SMTL ID : 8bto.1

Helical structure of BcThsA in complex with 1''-3'gcADPR

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-12-mer

Ligands

12 x OJC: (2R,3R,3aS,5S,6R,7S,8R,11R,13S,15aR)-2-(6-amino-9H-purin-9-yl)-3,6,7,11,13-pentahydroxyoctahydro-2H,5H,11H,13H-5,8-epoxy-11lambda~5~,13lambda~5~-furo[2,3-g][1,3,5,9,2,4]tetraoxadiphosphacyclotetradecine-11,13-dione(Non-covalent)

OJC.1: 17 residues within 4Å: Chain A: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.292, A:G.292, A:S.293, A:L.329, A:Q.362, A:R.374, A:G.402 Salt bridges: A:R.374, A:K.391, A:K.391 OJC.3: 17 residues within 4Å: Chain B: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.292, B:G.292, B:S.293, B:L.329, B:Q.362, B:R.374, B:G.402 Salt bridges: B:R.374, B:K.391, B:K.391 OJC.5: 17 residues within 4Å: Chain C: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:G.292, C:G.292, C:S.293, C:L.329, C:Q.362, C:R.374, C:G.402 Salt bridges: C:R.374, C:K.391, C:K.391 OJC.7: 17 residues within 4Å: Chain D: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:G.292, D:G.292, D:S.293, D:L.329, D:Q.362, D:R.374, D:G.402 Salt bridges: D:R.374, D:K.391, D:K.391 OJC.9: 17 residues within 4Å: Chain E: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain E Hydrogen bonds: E:G.292, E:G.292, E:S.293, E:L.329, E:Q.362, E:R.374, E:G.402 Salt bridges: E:R.374, E:K.391, E:K.391 OJC.11: 17 residues within 4Å: Chain F: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain F Hydrogen bonds: F:G.292, F:G.292, F:S.293, F:L.329, F:Q.362, F:R.374, F:G.402 Salt bridges: F:R.374, F:K.391, F:K.391 OJC.13: 17 residues within 4Å: Chain G: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain G Hydrogen bonds: G:G.292, G:G.292, G:S.293, G:L.329, G:Q.362, G:R.374, G:G.402 Salt bridges: G:R.374, G:K.391, G:K.391 OJC.15: 17 residues within 4Å: Chain H: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain H Hydrogen bonds: H:G.292, H:G.292, H:S.293, H:L.329, H:Q.362, H:R.374, H:G.402 Salt bridges: H:R.374, H:K.391, H:K.391 OJC.17: 17 residues within 4Å: Chain I: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 11 PLIP interactions: 11 interactions with chain I Hydrogen bonds: I:G.292, I:G.292, I:S.293, I:L.329, I:Q.362, I:R.374, I:G.402, I:V.403 Salt bridges: I:R.374, I:K.391, I:K.391 OJC.19: 17 residues within 4Å: Chain J: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain J Hydrogen bonds: J:G.292, J:G.292, J:S.293, J:L.329, J:Q.362, J:R.374, J:G.402 Salt bridges: J:R.374, J:K.391, J:K.391 OJC.21: 17 residues within 4Å: Chain K: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain K Hydrogen bonds: K:G.292, K:G.292, K:S.293, K:L.329, K:Q.362, K:R.374, K:G.402 Salt bridges: K:R.374, K:K.391, K:K.391 OJC.23: 17 residues within 4Å: Chain L: S.291, G.292, S.293, G.326, F.327, G.328, L.329, F.360, Q.362, W.370, R.374, K.391, A.400, K.401, G.402, V.403, E.406 10 PLIP interactions: 10 interactions with chain L Hydrogen bonds: L:G.292, L:G.292, L:S.293, L:L.329, L:Q.362, L:R.374, L:G.402 Salt bridges: L:R.374, L:K.391, L:K.391

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

NAD.2: 9 residues within 4Å: Chain A: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:A.32, A:G.33, A:T.114, A:F.199, A:S.200, A:S.200, A:S.200, A:Y.269 pi-Stacking: A:Y.269, A:Y.269 NAD.4: 9 residues within 4Å: Chain B: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:A.32, B:G.33, B:T.114, B:G.198, B:F.199, B:S.200, B:S.200 pi-Stacking: B:Y.269, B:Y.269 NAD.6: 9 residues within 4Å: Chain C: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:A.32, C:G.33, C:T.114, C:G.198, C:F.199, C:S.200, C:S.200 pi-Stacking: C:Y.269, C:Y.269 NAD.8: 9 residues within 4Å: Chain D: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 10 PLIP interactions: 10 interactions with chain D Hydrogen bonds: D:A.32, D:G.33, D:T.114, D:F.199, D:S.200, D:S.200, D:S.200, D:Y.269 pi-Stacking: D:Y.269, D:Y.269 NAD.10: 9 residues within 4Å: Chain E: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 10 PLIP interactions: 10 interactions with chain E Hydrogen bonds: E:A.32, E:G.33, E:T.114, E:F.199, E:S.200, E:S.200, E:S.200, E:Y.269 pi-Stacking: E:Y.269, E:Y.269 NAD.12: 9 residues within 4Å: Chain F: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 9 PLIP interactions: 9 interactions with chain F Hydrogen bonds: F:A.32, F:G.33, F:T.114, F:G.198, F:F.199, F:S.200, F:S.200 pi-Stacking: F:Y.269, F:Y.269 NAD.14: 9 residues within 4Å: Chain G: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 9 PLIP interactions: 9 interactions with chain G Hydrogen bonds: G:A.32, G:G.33, G:T.114, G:G.198, G:F.199, G:S.200, G:S.200 pi-Stacking: G:Y.269, G:Y.269 NAD.16: 9 residues within 4Å: Chain H: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 10 PLIP interactions: 10 interactions with chain H Hydrogen bonds: H:A.32, H:G.33, H:T.114, H:F.199, H:S.200, H:S.200, H:S.200, H:Y.269 pi-Stacking: H:Y.269, H:Y.269 NAD.18: 9 residues within 4Å: Chain I: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 10 PLIP interactions: 10 interactions with chain I Hydrogen bonds: I:A.32, I:G.33, I:T.114, I:F.199, I:S.200, I:S.200, I:S.200, I:Y.269 pi-Stacking: I:Y.269, I:Y.269 NAD.20: 9 residues within 4Å: Chain J: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 9 PLIP interactions: 9 interactions with chain J Hydrogen bonds: J:A.32, J:G.33, J:T.114, J:G.198, J:F.199, J:S.200, J:S.200 pi-Stacking: J:Y.269, J:Y.269 NAD.22: 9 residues within 4Å: Chain K: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 9 PLIP interactions: 9 interactions with chain K Hydrogen bonds: K:A.32, K:G.33, K:T.114, K:G.198, K:F.199, K:S.200, K:S.200 pi-Stacking: K:Y.269, K:Y.269 NAD.24: 9 residues within 4Å: Chain L: A.32, G.33, M.36, S.37, T.114, G.198, F.199, S.200, Y.269 10 PLIP interactions: 10 interactions with chain L Hydrogen bonds: L:A.32, L:G.33, L:T.114, L:F.199, L:S.200, L:S.200, L:S.200, L:Y.269 pi-Stacking: L:Y.269, L:Y.269

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tamulaitiene, G. et al., Activation of Thoeris antiviral system via SIR2 effector filament assembly. Nature (2024)

Release Date

2024-02-21

Peptides

NAD(+) hydrolase ThsA: ABCDEFGHIJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

NAD(+) hydrolase ThsA

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