› 3buw

X-ray diffraction
1.45Å resolution

Crystal structure of c-Cbl-TKB domain complexed with its binding motif in Syk

Released:
DOI: 10.2210/pdb3buw/pdb
PDB entry 3buw coloured by chain, front view.
PDB entry 3buw coloured by chain, side view.
PDB entry 3buw coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for a novel intrapeptidyl H-bond and reverse binding of c-Cbl-TKB domain substrates.
Ng C, Jackson RA, Buschdorf JP, Sun Q, Guy GR, Sivaraman J
EMBO J 27 804-16 (2008)
PMID: 18273061

Function and Biology Details

Reactions catalysed: 
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
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 domains:

Structure analysis Details

Assemblies composition:
monomeric
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149761 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Tyrosine-protein kinase SYK Chains: A, C
Molecule details ›
Chains: A, C
Length: 13 amino acids
Theoretical weight: 1.54 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P43405 (Residues: 317-329; Coverage: 2%)
Gene name: SYK
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: 23-351; Coverage: 36%)
Gene names: CBL, CBL2, RNF55
Sequence domains:
Structure domains:

Ligands and Environments

No bound ligands
1 modified residue:
Ligand PTR 2 x PTR

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P21
Unit cell:
a: 63.793Å b: 104.809Å c: 52.778Å
α: 90° β: 89.83° γ: 90°
R-values:
R R work R free
0.224 0.224 0.238
Expression systems:
  • Not provided
  • Escherichia coli

Quick links

Citations

11 review citations

Protein tyrosine kinase regulation by ubiquitination: critical roles of Cbl-family ubiquitin ligases.
Mohapatra et al. (2013)
10 more

3 mentions without citation

Structural basis for a novel intrapeptidyl H-bond and reverse binding of c-Cbl-TKB domain substrates.
Ng et al. (2008)
2 more