6OJR
Crystal structure of Sphingomonas paucimobilis TMY1009 apo-LsdA
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRL BEAMLINE BL7-1 |
Synchrotron site | SSRL |
Beamline | BL7-1 |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2014-07-04 |
Detector | ADSC QUANTUM 315r |
Wavelength(s) | 1.12709 |
Spacegroup name | P 32 2 1 |
Unit cell lengths | 181.364, 181.364, 94.983 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 39.266 - 2.300 |
R-factor | 0.1827 |
Rwork | 0.182 |
R-free | 0.20470 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 2biw |
RMSD bond length | 0.002 |
RMSD bond angle | 0.615 |
Data reduction software | XDS |
Data scaling software | Aimless (0.1.26) |
Phasing software | PHASER (2.5.6) |
Refinement software | PHENIX (1.11.1_2575) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 39.270 | 39.270 | 2.350 |
High resolution limit [Å] | 2.300 | 11.730 | 2.300 |
Rmerge | 0.145 | 0.024 | 1.465 |
Rmeas | 0.151 | 0.025 | 1.525 |
Rpim | 0.041 | 0.007 | 0.421 |
Number of reflections | 155094 | 650 | 4451 |
<I/σ(I)> | 19 | ||
Completeness [%] | 99.9 | 97.1 | 98.4 |
Redundancy | 13.4 | 12.3 | 13 |
CC(1/2) | 0.998 | 1.000 | 0.703 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 293 | 0.2 M tri-potassium citrate, 20% PEG3350 (v/v) |