEL
Collection date	2022-10-15
Detector	DECTRIS EIGER X 16M
Wavelength(s)	0.97915
Spacegroup name	P 21 21 21
Unit cell lengths	57.787, 92.032, 167.644
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	29.000 - 2.300
R-factor	0.2286
Rwork	0.226
R-free	0.27540
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	8z2m
RMSD bond length	0.010
RMSD bond angle	1.062
Data reduction software	XDS
Data scaling software	SCALA
Phasing software	PHASER
Refinement software	PHENIX (1.21rc1_5156)

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	30.000	2.420
High resolution limit [Å]	2.300	2.300
Rmerge	0.154	1.798
Rmeas	0.160	0.866
Rpim	0.043	0.496
Number of reflections	40612	5841
<I/σ(I)>	12.7	1.5
Completeness [%]	99.9	99.9
Redundancy	13.5	13.9
CC(1/2)	0.999	0.827

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, HANGING DROP		293	20% (w/v) PEG 8,000, 0.1M MES/Sodium hydroxide pH 6.0, 0.2M Calcium acetate