5YG7
Crystal structure of ribose-1,5-bisphosphate isomerase mutant D204N from Pyrococcus horikoshii OT3 in complex with ribose-1,5-bisphosphate and GMP
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | ROTATING ANODE |
Source details | RIGAKU MICROMAX-007 HF |
Temperature [K] | 100 |
Detector technology | IMAGE PLATE |
Collection date | 2017-02-19 |
Detector | RIGAKU RAXIS IV++ |
Wavelength(s) | 1.5418 |
Spacegroup name | P 31 1 2 |
Unit cell lengths | 99.160, 99.160, 257.041 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 85.870 - 2.500 |
R-factor | 0.1761 |
Rwork | 0.173 |
R-free | 0.22610 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5yfj |
RMSD bond length | 0.015 |
RMSD bond angle | 1.799 |
Data reduction software | MOSFLM (7.2.1) |
Data scaling software | Aimless (0.5.28) |
Phasing software | PHASER (2.6.1) |
Refinement software | REFMAC (5.8.0155) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 85.870 | 2.580 | |
High resolution limit [Å] | 2.500 | 2.500 | |
Rmerge | 0.085 | 0.534 | 0.032 |
Rmeas | 0.090 | 0.563 | 0.033 |
Rpim | 0.029 | 0.172 | 0.009 |
Number of reflections | 46864 | 4020 | 866 |
<I/σ(I)> | 17.6 | 3.7 | |
Completeness [%] | 92.7 | 87.9 | 100 |
Redundancy | 8.7 | 9.1 | 14 |
CC(1/2) | 0.999 | 0.927 | 1.000 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 293 | 0.7 M NaCl, 3% PEG 6000, 20% MPD, 0.1% Low Melting Agarose |