5ISN

NMR solution structure of macro domain from Venezuelan equine encephalitis virus

DOI: 10.2210/pdb5ISN/pdb
BMRB: 25132

Classification: VIRAL PROTEIN
Organism(s): Venezuelan equine encephalitis virus (strain P676)
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-03-15 Released: 2017-11-29
Deposition Author(s): Makrynitsa, G.I., Ntonti, D., Marousis, K.D., Tsika, A.C., Papageorgiou, N., Coutard, B., Bentrop, D., Spyroulias, G.A.
Funding Organization(s): European Union

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 21
Conformers Submitted: 21
Selection Criteria: target function

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Conformational plasticity of the VEEV macro domain is important for binding of ADP-ribose.

Makrynitsa, G.I., Ntonti, D., Marousis, K.D., Birkou, M., Matsoukas, M.T., Asami, S., Bentrop, D., Papageorgiou, N., Canard, B., Coutard, B., Spyroulias, G.A.

(2019) J Struct Biol 206: 119-127

PubMed: 30825649 Search on PubMedSearch on PubMed Central
DOI: 10.1016/j.jsb.2019.02.008
Primary Citation of Related Structures:
5ISN, 5MQX

PubMed Abstract:

Venezuelan equine encephalitis virus (VEEV) is a new world alphavirus which can be involved in several central nervous system disorders such as encephalitis and meningitis. The VEEV genome codes for 4 non-structural proteins (nsP), of which nsP3 contains a Macro domain. Macro domains (MD) can be found as stand-alone proteins or embedded within larger proteins in viruses, bacteria and eukaryotes. Their most common feature is the binding of ADP-ribose (ADPr), while several macro domains act as ribosylation writers, erasers or readers. Alphavirus MD erase ribosylation but their precise contribution in viral replication is still under investigation. NMR-driven titration experiments of ADPr in solution with the VEEV macro domain (in apo- and complex state) show that it adopts a suitable conformation for ADPr binding. Specific experiments indicate that the flexibility of the loops β5-α3 and α3-β6 is critical for formation of the complex and assists a wrapping mechanism for ADPr binding. Furthermore, along with this sequence of events, the VEEV MD undergoes a conformational exchange process between the apo state and a low-populated "dark" conformational state.

Related Citations:

NMR study of non-structural proteins--part II: (1)H, (13)C, (15)N backbone and side-chain resonance assignment of macro domain from Venezuelan equine encephalitis virus (VEEV).
Makrynitsa, G.I., Ntonti, D., Marousis, K.D., Tsika, A.C., Lichiere, J., Papageorgiou, N., Coutard, B., Bentrop, D., Spyroulias, G.A.
(2015) Biomol NMR Assign 9: 247

NMR study of non-structural proteins--part I: (1)H, (13)C, (15)N backbone and side-chain resonance assignment of macro domain from Mayaro virus (MAYV).
Melekis, E., Tsika, A.C., Lichiere, J., Chasapis, C.T., Margiolaki, I., Papageorgiou, N., Coutard, B., Bentrop, D., Spyroulias, G.A.
(2015) Biomol NMR Assign 9: 191

The crystal structures of Chikungunya and Venezuelan equine encephalitis virus nsP3 macro domains define a conserved adenosine binding pocket.
Malet, H., Coutard, B., Jamal, S., Dutartre, H., Papageorgiou, N., Neuvonen, M., Ahola, T., Forrester, N., Gould, E.A., Lafitte, D., Ferron, F., Lescar, J., Gorbalenya, A.E., de Lamballerie, X., Canard, B.
(2009) J Virol 83: 6534

Organizational Affiliation:

Department of Pharmacy, University of Patras, GR-26504, Greece. Electronic address: G.A.Spyroulias@upatras.gr.

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural polyprotein	A	168	Venezuelan equine encephalitis virus (strain P676)	Mutation(s): 0 EC: 2.1.1 (PDB Primary Data), 2.7.7 (PDB Primary Data), 3.1.3.33 (PDB Primary Data), 3.4.22 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.6.4.13 (PDB Primary Data), 2.7.7.48 (PDB Primary Data), 3.1.3.84 (UniProt), 2.7.7.19 (UniProt)
Find proteins for P36328 (Venezuelan equine encephalitis virus (strain P676)) Explore P36328 Go to UniProtKB: P36328
Protein Feature View Expand
Reference Sequence