6YKF

VcaM4I restriction endonuclease in the presence of 5mC-modified ssDNA

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1)
Synchrotron site	PETRA III, EMBL c/o DESY
Beamline	P13 (MX1)
Temperature [K]	100
Detector technology	PIXEL
Collection date	2019-12-15
Detector	DECTRIS PILATUS 6M-F
Wavelength(s)	0.97626
Spacegroup name	P 62 2 2
Unit cell lengths	129.000, 129.000, 110.911
Unit cell angles	90.00, 90.00, 120.00

Refinement procedure

Resolution	42.230 - 1.480
R-factor	0.1702
Rwork	0.169
R-free	0.18810
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	6yjb
RMSD bond length	0.006
RMSD bond angle	1.288
Data reduction software	XDS
Data scaling software	XDS
Phasing software	REFMAC
Refinement software	REFMAC (5.8.0258)

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	42.230	1.560
High resolution limit [Å]	1.480	1.480
Rmeas	0.096	1.019
Number of reflections	90208	14319
<I/σ(I)>	14.95	1.91
Completeness [%]	98.9	98.5
Redundancy	10.6	10.1
CC(1/2)	0.999	0.742

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, HANGING DROP	5.25	291	RESERVOIR SOLUTION: 1.6 M (NH4)2SO4 , 0.1 M MES PH 5.25; PROTEIN:DNA SOLUTION: 0.3 M NACL, 15 MM TRIS-HCL PH 8.5 AND 1 MM TCEP. FOR CRYO-PROTECTION THE RESERVOIR SOLUTION WAS DILUTED WITH GLYCEROL TO ACHIEVE 30% CONCENTRATION.