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5F4V

Crystal structure of the human sperm Izumo1 residues 22-268

Experimental procedure
Experimental methodSINGLE WAVELENGTH
Source typeSYNCHROTRON
Source detailsCLSI BEAMLINE 08ID-1
Synchrotron siteCLSI
Beamline08ID-1
Temperature [K]100
Detector technologyCCD
Collection date2015-04-30
DetectorRAYONIX MX-300
Wavelength(s)0.97949
Spacegroup nameH 3
Unit cell lengths121.300, 121.300, 53.400
Unit cell angles90.00, 90.00, 120.00
Refinement procedure
Resolution47.603 - 2.900
R-factor0.1907
Rwork0.188
R-free0.23180
Structure solution methodMOLECULAR REPLACEMENT
Starting model (for MR)5f4e
RMSD bond length0.012
RMSD bond angle1.270
Data reduction softwareXDS
Data scaling softwareAimless (0.5.8)
Phasing softwarePHASER
Refinement softwarePHENIX (1.9_1692)
Data quality characteristics
 OverallInner shellOuter shell
Low resolution limit [Å]47.60347.6003.080
High resolution limit [Å]2.9008.7002.900
Rmerge0.1200.0410.526
Rpim0.0550.0190.239
Total number of observations3735013515979
Number of reflections6484
<I/σ(I)>12.933.23.7
Completeness [%]100.099.4100
Redundancy5.85.75.8
CC(1/2)0.9960.9980.889
Crystallization Conditions
crystal IDmethodpHtemperaturedetails
1VAPOR DIFFUSION, SITTING DROP7.52950.085 M HEPES sodium salt (pH 7.5), 8.5% (v/v) isopropanol, 17% (w/v) PEG 4000 and 15% (v/v) glycerol

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PDB entries from 2024-04-17

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