6YMF
Crystal structure of serine hydroxymethyltransferase from Aphanothece halophytica in the PLP-Serine external aldimine state
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 22-ID |
Synchrotron site | APS |
Beamline | 22-ID |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-08-17 |
Detector | DECTRIS EIGER X 16M |
Wavelength(s) | 1.000 |
Spacegroup name | P 31 2 1 |
Unit cell lengths | 93.888, 93.888, 134.683 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 44.890 - 1.630 |
R-factor | 0.1067 |
Rwork | 0.106 |
R-free | 0.12980 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6ymd |
RMSD bond length | 0.016 |
RMSD bond angle | 1.813 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | REFMAC (5.8.0222) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 44.890 | 1.730 |
High resolution limit [Å] | 1.630 | 1.630 |
Rmeas | 0.045 | 1.098 |
Number of reflections | 86052 | 13719 |
<I/σ(I)> | 29.5 | 2.1 |
Completeness [%] | 99.9 | 99.3 |
Redundancy | 11.3 | 11.3 |
CC(1/2) | 1.000 | 0.847 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 5 | 292 | 0.05 M citric acid, 0.05 M BIS-TRIS propane at pH 5.0 and 16% polyethylene glycol 3350 cocrystallized with 50 mM L-serine |