2P7F
The Novel Use of a 2',5'-Phosphodiester Linkage as a Reaction Intermediate at the Active Site of a Small Ribozyme
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SSRL BEAMLINE BL11-1 |
| Synchrotron site | SSRL |
| Beamline | BL11-1 |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Collection date | 2006-04-21 |
| Detector | ADSC QUANTUM 315 |
| Wavelength(s) | 0.97945 |
| Spacegroup name | P 61 2 2 |
| Unit cell lengths | 94.100, 94.100, 127.200 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 29.380 - 2.350 |
| R-factor | 0.226 |
| Rwork | 0.227 |
| R-free | 0.25200 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 1ZFR |
| RMSD bond length | 0.008 |
| RMSD bond angle | 1.400 |
| Data reduction software | CrystalClear |
| Data scaling software | CrystalClear |
| Phasing software | CNS |
| Refinement software | CNS |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 40.760 | 2.430 |
| High resolution limit [Å] | 2.350 | 2.350 |
| Number of reflections | 14321 | |
| <I/σ(I)> | 19.6 | 2.9 |
| Completeness [%] | 99.1 | 99.1 |
| Redundancy | 5.92 | 5.32 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7 | 293 | 250 mM Li2SO4, 2.5 mM [Co(NH3)6]Cl3, 2 mM spermidine-HCl, 15 mM nicotinic acid, 100 mM sodium HEPES buffer and 20.5% PEG 2000 MME, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | Li2SO4 | ||
| 10 | 1 | 2 | sodium HEPES | ||
| 2 | 1 | 1 | [Co(NH3)6]Cl3 | ||
| 3 | 1 | 1 | spermidine-HCl | ||
| 4 | 1 | 1 | nicotinic acid | ||
| 5 | 1 | 1 | sodium HEPES | ||
| 6 | 1 | 1 | PEG 2000 MME | ||
| 7 | 1 | 2 | Li2SO4 | ||
| 8 | 1 | 2 | spermidine-HCl | ||
| 9 | 1 | 2 | PEG 2000 MME |
