› 6q6h

Electron Microscopy
3.2Å resolution

Cryo-EM structure of the APC/C-Cdc20-Cdk2-cyclinA2-Cks2 complex, the D2 box class

Released:
DOI: 10.2210/pdb6q6h/pdb
PDB entry 6q6h coloured by chain, front view.
PDB entry 6q6h coloured by chain, side view.
PDB entry 6q6h coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Cyclin A2 degradation during the spindle assembly checkpoint requires multiple binding modes to the APC/C.
Zhang S, Tischer T, Barford D
Nat Commun 10 3863 (2019)
PMID: 31455778
Related structures: EMD-4466

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 21-mer (preferred)
PDBe Complex ID:
PDB-CPX-148907 (preferred)
Entry contents:
16 distinct polypeptide molecules
Macromolecules (16 distinct):
Anaphase-promoting complex subunit 10 Chain: L
Molecule details ›
Chain: L
Length: 185 amino acids
Theoretical weight: 21.28 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9UM13 (Residues: 1-185; Coverage: 100%)
Gene names: ANAPC10, APC10
Sequence domains: Anaphase-promoting complex, subunit 10 (APC10)
Anaphase-promoting complex subunit 15 Chain: D
Molecule details ›
Chain: D
Length: 121 amino acids
Theoretical weight: 14.29 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: P60006 (Residues: 1-121; Coverage: 100%)
Gene names: ANAPC15, C11orf51, HSPC020
Sequence domains: Anaphase-promoting complex subunit 15
Anaphase-promoting complex subunit 1 Chain: A
Molecule details ›
Chain: A
Length: 1855 amino acids
Theoretical weight: 207.24 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9H1A4 (Residues: 1-1944; Coverage: 95%)
Gene names: ANAPC1, TSG24
Sequence domains:
Anaphase-promoting complex subunit 2 Chain: N
Molecule details ›
Chain: N
Length: 822 amino acids
Theoretical weight: 93.94 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9UJX6 (Residues: 1-822; Coverage: 100%)
Gene names: ANAPC2, APC2, KIAA1406
Sequence domains:
Anaphase-promoting complex subunit 4 Chain: I
Molecule details ›
Chain: I
Length: 808 amino acids
Theoretical weight: 92.22 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9UJX5 (Residues: 1-808; Coverage: 100%)
Gene names: ANAPC4, APC4
Sequence domains:
Anaphase-promoting complex subunit 5 Chain: O
Molecule details ›
Chain: O
Length: 755 amino acids
Theoretical weight: 85.18 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9UJX4 (Residues: 1-755; Coverage: 100%)
Gene names: ANAPC5, APC5
Sequence domains:
Cell division cycle protein 16 homolog Chains: K, Q
Molecule details ›
Chains: K, Q
Length: 620 amino acids
Theoretical weight: 71.75 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q13042 (Residues: 1-620; Coverage: 100%)
Gene names: ANAPC6, CDC16
Sequence domains:
Anaphase-promoting complex subunit 11 Chain: C
Molecule details ›
Chain: C
Length: 84 amino acids
Theoretical weight: 9.85 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9NYG5 (Residues: 1-84; Coverage: 100%)
Gene names: ANAPC11, HSPC214
Sequence domains: Anaphase-promoting complex subunit 11 RING-H2 finger
Anaphase-promoting complex subunit CDC26 Chains: G, W
Molecule details ›
Chains: G, W
Length: 85 amino acids
Theoretical weight: 9.79 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q8NHZ8 (Residues: 1-85; Coverage: 100%)
Gene names: ANAPC12, C9orf17, CDC26
Sequence domains: Anaphase-promoting complex APC subunit CDC26
Anaphase-promoting complex subunit 13 Chain: M
Molecule details ›
Chain: M
Length: 74 amino acids
Theoretical weight: 8.53 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9BS18 (Residues: 1-74; Coverage: 100%)
Gene name: ANAPC13
Sequence domains: Apc13p protein
Anaphase-promoting complex subunit 16 Chain: H
Molecule details ›
Chain: H
Length: 110 amino acids
Theoretical weight: 11.68 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q96DE5 (Residues: 1-110; Coverage: 100%)
Gene names: ANAPC16, C10orf104, CENP-27
Sequence domains: Anaphase-promoting complex, subunit 16
Cell division cycle protein 27 homolog Chains: J, P
Molecule details ›
Chains: J, P
Length: 824 amino acids
Theoretical weight: 91.97 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: P30260 (Residues: 1-824; Coverage: 100%)
Gene names: ANAPC3, CDC27, D0S1430E, D17S978E
Sequence domains:
Anaphase-promoting complex subunit 7 Chains: Y, Z
Molecule details ›
Chains: Y, Z
Length: 599 amino acids
Theoretical weight: 66.93 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9UJX3 (Residues: 1-565; Coverage: 100%)
Gene names: ANAPC7, APC7
Sequence domains: Tetratricopeptide repeat
Cell division cycle protein 23 homolog Chains: U, V
Molecule details ›
Chains: U, V
Length: 597 amino acids
Theoretical weight: 68.92 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q9UJX2 (Residues: 1-597; Coverage: 100%)
Gene names: ANAPC8, CDC23
Sequence domains: Anaphase promoting complex subunit 8 / Cdc23
Cell division cycle protein 20 homolog Chain: R
Molecule details ›
Chain: R
Length: 499 amino acids
Theoretical weight: 54.8 KDa
Source organism: Homo sapiens
Expression system: unidentified baculovirus
UniProt:
  • Canonical: Q12834 (Residues: 1-499; Coverage: 100%)
Gene name: CDC20
Sequence domains:
Cyclin-A2 Chain: S
Molecule details ›
Chain: S
Length: 394 amino acids
Theoretical weight: 44.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P20248 (Residues: 1-432; Coverage: 91%)
Gene names: CCN1, CCNA, CCNA2
Sequence domains:

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.2Å
Relevant EMDB volumes: EMD-4466
Expression systems:
  • unidentified baculovirus
  • Escherichia coli

Quick links

Citations

6 review citations

APC/C ubiquitin ligase: Functions and mechanisms in tumorigenesis.
Schrock et al. (2020)
5 more

2 mentions without citation

Structural investigation of CDCA3-Cdh1 protein-protein interactions using in vitro studies and molecular dynamics simulation.
Barbhuiya et al. (2023)
1 more