SMTL ID : 7ai1.2 (2 other biounits)

Crystal structure of human MDM2-G443T RING domain homodimer bound to UbcH5B-Ub (Crystal form 2)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: K.50, K.53, M.68, I.69 Ligand excluded by PLIP

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: C.22, I.24, C.25, R.28, C.45, C.48 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.22, A:C.25, A:C.45, A:C.48 ZN.3: 6 residues within 4Å: Chain A: H.36, H.41, C.59, V.61, C.62, Q.64 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.36, A:H.41, A:C.59, A:C.62

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 9 residues within 4Å: Chain A: V.23, Q.26 Chain B: R.5, K.8, A.96, L.97, T.98 Chain C: L.13, T.14 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:Q.26 Hydrogen bonds: B:A.96 EDO.5: 4 residues within 4Å: Chain B: T.36, M.38, V.49, F.51 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Magnussen, H.M. et al., Identification of a Catalytic Active but Non-Aggregating MDM2 RING Domain Variant. J.Mol.Biol. (2021)

Release Date

2021-01-20

Peptides

E3 ubiquitin-protein ligase Mdm2: A
Ubiquitin-conjugating enzyme E2 D2: B
Polyubiquitin-B: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

C
CCC

E3 ubiquitin-protein ligase Mdm2

Ubiquitin-conjugating enzyme E2 D2

Polyubiquitin-B

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