SMTL ID : 8qbl.1

Retron-Eco1 filament with inactive effector (E106A, 2 segments)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-5-mer

Ligands

5 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 3 residues within 4Å: Chain A: D.198, K.231 Chain X: G.85 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.198 MG.2: 1 residues within 4Å: Chain G: G.85 No protein-ligand interaction detected (PLIP) MG.3: 2 residues within 4Å: Chain 1: G.85 Chain M: D.119 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain Z: A.84, G.85 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain 2: G.85 No protein-ligand interaction detected (PLIP)

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

NAD.4: 16 residues within 4Å: Chain T: P.98, F.104, Q.124, F.128, K.131, R.132, S.133, F.134, I.135, N.136 Chain W: P.64, E.65, D.69, S.100, P.101, G.102 6 PLIP interactions: 5 interactions with chain T, 1 interactions with chain W Hydrogen bonds: T:S.133, T:F.134, T:N.136, W:G.102 pi-Stacking: T:F.128, T:F.128 NAD.5: 17 residues within 4Å: Chain U: G.36, P.64, E.65, D.69, S.100, P.101, G.102, S.103 Chain V: P.98, F.104, F.128, R.132, S.133, F.134, I.135, N.136, Y.137 8 PLIP interactions: 5 interactions with chain V, 3 interactions with chain U Hydrogen bonds: V:P.98, V:S.133, V:F.134, U:D.69, U:G.102, U:S.103 pi-Stacking: V:F.128, V:F.128 NAD.6: 17 residues within 4Å: Chain U: P.98, F.104, Q.124, F.128, K.131, R.132, S.133, F.134, I.135, N.136, Y.137 Chain V: G.36, E.65, D.69, S.100, P.101, G.102 5 PLIP interactions: 4 interactions with chain U, 1 interactions with chain V Hydrogen bonds: U:P.98, U:F.134, V:G.102 pi-Stacking: U:F.128, U:F.128 NAD.7: 16 residues within 4Å: Chain T: P.64, E.65, D.69, S.100, P.101, G.102 Chain W: P.98, F.104, Q.124, F.128, K.131, R.132, S.133, F.134, I.135, N.136 5 PLIP interactions: 4 interactions with chain W, 1 interactions with chain T Hydrogen bonds: W:S.133, W:F.134, T:G.102 pi-Stacking: W:F.128, W:F.128

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carabias, A. et al., Retron-Eco1 assembles NAD + -hydrolyzing filaments that provide immunity against bacteriophages. Mol.Cell (2024)

Release Date

2024-06-05

Peptides

Retron Ec86 reverse transcriptase: AEFKMQ
Retron Ec86 putative ribosyltransferase/DNA-binding protein: DTUVW

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
I

F
K

K
P

M
U

Q
Z

D
G

T
E

U
F

V
H

W
T

Retron Ec86 reverse transcriptase

Retron Ec86 putative ribosyltransferase/DNA-binding protein

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