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9D77

Crystal form of Netrin-1 mimics nanotubes

This is a non-PDB format compatible entry.
Experimental procedure
Experimental methodSINGLE WAVELENGTH
Source typeROTATING ANODE
Source detailsRIGAKU MICROMAX-007 HF
Temperature [K]100
Detector technologyIMAGE PLATE
Collection date2017-06-26
DetectorRIGAKU RAXIS IV++
Wavelength(s)1.54187
Spacegroup nameP 6
Unit cell lengths189.260, 189.260, 45.880
Unit cell angles90.00, 90.00, 120.00
Refinement procedure
Resolution35.770 - 3.400
Rwork0.297
R-free0.33480
Structure solution methodMOLECULAR REPLACEMENT
RMSD bond length0.007
RMSD bond angle1.847
Data reduction softwareXDS (Jun 30, 2023 BUILT=20230630)
Data scaling softwareXSCALE (Jun 30, 2023 BUILT=20230630)
Phasing softwarePHASER (2.8.3)
Refinement softwareREFMAC (5.8.0430)
Data quality characteristics
 OverallInner shellOuter shell
Low resolution limit [Å]35.77035.7704.200
High resolution limit [Å]3.4004.2003.400
Rmerge0.4120.3381.473
Rmeas0.4350.3571.553
Rpim0.1400.1160.488
Number of reflections918571112074
<I/σ(I)>4.95.81.9
Completeness [%]68.999.5133.53
Redundancy9.69.69.8
CC(1/2)0.9940.9950.583
Crystallization Conditions
crystal IDmethodpHtemperaturedetails
1VAPOR DIFFUSION, HANGING DROP6.529340% v/v 2-methyl-2,4-pentanediol; 5% w/v polyethylene glycol 8000; 100 mM 2-(N-morpholino)ethanesulfonic acid; pH 6.5

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