6XS5

Crystal structure of human Vps29 complexed with RaPID-derived cyclic peptide RT-D1

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	AUSTRALIAN SYNCHROTRON BEAMLINE MX2
Synchrotron site	Australian Synchrotron
Beamline	MX2
Temperature [K]	100
Detector technology	PIXEL
Collection date	2018-09-23
Detector	DECTRIS EIGER X 16M
Wavelength(s)	0.953729
Spacegroup name	C 1 2 1
Unit cell lengths	114.390, 43.770, 43.140
Unit cell angles	90.00, 100.53, 90.00

Refinement procedure

Resolution	42.410 - 2.010
R-factor	0.192184947795
Rwork	0.190
R-free	0.22531
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	1w24
RMSD bond length	0.007
RMSD bond angle	1.210
Data reduction software	XDS
Data scaling software	Aimless (0.7.2)
Phasing software	PHASER (2.5.6)
Refinement software	PHENIX (1.10.1)

Data quality characteristics

	Overall	Outer shell
Low resolution limit [Å]	42.410	2.060
High resolution limit [Å]	2.010	2.010
Rmerge	0.077	0.585
Rmeas	0.083	0.632
Rpim	0.032	0.235
Number of reflections	14169	1030
<I/σ(I)>	12.2	2.5
Completeness [%]	99.9	98.8
Redundancy	6.9	7
CC(1/2)	0.999	0.917

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, HANGING DROP		293	3.5 M Sodium Formate