SMTL ID : 6w9d.2 (2 other biounits)

RNF12 RING domain in complex with a Ube2d2~Ub conjugate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.19 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 1 residues within 4Å: Chain B: C.48 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain B: N.56, K.57 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain B: R.86 Chain C: T.9 Ligand excluded by PLIP

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain B: C.45, C.48, H.68, C.71 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.45, B:C.48, B:H.68, B:C.71 ZN.3: 4 residues within 4Å: Chain B: C.63, H.65, C.82, C.85 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.63, B:H.65, B:C.82, B:C.85

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Middleton, A.J. et al., The RING Domain of RING Finger 12 Efficiently Builds Degradative Ubiquitin Chains. J.Mol.Biol. (2020)

Release Date

2020-05-20

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

Ubiquitin-conjugating enzyme E2 D2

E3 ubiquitin-protein ligase RLIM

Ubiquitin

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