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- EMDB-2204: APC15 mediates CDC20 auto-ubiquitylation by APC/CMCC and MCC disa... -

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Basic information

Entry
Database: EMDB / ID: EMD-2204
TitleAPC15 mediates CDC20 auto-ubiquitylation by APC/CMCC and MCC disassembly
Map datareconstruction of a recombinant human APC/C
Sample
  • Sample: anaphase promoting complex (APC/C)
  • Protein or peptide: Anaphase promoting ComplexAnaphase-promoting complex
KeywordsMCC disassembly / APC/C / recombinant / apc15 / cdc20
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / negative staining / Resolution: 30.0 Å
AuthorsUzunova K / Dye BT / Schutz H / Ladurner R / Petzold G / Toyoda Y / Jarvis MA / Brown MG / Poser I / Novatchkova M ...Uzunova K / Dye BT / Schutz H / Ladurner R / Petzold G / Toyoda Y / Jarvis MA / Brown MG / Poser I / Novatchkova M / Mechtler K / Hyman AA / Stark H / Schulman BA / Peters JM
CitationJournal: Nat Struct Mol Biol / Year: 2012
Title: APC15 mediates CDC20 autoubiquitylation by APC/C(MCC) and disassembly of the mitotic checkpoint complex.
Authors: Kristina Uzunova / Billy T Dye / Hannelore Schutz / Rene Ladurner / Georg Petzold / Yusuke Toyoda / Marc A Jarvis / Nicholas G Brown / Ina Poser / Maria Novatchkova / Karl Mechtler / Anthony ...Authors: Kristina Uzunova / Billy T Dye / Hannelore Schutz / Rene Ladurner / Georg Petzold / Yusuke Toyoda / Marc A Jarvis / Nicholas G Brown / Ina Poser / Maria Novatchkova / Karl Mechtler / Anthony A Hyman / Holger Stark / Brenda A Schulman / Jan-Michael Peters /
Abstract: The anaphase-promoting complex/cyclosome (APC/C) bound to CDC20 (APC/C(CDC20)) initiates anaphase by ubiquitylating B-type cyclins and securin. During chromosome bi-orientation, CDC20 assembles with ...The anaphase-promoting complex/cyclosome (APC/C) bound to CDC20 (APC/C(CDC20)) initiates anaphase by ubiquitylating B-type cyclins and securin. During chromosome bi-orientation, CDC20 assembles with MAD2, BUBR1 and BUB3 into a mitotic checkpoint complex (MCC) that inhibits substrate recruitment to the APC/C. APC/C activation depends on MCC disassembly, which was proposed to require CDC20 autoubiquitylation. Here we characterize APC15, a human APC/C subunit related to yeast Mnd2. APC15 is located near APC/C's MCC binding site; it is required for APC/C-bound MCC (APC/C(MCC))-dependent CDC20 autoubiquitylation and degradation and for timely anaphase initiation but is dispensable for substrate ubiquitylation by APC/C(CDC20) and APC/C(CDH1). Our results support the model wherein MCC is continuously assembled and disassembled to enable rapid activation of APC/C(CDC20) and CDC20 autoubiquitylation promotes MCC disassembly. We propose that APC15 and Mnd2 negatively regulate APC/C coactivators and report generation of recombinant human APC/C.
History
DepositionSep 13, 2012-
Header (metadata) releaseSep 19, 2012-
Map releaseSep 19, 2012-
UpdateMar 26, 2014-
Current statusMar 26, 2014Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.08
  • Imaged by UCSF Chimera
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  • Surface view colored by radius
  • Surface level: 0.08
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_2204.jpg

Downloads & links

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Map

FileDownload / File: emd_2204.map.gz / Format: CCP4 / Size: 1.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationreconstruction of a recombinant human APC/C
Voxel sizeX=Y=Z: 5 Å
Density
Contour LevelBy AUTHOR: 0.08 / Movie #1: 0.08
Minimum - Maximum-0.36213174 - 0.8927781
Average (Standard dev.)0.00519492 (±0.07254813)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions808080
Spacing808080
CellA=B=C: 400.0 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z555
M x/y/z808080
origin x/y/z0.0000.0000.000
length x/y/z400.000400.000400.000
α/β/γ90.00090.00090.000
start NX/NY/NZ-184-184-183
NX/NY/NZ368368368
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS808080
D min/max/mean-0.3620.8930.005

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Supplemental data

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Sample components

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Entire : anaphase promoting complex (APC/C)

EntireName: anaphase promoting complex (APC/C)
Components
  • Sample: anaphase promoting complex (APC/C)
  • Protein or peptide: Anaphase promoting ComplexAnaphase-promoting complex

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Supramolecule #1000: anaphase promoting complex (APC/C)

SupramoleculeName: anaphase promoting complex (APC/C) / type: sample / ID: 1000 / Number unique components: 1
Molecular weightExperimental: 1.5 MDa

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Macromolecule #1: Anaphase promoting Complex

MacromoleculeName: Anaphase promoting Complex / type: protein_or_peptide / ID: 1 / Name.synonym: APC/C / Recombinant expression: Yes
Source (natural)Organism: Homo sapiens (human) / synonym: Human
Molecular weightExperimental: 1.5 MDa

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Experimental details

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Structure determination

Methodnegative staining
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.6 / Details: 20 mM Tris, pH 7.6, 150 mM NaCl, 1 mM DTT
StainingType: NEGATIVE / Details: Uranyl Formate
VitrificationCryogen name: NONE / Instrument: OTHER

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Electron microscopy

MicroscopeFEI/PHILIPS CM200FEG
Electron beamAcceleration voltage: 160 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2 mm / Nominal magnification: 88000
Sample stageSpecimen holder model: SIDE ENTRY, EUCENTRIC
DateJan 12, 2011
Image recordingCategory: CCD / Film or detector model: GENERIC CCD / Average electron dose: 20 e/Å2

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Image processing

Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Algorithm: OTHER / Resolution.type: BY AUTHOR / Resolution: 30.0 Å / Resolution method: FSC 0.5 CUT-OFF / Software - Name: Imagic / Number images used: 8438

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