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Title:Structure of the chromatin remodelling enzyme Chd1 bound to a ubiquitinylated nucleosome
Authors:Sundaramoorthy R, Owen-hughes T, Norman DG, Hughes A
Sample:X. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1
Method:Single particle reconstruction (4.5 angstroms resolution)
Red flagLatest update:2018-10-17
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Sample
Sample name: X. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1
Components:
ID Type Name Exp. MW (MDa) Oligomeric details Recombinant expression Synthetic Organism UniProt identifier GO identifier InterPro identifier Virus identifier Details
1proteinX. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1false
2proteinX. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1falseXenopus laevis
3proteinX. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1falsesynthetic construct
4proteinX. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1falseSaccharomyces cerevisiae
5proteinX. laevis nucleosome pn 601 DNA with S.cerevisiae remodeller Chd1falseHomo sapiens
6proteinHistone H3falsePetromyzon marinus
7proteinHistone H4falseXenopus laevis
8proteinHistone H2A type 1falseXenopus laevis
9proteinHistone H2BfalseXenopus tropicalis
10proteinHistone H3.3CfalseXenopus laevis
11nucleic-acidDNA (159-MER)falsesynthetic construct
12nucleic-acidDNA (160-MER)falsesynthetic construct
13proteinPolyubiquitin-BfalseHomo sapiens
14proteinChromatin-remodeling ATPasefalseSaccharomyces cerevisiae
15ligandBERYLLIUM TRIFLUORIDE IONfalse
16ligandADENOSINE-5'-DIPHOSPHATEfalse
Experiment
Specimen state: Particle
Specimen preparation:
pHSpecimen conc.DetailsStainingSpecimen support details
7.51 mg/mL
Vitrification:
Cryogen nameHumidityTemp.Instr.MethodTime resolvedDetails
ETHANE100%277 KFEI VITROBOT MARK III ms
Imaging:
MicroscopeVoltageIllumination modeImaging modeCsDefocus min.Defocus max.Nominal mag.Calibrated mag.Electron sourceDetectorDetector distanceAstigmatism
FEI TITAN KRIOS300 kVFLOOD BEAMBRIGHT FIELD2.7 mm1500.0 nm4000.0 nm35714.035714.0FIELD EMISSION GUNGATAN K2 QUANTUM (4k x 4k) mm

Specimen holderHolder modelTilt min.Tilt max.Energy filterEnergy windowTemp.Temp. min.Temp. max.Beam tiltElectron doseOther detailsDate
FEI TITAN KRIOS AUTOGRID HOLDER°°GIF Quantum LS eV K170.0 K170.0 K mrad1.25 e/Å2
Processing
Protocol:FOURIER SPACE
Software:RELION
Number of particles:135000
Imposed symmetry:C1
Resolution by author:4.5 Å
Resolution method:FSC 0.143 CUT-OFF
Scanned images:
Num. imagesSampling sizeOD rangeQuant. bit numberOther detailsScanner
13005.0 μm/pixel
Fitting:
PDBProtocolTarget crit.SoftwareB valueFitting spacePDB chainDetails
flexibleCross-correlation coefficient204.0RECIPROCAL