› 4xi6

X-ray diffraction
2.04Å resolution

Crystal structure of the MZM-REP domains of Mind bomb 1

Released:
DOI: 10.2210/pdb4xi6/pdb
PDB entry 4xi6 coloured by chain, front view.
PDB entry 4xi6 coloured by chain, side view.
PDB entry 4xi6 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A tail of two sites: a bipartite mechanism for recognition of notch ligands by mind bomb E3 ligases.
McMillan BJ, Schnute B, Ohlenhard N, Zimmerman B, Miles L, Beglova N, Klein T, Blacklow SC
Mol Cell 57 912-924 (2015)
PMID: 25747658

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

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-183277 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
E3 ubiquitin-protein ligase MIB1 Chain: A
Molecule details ›
Chain: A
Length: 380 amino acids
Theoretical weight: 42.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q86YT6 (Residues: 8-402; Coverage: 38%)
Gene names: DIP1, KIAA1323, MIB1, ZZANK2
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P4122
Unit cell:
a: 73.083Å b: 73.083Å c: 170.959Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.208 0.248
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Ubiquitin Ligases: Structure, Function, and Regulation.
Zheng et al. (2017)
7 more

6 mentions without citation

The Canonical Notch Signaling Pathway: Structural and Biochemical Insights into Shape, Sugar, and Force.
Kovall et al. (2017)
5 more