5NW5

Crystal structure of the Rif1 N-terminal domain (RIF1-NTD) from Saccharomyces cerevisiae in complex with DNA

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	SLS BEAMLINE X06DA
Synchrotron site	SLS
Beamline	X06DA
Temperature [K]	100
Detector technology	PIXEL
Collection date	2013-02-26
Detector	DECTRIS PILATUS 2M-F
Wavelength(s)	0.91863
Spacegroup name	P 21 21 21
Unit cell lengths	92.140, 169.800, 390.160
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	43.232 - 6.502
R-factor	0.2543
Rwork	0.253
R-free	0.27650
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	5nvr
RMSD bond length	0.015
RMSD bond angle	2.115
Data reduction software	XDS (Oct 15, 2015)
Data scaling software	Aimless (0.5.23)
Phasing software	PHASER (2.7.6)
Refinement software	PHENIX ((dev_2205: AMBER))

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	43.250	7.270
High resolution limit [Å]	6.500	6.500
Rmerge	0.342	6.011
Rpim	0.102	1.757
Number of reflections	12703	3529
<I/σ(I)>	8	0.5
Completeness [%]	99.6	100
Redundancy	11.9	12.5
CC(1/2)	0.998	0.142

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, SITTING DROP	7.4	295	CRYSTAL GROWN BY DEHYDRATING 1 uL of PROTEIN-DNA MIXTURE (43.5 uM protein with 65 uM DNA) IN 50 mM HEPES PH 7.4, 310 mM NaCl, 1 mM TCEP over a reservoir containing 10 mM NiCl2, 100 mM Tris-HCl, pH 8, 20% (w/v) polyethylene glycol MME 2000