SMTL ID : 8d0m.1

Human CD38 ectodomain bound to a 78c-ADPR adduct

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-dimer

Ligands

2 x Q2C: [[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{R},5~{R})-5-[5-[4-[[4-(2-methoxyethoxy)cyclohexyl]amino]-1-methyl-2-oxidanylidene-quinolin-6-yl]-1,3-thiazol-3-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate(Non-covalent)

Q2C.1: 18 residues within 4Å: Chain A: L.80, W.81, S.82, R.83, L.101, E.102, W.132, V.141, S.142, W.145, K.146, S.149, S.176, T.177, F.178, S.180, V.181, E.182 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.145, A:K.146 Hydrogen bonds: A:W.81, A:R.83, A:S.149, A:T.177, A:T.177, A:T.177, A:F.178 Water bridges: A:L.79, A:K.85, A:L.101, A:S.142 Salt bridges: A:R.83 pi-Stacking: A:W.145 Q2C.2: 18 residues within 4Å: Chain B: L.80, W.81, S.82, R.83, L.101, E.102, W.132, V.141, S.142, W.145, K.146, S.149, S.176, T.177, F.178, S.180, V.181, E.182 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:W.145, B:K.146 Hydrogen bonds: B:W.81, B:R.83, B:S.149, B:T.177, B:T.177, B:T.177, B:T.177, B:F.178 Water bridges: B:L.79, B:K.85, B:L.101, B:S.142 Salt bridges: B:R.83 pi-Stacking: B:W.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bratkowski, M. et al., Uncompetitive, adduct-forming SARM1 inhibitors are neuroprotective in preclinical models of nerve injury and disease. Neuron (2022)

Release Date

2022-09-21

Peptides

ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1