› 5a31

Electron Microscopy
4.3Å resolution

Structure of the human APC-Cdh1-Hsl1-UbcH10 complex.

Released:
DOI: 10.2210/pdb5a31/pdb
PDB entry 5a31 coloured by chain, front view.
PDB entry 5a31 coloured by chain, side view.
PDB entry 5a31 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Atomic structure of the APC/C and its mechanism of protein ubiquitination.
Chang L, Zhang Z, Yang J, McLaughlin SH, Barford D
Nature 522 450-454 (2015)
PMID: 26083744
Related structures: EMD-2925

Function and Biology Details

Reactions catalysed: 
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine
(1a) S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [(E3-independent) E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-monoubiquitinyl-[(E3-independent) ubiquitin-conjugating enzyme]-L-cysteine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 24-mer (preferred)
PDBe Complex ID:
PDB-CPX-126386 (preferred)
Entry contents:
20 distinct polypeptide molecules
Macromolecules (20 distinct):
Anaphase-promoting complex subunit 1 Chain: A
Molecule details ›
Chain: A
Length: 1441 amino acids
Theoretical weight: 159.62 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9H1A4 (Residues: 11-1897; Coverage: 73%)
Gene names: ANAPC1, TSG24
Sequence domains:
Anaphase-promoting complex subunit 11 Chain: B
Molecule details ›
Chain: B
Length: 84 amino acids
Theoretical weight: 9.87 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9NYG5 (Residues: 1-84; Coverage: 100%)
Gene names: ANAPC11, HSPC214
Sequence domains: Anaphase-promoting complex subunit 11 RING-H2 finger
Cell division cycle protein 23 homolog Chains: C, P
Molecule details ›
Chains: C, P
Length: 597 amino acids
Theoretical weight: 68.91 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UJX2 (Residues: 1-597; Coverage: 100%)
Gene names: ANAPC8, CDC23
Sequence domains: Anaphase promoting complex subunit 8 / Cdc23
Anaphase-promoting complex subunit 15 Chain: D
Molecule details ›
Chain: D
Length: 121 amino acids
Theoretical weight: 14.3 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P60006 (Residues: 6-121; Coverage: 96%)
Gene names: ANAPC15, C11orf51, HSPC020
Sequence domains: Anaphase-promoting complex subunit 15
Anaphase-promoting complex subunit 16 Chain: E
Molecule details ›
Chain: E
Length: 110 amino acids
Theoretical weight: 11.68 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
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: F, H
Molecule details ›
Chains: F, H
Length: 824 amino acids
Theoretical weight: 92.01 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P30260 (Residues: 1-824; Coverage: 100%)
Gene names: ANAPC3, CDC27, D0S1430E, D17S978E
Sequence domains:
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: Trichoplusia ni
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 4 Chain: I
Molecule details ›
Chain: I
Length: 808 amino acids
Theoretical weight: 92.21 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UJX5 (Residues: 1-808; Coverage: 100%)
Gene names: ANAPC4, APC4
Sequence domains:
Cell division cycle protein 16 homolog Chain: J
Molecule details ›
Chain: J
Length: 620 amino acids
Theoretical weight: 71.63 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q13042 (Residues: 1-620; Coverage: 100%)
Gene names: ANAPC6, CDC16
Sequence domains:
Cell division cycle protein 16 homolog Chain: K
Molecule details ›
Chain: K
Length: 620 amino acids
Theoretical weight: 71.81 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q13042 (Residues: 1-620; Coverage: 100%)
Gene names: ANAPC6, CDC16
Sequence domains:
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: Trichoplusia ni
UniProt:
  • Canonical: Q9UM13 (Residues: 1-185; Coverage: 100%)
Gene names: ANAPC10, APC10
Sequence domains: Anaphase-promoting complex, subunit 10 (APC10)
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: Trichoplusia ni
UniProt:
  • Canonical: Q9BS18 (Residues: 1-74; Coverage: 100%)
Gene name: ANAPC13
Sequence domains: Apc13p protein
Anaphase-promoting complex subunit 2 Chain: N
Molecule details ›
Chain: N
Length: 703 amino acids
Theoretical weight: 79.12 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UJX6 (Residues: 74-818; Coverage: 82%)
Gene names: ANAPC2, APC2, KIAA1406
Sequence domains:
Anaphase-promoting complex subunit 5 Chain: O
Molecule details ›
Chain: O
Length: 755 amino acids
Theoretical weight: 85.09 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UJX4 (Residues: 1-755; Coverage: 100%)
Gene names: ANAPC5, APC5
Sequence domains:
Ubiquitin-conjugating enzyme E2 C Chain: Q
Molecule details ›
Chain: Q
Length: 162 amino acids
Theoretical weight: 17.79 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O00762 (Residues: 29-173; Coverage: 81%)
Gene names: UBCH10, UBE2C
Sequence domains: Ubiquitin-conjugating enzyme
APC/C activator protein CDH1 Chain: R
Molecule details ›
Chain: R
Length: 386 amino acids
Theoretical weight: 42.94 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P53197 (Residues: 169-209, 210-546; Coverage: 66%)
Gene names: CDH1, HCT1, YGL003C
Sequence domains: WD domain, G-beta repeat
THE ANAPHASE-PROMOTING COMPLEX CHAIN T Chain: T
Molecule details ›
Chain: T
Length: 21 amino acids
Theoretical weight: 1.88 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
THE ANAPHASE-PROMOTING COMPLEX CHAIN U Chain: U
Molecule details ›
Chain: U
Length: 24 amino acids
Theoretical weight: 2.06 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
THE ANAPHASE-PROMOTING COMPLEX CHAIN V Chain: V
Molecule details ›
Chain: V
Length: 13 amino acids
Theoretical weight: 1.42 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
Anaphase-promoting complex subunit 7 Chains: X, Y
Molecule details ›
Chains: X, Y
Length: 599 amino acids
Theoretical weight: 66.83 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UJX3 (Residues: 1-565; Coverage: 100%)
Gene names: ANAPC7, APC7
Sequence domains: Tetratricopeptide repeat

Ligands and Environments

1 bound ligand:
Ligand ZN 3 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.3Å
Relevant EMDB volumes: EMD-2925
Expression system: Trichoplusia ni

Quick links

Citations

27 review citations

The Molecular Biology of Spindle Assembly Checkpoint Signaling Dynamics.
Musacchio A. (2015)
26 more

7 mentions without citation

Visualizing the complex functions and mechanisms of the anaphase promoting complex/cyclosome (APC/C).
Alfieri et al. (2017)
6 more