SMTL ID : 8ozi.1

cryoEM structure of SPARTA complex pre-NAD cleavage

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 14 residues within 4Å: Chain A: Y.105, L.115, N.116, A.117 Chain E: H.9, T.11, D.35, L.39, F.45, I.49, R.71, G.73, V.74, E.77 14 PLIP interactions: 10 interactions with chain E, 4 interactions with chain A Hydrophobic interactions: E:F.45 Hydrogen bonds: E:S.8, E:H.9, E:T.11, E:D.35, E:D.35, E:G.73, E:V.74, E:E.77, A:L.115, A:A.117 Salt bridges: E:R.71 pi-Stacking: A:Y.105, A:Y.105 NAD.2: 16 residues within 4Å: Chain I: Y.105, L.115, N.116, A.117 Chain K: S.8, H.9, T.11, D.35, L.39, F.45, W.46, I.49, R.71, G.73, V.74, E.77 13 PLIP interactions: 9 interactions with chain K, 4 interactions with chain I Hydrophobic interactions: K:F.45 Hydrogen bonds: K:H.9, K:H.9, K:T.11, K:T.11, K:D.35, K:G.73, K:E.77, I:L.115, I:N.116, I:N.116, I:A.117 Salt bridges: K:R.71

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: AEIK
Piwi domain-containing protein: BFJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
C

I
E

K
G

B
B

F
D

J
F

L
H

TIR domain-containing protein

Piwi domain-containing protein

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