SMTL ID : 8ozf.1

cryoEM structure of SPARTA complex Tetramer Post-NAD cleavage-2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

2 x AR6: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE(Non-covalent)

AR6.1: 15 residues within 4Å: Chain A: Y.105, V.113, L.115, N.116, A.117 Chain C: H.9, T.11, P.12, D.35, F.45, I.49, R.71, G.73, V.74, E.77 6 PLIP interactions: 2 interactions with chain A, 3 interactions with chain C, 1 interactions with chain G Hydrogen bonds: A:Y.105, A:A.117, C:T.11, C:D.35, C:R.71 Salt bridges: G:K.86 AR6.2: 16 residues within 4Å: Chain E: Y.105, I.108, L.115, N.116 Chain G: H.9, A.10, T.11, P.12, D.35, F.45, I.49, R.71, E.72, G.73, V.74, E.77 10 PLIP interactions: 7 interactions with chain G, 3 interactions with chain E Hydrogen bonds: G:T.11, G:T.11, G:D.35, G:D.35, G:G.73, G:V.74, E:A.117 Salt bridges: G:R.71 pi-Stacking: E:Y.105, E:Y.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ni, D. et al., Activation mechanism of a short argonaute-TIR prokaryotic immune system. Sci Adv (2023)

Release Date

2023-08-16

Peptides

TIR domain-containing protein: ACEG
Piwi domain-containing protein: BDFL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
F

G
H

B
B

D
E

F
G

L
M

TIR domain-containing protein

Piwi domain-containing protein

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