PDBsum entry 8v1r

Transferase/DNA

PDB id: 8v1r

Contents

Protein chains

1087 a.a.

268 a.a.

DNA/RNA

Ligands

TTP

Metals

_MG ×5

Waters ×3

PDB id:

8v1r

Name:

Transferase/DNA

Title:

Herpes simplex virus 1 polymerase holoenzyme bound to DNA and dttp in closed conformation

Structure:

DNA polymerase. Chain: a. Engineered: yes. Other_details: herpes simplex virus type 1 (kos strain) DNA polymerase catalytic subunit ul30 with its n-terminal 42 residues deleted and replaced by an n-terminal poly-histidine tag in the expression construct. DNA polymerase processivity factor. Chain: b.

Source:

Human alphaherpesvirus 1 strain kos. Organism_taxid: 10306. Gene: ul30, hhv1gp046. Expressed in: spodoptera frugiperda. Expression_system_taxid: 7108. Expression_system_cell_line: sf9. Gene: ul42, hhv1gp061. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.

Authors:

J.Pan,J.Abraham,D.M.Coen,S.Shankar,P.Yang,J.Hogle

Key ref:

S.Shankar et al. Viral DNA polymerase structures reveal mechanisms of antiviral drug resistance.. Cell, . PubMed id: 39197451

Date:

21-Nov-23 Release date: 04-Sep-24

Protein chain

H9E937  (H9E937_HHV1) -  DNA polymerase from Human herpesvirus 1

Seq: 1235 a.a.

Struc: 1087 a.a.

Protein chain

H9E949  (H9E949_HHV1) -  DNA polymerase processivity factor from Human herpesvirus 1

Seq: 488 a.a.

Struc: 268 a.a.

DNA/RNA chains

G-A-A-T-T-C-G-A-G-C-T-C-G-G-T-A-C-C-C-G-G-G-G-A-T-DOC 26 bases

C-A-C-A-G-A-T-C-C-C-C-G-G-G-T-A-C-C-G-A-G-C-T-C-G-A-A-T-T-C 30 bases

Enzyme reactions

• Enzyme class 1: Chain A: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 2: Chain A: E.C.3.1.26.4 - ribonuclease H.
• Reaction: Endonucleolytic cleavage to 5'-phosphomonoester.

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

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