+Open data
-Basic information
Entry | Database: PDB / ID: 7eju | ||||||
---|---|---|---|---|---|---|---|
Title | Junin virus(JUNV) RNA polymerase L complexed with Z protein | ||||||
Components |
| ||||||
Keywords | VIRAL PROTEIN / Junin virus / RNA polymerase / L protein / Z protein | ||||||
Function / homology | Function and homology information virion component => GO:0044423 / negative stranded viral RNA replication / viral budding via host ESCRT complex / cap snatching / viral budding from plasma membrane / host cell cytoplasm / Hydrolases; Acting on ester bonds / host cell perinuclear region of cytoplasm / hydrolase activity / RNA-directed RNA polymerase ...virion component => GO:0044423 / negative stranded viral RNA replication / viral budding via host ESCRT complex / cap snatching / viral budding from plasma membrane / host cell cytoplasm / Hydrolases; Acting on ester bonds / host cell perinuclear region of cytoplasm / hydrolase activity / RNA-directed RNA polymerase / RNA-dependent RNA polymerase activity / nucleotide binding / host cell plasma membrane / RNA binding / zinc ion binding / membrane Similarity search - Function | ||||||
Biological species | Junin mammarenavirus | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.5 Å | ||||||
Authors | Chen, Y. | ||||||
Citation | Journal: Nat Commun / Year: 2021 Title: Structural basis for recognition and regulation of arenavirus polymerase L by Z protein. Authors: Huiling Kang / Jingyuan Cong / Chenlong Wang / Wenxin Ji / Yuhui Xin / Ying Qian / Xuemei Li / Yutao Chen / Zihe Rao / Abstract: Junin virus (JUNV) causes Argentine hemorrhagic fever, a debilitating human disease of high mortality rates and a great risk to public health worldwide. Studying the L protein that replicates and ...Junin virus (JUNV) causes Argentine hemorrhagic fever, a debilitating human disease of high mortality rates and a great risk to public health worldwide. Studying the L protein that replicates and transcribes the genome of JUNV, and its regulator Z protein should provide critical clues to identify therapeutic targets for disrupting the life cycle of JUNV. Here we report the 3.54 Å cryo-EM structure of the JUNV L protein complexed with regulator Z protein. JUNV L structure reveals a conserved architecture containing signature motifs found in other L proteins. Structural analysis shows that L protein is regulated by binding of Z protein at the RNA product exit site. Based on these findings, we propose a model for the role of Z protein as a switch to turn on/off the viral RNA synthesis via its interaction with L protein. Our work unveils the mechanism of JUNV transcription, replication and regulation, which provides a framework for the rational design of antivirals for combating viral infections. | ||||||
History |
|
-Structure visualization
Movie |
Movie viewer |
---|---|
Structure viewer | Molecule: MolmilJmol/JSmol |
-Downloads & links
-Download
PDBx/mmCIF format | 7eju.cif.gz | 321.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb7eju.ent.gz | 257.3 KB | Display | PDB format |
PDBx/mmJSON format | 7eju.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7eju_validation.pdf.gz | 850.2 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 7eju_full_validation.pdf.gz | 862.1 KB | Display | |
Data in XML | 7eju_validation.xml.gz | 48.7 KB | Display | |
Data in CIF | 7eju_validation.cif.gz | 73.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ej/7eju ftp://data.pdbj.org/pub/pdb/validation_reports/ej/7eju | HTTPS FTP |
-Related structure data
Related structure data | 31163MC M: map data used to model this data C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
|
---|---|
1 |
|
-Components
#1: Protein | Mass: 253499.484 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Junin mammarenavirus / Production host: Baculovirus expression vector pFastBac1-HM References: UniProt: A0A0M4LRT1, RNA-directed RNA polymerase, Hydrolases; Acting on ester bonds | ||||
---|---|---|---|---|---|
#2: Protein | Mass: 10542.071 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: matrix zinc binding protein of JUNV, which inactivates JUNV RNA polymerase Source: (gene. exp.) Junin mammarenavirus / Production host: Baculovirus expression vector pFastBac1-HM / References: UniProt: Q6IVU5 | ||||
#3: Chemical | #4: Chemical | ChemComp-MG / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
---|---|
EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: Complex of L and Z proteins of Junin virus (JUNV) / Type: COMPLEX Details: The RNA polymerase L protein complexed with a zinc-binding Z protein Entity ID: #1-#2 / Source: RECOMBINANT | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Molecular weight | Value: 0.25 MDa / Experimental value: NO | ||||||||||||||||||||
Source (natural) | Organism: Junin mammarenavirus | ||||||||||||||||||||
Source (recombinant) | Organism: Baculovirus expression vector pFastBac1-HM | ||||||||||||||||||||
Buffer solution | pH: 7.8 / Details: Solutions were made fresh. | ||||||||||||||||||||
Buffer component |
| ||||||||||||||||||||
Specimen | Conc.: 0.8 mg/ml / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES / Details: This sample was monodisperse. | ||||||||||||||||||||
Specimen support | Details: Frozen sample preparation begins immediately after glow discharge Grid material: GOLD / Grid mesh size: 300 divisions/in. / Grid type: Quantifoil R1.2/1.3 | ||||||||||||||||||||
Vitrification | Instrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 298 K |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
---|---|
Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD |
Image recording | Electron dose: 60 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 SUMMIT (4k x 4k) |
-Processing
Software | Name: PHENIX / Version: 1.12_2829: / Classification: refinement | ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
CTF correction | Type: PHASE FLIPPING ONLY | ||||||||||||||||||||||||
Symmetry | Point symmetry: C1 (asymmetric) | ||||||||||||||||||||||||
3D reconstruction | Resolution: 3.5 Å / Num. of particles: 362657 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
|