357D
3.5 A structure of fragment I from E. coli 5S RRNA
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | NSLS BEAMLINE X4A |
Synchrotron site | NSLS |
Beamline | X4A |
Temperature [K] | 100 |
Detector technology | IMAGE PLATE |
Collection date | 1996-04-30 |
Detector | FUJI |
Spacegroup name | P 61 2 2 |
Unit cell lengths | 58.670, 58.670, 248.840 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 10.000 - 3.500 |
R-factor | 0.312 |
Rwork | 0.312 |
R-free | 0.26500 |
Structure solution method | MAD PHASES FROM A BROMINE WERE COMBINED WITH MAD AND SIRAS PHASES FROM A MERCURY DERIVIATIVE. MLPHARE WAS USED TO CALCULATE THE PHASES WHILE SIGMAA WAS USED TO COMBINE THE THREE PHASES SETS. |
RMSD bond length | 0.008 * |
RMSD bond angle | 1.400 * |
Data reduction software | DENZO |
Data scaling software | SCALEPACK |
Phasing software | CCP4 |
Refinement software | CNS |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 10.000 * | 3.620 |
High resolution limit [Å] | 3.500 | 3.500 |
Rmerge | 0.057 | 0.291 |
Total number of observations | 29667 * | |
Number of reflections | 3602 * | |
<I/σ(I)> | 11.3 | 3.7 |
Completeness [%] | 99.5 * | 95.1 |
Redundancy | 4.9 | 4.5 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION | 6 * | 20 * | pH 6.40, VAPOR DIFFUSION |
Crystallization Reagents
ID | crystal ID | solution ID | reagent name | concentration | details |
1 | 1 | 1 | WATER | ||
2 | 1 | 1 | MGCL2 | ||
3 | 1 | 1 | NA MES | ||
4 | 1 | 1 | MG SULFATE |
Crystallization Reagents in Literatures
ID | crystal ID | solution | reagent name | concentration (unit) | details |
1 | 1 | drop | protein | 0.2 (mM) | |
2 | 1 | drop | 5 (mM) | ||
3 | 1 | drop | sodium cacodylate | 50 (mM) | |
4 | 1 | reservoir | MPD | 5-25 (%) | |
5 | 1 | reservoir | 5-25 (mM) | ||
6 | 1 | reservoir | sodium cacodylate | 5-25 (mM) |