PDBsum entry 8bsd

Viral protein

PDB id: 8bsd

Contents

Protein chains

301 a.a.

116 a.a.

Ligands

EDO ×31

MES

TBN

Metals

_CL ×2

_ZN ×2

Waters ×313

PDB id:

8bsd

Name:

Viral protein

Title:

Sars-cov-2 nsp10-16 methyltransferase in complex with tubercidin

Structure:

2'-o-methyltransferase nsp16. Chain: a. Synonym: non-structural protein 16,nsp16. Engineered: yes. Non-structural protein 10. Chain: b. Synonym: nsp10,growth factor-like peptide,gfl. Engineered: yes

Source:

Severe acute respiratory syndrome coronavirus 2. Organism_taxid: 2697049. Gene: rep, 1a-1b. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Expression_system_taxid: 469008

Resolution:

1.95Å R-factor: 0.181 R-free: 0.208

Authors:

V.Kremling,D.Oberthuer,J.Sprenger

Key ref:

V.Kremling et al. Crystal structures of tubercidin bound to the active the sars-Cov-2 methyltransferase nsp10-16. To be published, .

Date:

24-Nov-22 Release date: 07-Dec-22

Protein chain

P0DTD1  (R1AB_SARS2) -

Protein chain

P0DTD1  (R1AB_SARS2) -

Enzyme reactions

• Enzyme class: Chain A: E.C.2.1.1.57 - methyltransferase cap1.
• Reaction: a 5'-end (N(7)-methyl 5'-triphosphoguanosine)-ribonucleoside in mRNA + S-adenosyl-L-methionine = a 5'-end (N(7)-methyl 5'-triphosphoguanosine)- (2'-O-methyl-ribonucleoside) in mRNA + S-adenosyl-L-homocysteine + H⁺

5'-end (N(7)-methyl 5'-triphosphoguanosine)-ribonucleoside in mRNA + S-adenosyl-L-methionine = 5'-end (N(7)-methyl 5'-triphosphoguanosine)- (2'-O-methyl-ribonucleoside) in mRNA + S-adenosyl-L-homocysteine + H(+) (Bound ligand (Het Group name = TBN) matches with 60.71% similarity)

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