› 6vme

X-ray diffraction
2.19Å resolution

Human ESCRT-I heterotetramer headpiece

Released:
DOI: 10.2210/pdb6vme/pdb
PDB entry 6vme coloured by chain, front view.
PDB entry 6vme coloured by chain, side view.
PDB entry 6vme coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A helical assembly of human ESCRT-I scaffolds reverse-topology membrane scission.
Flower TG, Takahashi Y, Hudait A, Rose K, Tjahjono N, Pak AJ, Yokom AL, Liang X, Wang HG, Bouamr F, Voth GA, Hurley JH
Nat Struct Mol Biol 27 570-580 (2020)
PMID: 32424346

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-188480 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Tumor susceptibility gene 101 protein Chains: B, F, G, H, I, J
Molecule details ›
Chains: B, F, G, H, I, J
Length: 81 amino acids
Theoretical weight: 9.34 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q99816 (Residues: 308-388; Coverage: 21%)
Gene name: TSG101
Sequence domains: Vps23 core domain
Vacuolar protein sorting-associated protein 37B Chains: C, K, L, M, N, O
Molecule details ›
Chains: C, K, L, M, N, O
Length: 71 amino acids
Theoretical weight: 8.06 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9H9H4 (Residues: 97-167; Coverage: 25%)
Gene name: VPS37B
Sequence domains: Modifier of rudimentary (Mod(r)) protein
Multivesicular body subunit 12A Chains: A, D, P, Q, R, T
Molecule details ›
Chains: A, D, P, Q, R, T
Length: 25 amino acids
Theoretical weight: 2.66 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q96EY5 (Residues: 206-228; Coverage: 8%)
Gene names: CFBP, FAM125A, MVB12A
Vacuolar protein sorting-associated protein 28 homolog Chains: E, U, V, W, X, Y
Molecule details ›
Chains: E, U, V, W, X, Y
Length: 122 amino acids
Theoretical weight: 13.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9UK41 (Residues: 1-122; Coverage: 55%)
Gene name: VPS28
Sequence domains: VPS28 protein

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P61
Unit cell:
a: 162.584Å b: 162.584Å c: 139.715Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.194 0.193 0.24
Expression system: Escherichia coli BL21

Quick links

Citations

15 review citations

Autophagosome biogenesis comes out of the black box.
Chang et al. (2021)
14 more

3 mentions without citation

A helical assembly of human ESCRT-I scaffolds reverse-topology membrane scission.
Flower et al. (2020)
2 more