› 6o60

X-ray diffraction
2.5Å resolution

Crystal structure of GGTase3-FBXL2-SKP1 complex

Released:
DOI: 10.2210/pdb6o60/pdb
PDB entry 6o60 coloured by chain, front view.
PDB entry 6o60 coloured by chain, side view.
PDB entry 6o60 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
GGTase3 is a newly identified geranylgeranyltransferase targeting a ubiquitin ligase.
Kuchay S, Wang H, Marzio A, Jain K, Homer H, Fehrenbacher N, Philips MR, Zheng N, Pagano M
Nat Struct Mol Biol 26 628-636 (2019)
PMID: 31209342

Function and Biology Details

Reaction catalysed: 
Geranylgeranyl diphosphate + protein-cysteine = S-geranylgeranyl-protein + diphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-156828 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Protein prenyltransferase alpha subunit repeat-containing protein 1 Chain: A
Molecule details ›
Chain: A
Length: 407 amino acids
Theoretical weight: 46.81 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q7Z6K3 (Residues: 1-402; Coverage: 100%)
Gene name: PTAR1
Sequence domains: Protein prenyltransferase alpha subunit repeat
Geranylgeranyl transferase type-2 subunit beta Chain: B
Molecule details ›
Chain: B
Length: 332 amino acids
Theoretical weight: 37.05 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P53611 (Residues: 1-331; Coverage: 100%)
Gene names: GGTB, RABGGTB
Sequence domains: Prenyltransferase and squalene oxidase repeat
F-box/LRR-repeat protein 2 Chain: C
Molecule details ›
Chain: C
Length: 424 amino acids
Theoretical weight: 47.21 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9UKC9 (Residues: 1-423; Coverage: 100%)
Gene names: FBL2, FBL3, FBXL2
Sequence domains:
S-phase kinase-associated protein 1 Chain: D
Molecule details ›
Chain: D
Length: 164 amino acids
Theoretical weight: 18.77 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P63208 (Residues: 1-163; Coverage: 100%)
Gene names: EMC19, OCP2, SKP1, SKP1A, TCEB1L
Sequence domains:

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.1
Spacegroup: P212121
Unit cell:
a: 86.843Å b: 99.318Å c: 151.202Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.194 0.247
Expression system: Trichoplusia ni

Quick links

Citations

14 review citations

Cullin-RING Ubiquitin Ligase Regulatory Circuits: A Quarter Century Beyond the F-Box Hypothesis.
Harper et al. (2021)
13 more

8 mentions without citation

Protein Prenyltransferases and Their Inhibitors: Structural and Functional Characterization.
Marchwicka et al. (2022)
7 more