PDBsum entry 9nnh

DNA-RNA hybrid

PDB id: 9nnh

Contents

Protein chains

550 a.a.

211 a.a.

311 a.a.

DNA/RNA

Ligands

ADP ×3

PDB id:

9nnh

Name:

DNA-RNA hybrid

Title:

Cryo-em structure of the retron ec78 complex, ptua:ptub:rt (4:2:2)

Structure:

Retron i-a effector ptua. Chain: c, d, e, f. Engineered: yes. Retron i-a effector ptub. Chain: j, k. Synonym: tigr02646 family protein. Engineered: yes. Retron i-a ec78 reverse transcriptase. Chain: b, a.

Source:

Escherichia coli. Organism_taxid: 562. Gene: ga0100609_101823. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: ga0100609_101824. Gene: nctc8603_01325. Synthetic: yes. Organism_taxid: 562

Authors:

B.Wang,H.Li

Key ref:

B.Wang et al. Structural basis for retron co-Option of anti-Phage atpase-Nuclease. To be published, . PubMed id: 41174277

Date:

05-Mar-25 Release date: 08-Oct-25

Protein chains

P0DV91  (ATP78_ECOLX) -  Retron Ec78 probable ATPase from Escherichia coli

Seq: 550 a.a.

Struc: 550 a.a.*

Protein chains

P0DV92  (HNH78_ECOLX) -  Retron Ec78 putative HNH endonuclease from Escherichia coli

Seq: 216 a.a.

Struc: 211 a.a.*

Protein chains

A0AB38GW94  (A0AB38GW94_ECOLX) -  RNA-directed DNA polymerase from Escherichia coli

Seq: 311 a.a.

Struc: 311 a.a.*

* PDB and UniProt seqs differ at 66 residue positions (black crosses)

DNA/RNA chains

G-G-A-A-G-C-G-A-A-A-G-T-G-T-C-G-C-A-A-C-C-C-G-A-G-A-G-A-G-G-A-A-C-G-A-T-C-T-C- 73 bases

U-A-G-U-C-G-G-G-U-G-A-U-U-A-G-C-C-A-G-A-C-U-C-U-A-A-C-U-U-A-U-U-G-A-A-C-G-U-A- 41 bases

U-A-G-U-C-G-G-G-U-G-A-U-U-A-G-C-C-A-G-A-C-U-C-U-A-A-C-U-U-A-U-U-G-A-A-C-G-U-A- 41 bases

A-A-T-A-C-G-T-T-C 9 bases

Enzyme reactions

• Enzyme class: Chains B, A: E.C.2.7.7.49 - RNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate

Molecule diagrams generated from .mol files obtained from the KEGG ftp site