PDBe 5khr

Electron Microscopy
6.1Å resolution

Model of human Anaphase-promoting complex/Cyclosome complex (APC15 deletion mutant) in complex with the E2 UBE2C/UBCH10 poised for ubiquitin ligation to substrate (APC/C-CDC20-substrate-UBE2C)

Released:

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
ATP + a protein = ADP + a phosphoprotein
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero 21-mer (preferred)
Entry contents:
16 distinct polypeptide molecules
Macromolecules (16 distinct):
Anaphase-promoting complex subunit 1 Chain: A
Molecule details ›
Chain: A
Length: 1944 amino acids
Theoretical weight: 216.73 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW Q9H1A4 (Residues: 1-1944; Coverage: 100%)
Gene names: ANAPC1, TSG24
Sequence domains:
Anaphase-promoting complex subunit 11 Chain: B
Molecule details ›
Chain: B
Length: 84 amino acids
Theoretical weight: 9.85 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW 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: 68.92 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW Q9UJX2 (Residues: 1-597; Coverage: 100%)
Gene names: ANAPC8, CDC23
Sequence domains: Anaphase promoting complex subunit 8 / Cdc23
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: NEW 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: 91.97 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW 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: NEW 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: 818 amino acids
Theoretical weight: 93.21 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW Q9UJX5 (Residues: 1-808; Coverage: 100%)
Gene names: ANAPC4, APC4
Sequence domains:
Cell division cycle protein 16 homolog Chains: J, K
Molecule details ›
Chains: J, K
Length: 620 amino acids
Theoretical weight: 71.75 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW 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: NEW 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: NEW 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: 822 amino acids
Theoretical weight: 94.02 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW Q9UJX6 (Residues: 1-822; Coverage: 100%)
Gene names: ANAPC2, APC2, KIAA1406
Sequence domains:
Anaphase-promoting complex subunit 5 Chain: O
Molecule details ›
Chain: O
Length: 755 amino acids
Theoretical weight: 85.25 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW Q9UJX4 (Residues: 1-755; Coverage: 100%)
Gene names: ANAPC5, APC5
Sequence domains: Anaphase-promoting complex subunit 5
Ubiquitin-conjugating enzyme E2 C Chain: Q
Molecule details ›
Chain: Q
Length: 190 amino acids
Theoretical weight: 20.75 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW O00762 (Residues: 1-179; Coverage: 100%)
Gene names: UBCH10, UBE2C
Sequence domains: Ubiquitin-conjugating enzyme
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: Trichoplusia ni
UniProt:
  • Canonical: NEW Q12834 (Residues: 1-499; Coverage: 100%)
Gene name: CDC20
Sequence domains:
Probable serine/threonine-protein kinase HSL1 Chain: S
Molecule details ›
Chain: S
Length: 33 amino acids
Theoretical weight: 3.78 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided
UniProt:
  • Canonical: NEW P34244 (Residues: 774-837; Coverage: 2%)
Gene names: HSL1, YKL101W, YKL453
Anaphase-promoting complex subunit 7 Chains: X, Y
Molecule details ›
Chains: X, Y
Length: 565 amino acids
Theoretical weight: 63.2 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: NEW Q9UJX3 (Residues: 35-599; Coverage: 94%)
Gene names: ANAPC7, APC7
Sequence domains:

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 6.1Å
Relevant EMDB volumes: EMD-4025
Expression systems:
  • Trichoplusia ni
  • Not provided