7QPE

Crystal structure of serine hydroxymethyltransferase, isoform 6 from Arabidopsis thaliana (SHM6)

Experimental procedure

Experimental method	SINGLE WAVELENGTH
Source type	SYNCHROTRON
Source details	PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)
Synchrotron site	PETRA III, EMBL c/o DESY
Beamline	P14 (MX2)
Temperature [K]	100
Detector technology	PIXEL
Collection date	2021-10-20
Detector	DECTRIS EIGER X 16M
Wavelength(s)	0.9763
Spacegroup name	P 64 2 2
Unit cell lengths	129.683, 129.683, 302.305
Unit cell angles	90.00, 90.00, 120.00

Refinement procedure

Resolution	63.400 - 2.180
R-factor	0.2081
Rwork	0.208
R-free	0.23000
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	7pzz
RMSD bond length	0.008
RMSD bond angle	0.948
Data reduction software	XDS
Data scaling software	STARANISO
Phasing software	PHASER
Refinement software	PHENIX (1.19_4092)

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	105.280	105.280	2.430
High resolution limit [Å]	2.180	7.230	2.180
Rmerge	0.077	0.031	2.180
Number of reflections	49107	2454	2456
<I/σ(I)>	29.8	95.5	2.2
Completeness [%]	62.0	99.9	11.4
Redundancy	38.5	33.1	34.4
CC(1/2)	0.999	0.999	0.825

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION, SITTING DROP	5.3	292	0.18 M Ammonium nitrate, 0.09 M Sodium cacodylate 5.3, 20% v/v PEG Smear Low, 10% Ethylene glycol (based on the D1 condition of the BCS screen, Molecular Dimensions). Cryoprotection was obtained by increasing the ethylene glycol concentration to 20 % in the drop with crystals.