4BK4
crystal structure of the human EphA4 ectodomain
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I24 |
Synchrotron site | Diamond |
Beamline | I24 |
Temperature [K] | 100 |
Spacegroup name | P 32 2 1 |
Unit cell lengths | 166.890, 166.890, 192.090 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 48.180 - 3.650 |
R-factor | 0.3513 |
Rwork | 0.349 |
R-free | 0.38580 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 2x10 |
RMSD bond length | 0.007 |
RMSD bond angle | 0.850 |
Data reduction software | xia2 |
Data scaling software | xia2 |
Phasing software | PHASER |
Refinement software | BUSTER (2.11.2) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 83.000 | 3.700 |
High resolution limit [Å] | 3.650 | 3.650 |
Rmerge | 0.190 | |
Number of reflections | 34863 | |
<I/σ(I)> | 14.7 | 0.48 |
Completeness [%] | 99.9 | 100 |
Redundancy | 20 | 20 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | 1.8 M AMMONIUM PHOSPHATE, 100 MM HEPES PH 7.4, ADDITIVE = EPHRINB2 IN A 1:1 MOLAR RATIO. WE SAW NO SIGN OF EPHRINB2 IN THE CRYSTAL STRUCTURE. THE USUAL BINDING SITE ON HEPHA4 WAS OCCUPIED BY AN EPHA4-EPHA4 CRYSTAL CONTACT. | |||
1 | 1.8 M AMMONIUM PHOSPHATE, 100 MM HEPES PH 7.4, ADDITIVE = EPHRINB2 IN A 1:1 MOLAR RATIO. WE SAW NO SIGN OF EPHRINB2 IN THE CRYSTAL STRUCTURE. THE USUAL BINDING SITE ON HEPHA4 WAS OCCUPIED BY AN EPHA4-EPHA4 CRYSTAL CONTACT. |