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8P4V

80S yeast ribosome in complex with HaterumaimideQ

This is a non-PDB format compatible entry.
Experimental procedure
Experimental methodSINGLE WAVELENGTH
Source typeSYNCHROTRON
Source detailsSLS BEAMLINE X10SA
Synchrotron siteSLS
BeamlineX10SA
Temperature [K]100
Detector technologyPIXEL
Collection date2022-05-10
DetectorDECTRIS EIGER X 16M
Wavelength(s)1
Spacegroup nameP 1 21 1
Unit cell lengths302.580, 285.050, 433.720
Unit cell angles90.00, 98.89, 90.00
Refinement procedure
Resolution206.300 - 3.160
R-factor0.2237
Rwork0.223
R-free0.25050
Structure solution methodMOLECULAR REPLACEMENT
RMSD bond length0.008
RMSD bond angle1.244
Data reduction softwareXDS
Data scaling softwareXSCALE
Phasing softwarePHENIX
Refinement softwarePHENIX (1.20.1_4487)
Data quality characteristics
 OverallOuter shell
Low resolution limit [Å]210.0003.270
High resolution limit [Å]3.1603.160
Rmerge0.124
Rmeas0.176
Number of reflections24094671215791
<I/σ(I)>300.7
Completeness [%]98.298.2
Redundancy7
CC(1/2)0.9800.200
Crystallization Conditions
crystal IDmethodpHtemperaturedetails
1VAPOR DIFFUSION, HANGING DROP277.15ll lissoclimides/80S complexes were formed in 5.5 mM Tris-acetate at pH 7.0, 3 mM K(OAc) at pH 7.2, 5.5 mM NH4(OAc), 2 mM Mg(OAc)2, 1.3 mM DTT by incubation of 80S ribosomes (1.5 uM) with 30-fold molar excess of lissoclimide congeners for 15 min at 30 C. Crystals were grown at 4 C by hanging-drop vapor diffusion

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PDB entries from 2026-01-28

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