SMTL ID : 7rma.1

Structure of the fourth UIM (Ubiquitin Interacting Motif) of ANKRD13D in complex with a high affinity UbV (Ubiquitin Variant)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-2-mer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain B: G.2, Q.3, Q.4, E.5 Chain C: R.17 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:Q.3, B:Q.4, B:Q.4, B:E.5 Salt bridges: C:R.17 SO4.3: 5 residues within 4Å: Chain A: R.17 Chain D: G.2, Q.3, Q.4, E.5 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:Q.3, D:Q.4, D:Q.4, D:E.5 Salt bridges: A:R.17

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain B: R.11, Q.14 No protein-ligand interaction detected (PLIP) NA.4: 2 residues within 4Å: Chain D: R.11, Q.14 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:R.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Veggiani, G. et al., Panel of Engineered Ubiquitin Variants Targeting the Family of Human Ubiquitin Interacting Motifs. Acs Chem.Biol. (2022)

Release Date

2022-05-11

Peptides

Ubiquitin Variant: AC
Ankyrin repeat domain-containing protein 13D: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
C

D
C

Ubiquitin Variant

Ankyrin repeat domain-containing protein 13D