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6TDB

Neuropilin2-b1 domain in a complex with the C-terminal VEGFB167 peptide

Experimental procedure
Experimental methodSINGLE WAVELENGTH
Source typeSYNCHROTRON
Source detailsDIAMOND BEAMLINE I03
Synchrotron siteDiamond
BeamlineI03
Temperature [K]100
Detector technologyPIXEL
Collection date2016-01-23
DetectorDECTRIS PILATUS3 S 6M
Wavelength(s)0.977
Spacegroup nameC 1 2 1
Unit cell lengths107.359, 140.122, 74.357
Unit cell angles90.00, 132.97, 90.00
Refinement procedure
Resolution70.060 - 2.450
R-factor0.1859
Rwork0.183
R-free0.24970
Structure solution methodMOLECULAR REPLACEMENT
Starting model (for MR)4rn5
RMSD bond length0.004
RMSD bond angle0.691
Data reduction softwareXDS
Data scaling softwareAimless
Phasing softwarePHASER
Refinement softwareREFMAC (1.14_3260)
Data quality characteristics
 OverallInner shellOuter shell
Low resolution limit [Å]70.06070.0602.580
High resolution limit [Å]2.4507.7502.450
Number of reflections291709284278
<I/σ(I)>10.6
Completeness [%]98.9
Redundancy3.4
CC(1/2)0.9960.9970.738
Crystallization Conditions
crystal IDmethodpHtemperaturedetails
1VAPOR DIFFUSION293N2b1-apo 0.05 M KCl, 0.01 M MgCl2 and 15 % (w/v) PEG600 N2b1/VEGFB167 0.1 M HEPES pH 7.5, 10 % (w/v) PEG4000, 20 % (w/v) isopropanol

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