› 3plf

X-ray diffraction
1.92Å resolution

Reverse Binding Mode of MetRD peptide complexed with c-Cbl TKB domain

Released:
DOI: 10.2210/pdb3plf/pdb
PDB entry 3plf coloured by chain, front view.
PDB entry 3plf coloured by chain, side view.
PDB entry 3plf coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
An adjacent arginine, and the phosphorylated tyrosine in the c-Met receptor target sequence, dictates the orientation of c-Cbl binding.
Sun Q, Ng C, Guy GR, Sivaraman J
FEBS Lett 585 281-5 (2011)
PMID: 21163258

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149763 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
MetRD peptide Chains: A, C
Molecule details ›
Chains: A, C
Length: 11 amino acids
Theoretical weight: 1.38 KDa
Source organism: Homo sapiens
Expression system: Not provided
E3 ubiquitin-protein ligase CBL Chains: B, D
Molecule details ›
Chains: B, D
Length: 329 amino acids
Theoretical weight: 38.19 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P22681 (Residues: 25-351; Coverage: 36%)
Gene names: CBL, CBL2, RNF55
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand CA 2 x CA
Ligand CL 4 x CL
1 modified residue:
Ligand PTR 2 x PTR

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR
Spacegroup: P21
Unit cell:
a: 52.743Å b: 104.483Å c: 60.548Å
α: 90° β: 90.19° γ: 90°
R-values:
R R work R free
0.16 0.159 0.18
Expression systems:
  • Not provided
  • Escherichia coli

Quick links

Citations

6 citation in other articles

Discovery of novel 4-(2-fluorophenoxy)quinoline derivatives bearing 4-oxo-1,4-dihydrocinnoline-3-carboxamide moiety as c-Met kinase inhibitors.
Li et al. (2013)
5 more

1 mention without citation

ScaffComb: A Phenotype-Based Framework for Drug Combination Virtual Screening in Large-Scale Chemical Datasets.
Ye et al. (2021)