6OXM
Crystal structure of L,L-diaminopimelate aminotransferase (DapL) from Verrucomicrobium spinosum
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | AUSTRALIAN SYNCHROTRON BEAMLINE MX2 |
Synchrotron site | Australian Synchrotron |
Beamline | MX2 |
Temperature [K] | 110 |
Detector technology | PIXEL |
Collection date | 2018-07-05 |
Detector | DECTRIS EIGER X 16M |
Wavelength(s) | 0.95366 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 56.050, 121.372, 76.545 |
Unit cell angles | 90.00, 102.01, 90.00 |
Refinement procedure
Resolution | 47.190 - 2.250 |
R-factor | 0.19088 |
Rwork | 0.189 |
R-free | 0.23200 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 3qgu |
RMSD bond length | 0.004 |
RMSD bond angle | 1.281 |
Data reduction software | MOSFLM |
Data scaling software | Aimless |
Phasing software | MOLREP |
Refinement software | REFMAC (5.8.0241) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 49.460 | 49.460 | 2.380 |
High resolution limit [Å] | 2.250 | 8.590 | 2.300 |
Rmerge | 0.145 | 0.044 | 1.334 |
Rmeas | 0.172 | 0.051 | 1.583 |
Rpim | 0.092 | 0.027 | 0.843 |
Total number of observations | 3180 | 15896 | |
Number of reflections | 44544 | 890 | 4479 |
<I/σ(I)> | 8.1 | 20.3 | 1.9 |
Completeness [%] | 99.5 | 99.5 | 95.7 |
Redundancy | 3.5 | 3.6 | 3.5 |
CC(1/2) | 0.926 | 0.996 | 0.335 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 7 | 281.15 | 60% v/v T-mate, 100 mM malic acid |