SMTL ID : 8qbk.1

Retron-Eco1 filament with ADP-ribosylated Effector (local map with 1 segment)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-4-mer

Ligands

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

MG.1: 2 residues within 4Å: Chain C: D.119 Chain D: G.85 No protein-ligand interaction detected (PLIP) MG.2: 1 residues within 4Å: Chain H: G.85 No protein-ligand interaction detected (PLIP) MG.3: 1 residues within 4Å: Chain L: G.85 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain P: D.198 Chain Q: G.85 No protein-ligand interaction detected (PLIP)

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(Covalent)

AR6.4: 18 residues within 4Å: Chain O: C.35, G.36, R.46, P.64, S.100, P.101, G.102, S.103, E.106 Chain T: P.98, Q.124, F.128, K.131, R.132, S.133, F.134, I.135, N.136 10 PLIP interactions: 6 interactions with chain T, 4 interactions with chain O Hydrogen bonds: T:P.98, T:S.133, T:F.134, T:N.136, O:G.36, O:G.36, O:G.102, O:E.106 pi-Stacking: T:F.128, T:F.128 AR6.6: 19 residues within 4Å: Chain O: P.98, Q.124, F.128, R.132, S.133, F.134, I.135, N.136 Chain T: C.35, G.36, G.37, D.38, R.46, P.64, S.100, P.101, G.102, S.103, E.106 10 PLIP interactions: 6 interactions with chain T, 4 interactions with chain O Hydrogen bonds: T:G.36, T:G.36, T:D.38, T:G.102, T:S.103, T:E.106, O:P.98, O:S.133, O:F.134 pi-Stacking: O: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 putative ribosyltransferase/DNA-binding protein: ABOT
Retron Ec86 reverse transcriptase: CGKP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

O
T

T
E

C
A

G
K

K
P

P
U

Retron Ec86 putative ribosyltransferase/DNA-binding protein

Retron Ec86 reverse transcriptase

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