CoVDB Coronavirus Database (v3)   
Strain
Bat_KT444582 (Region: China;  Strain: SARS-like coronavirus WIV16, complete genome.;  Date: 21-Jul-13)
Gene
hypothetical protein
Description
Annotated in NCBI,  hypothetical protein
GenBank Accession
Full name
Spike glycoprotein      
Alternative Name
E2
Peplomer protein
 

Sequence

CDS
ATGTTACTTTTAGTAACATTGTTTGGTTTAGCATCAGGGTGCAGCTTACCACTTACGGTTAGCTGCCCTAGAGGCCTACCTTTCACTCTACAGATTAACACTACTAGTGTTACTGTGGAGTGGTATCGGGTATCTCCTGCATCAATGCAAGGTCTTACAAAGATAAATACTGGCAGCACTATTTTTGATAACAACTTTAGTGTAGTCAATAATAATTTGTACTTCAAACAGTGTTTTGGAGGCTTTTTTTTACAGCACGCTGTTACCGCCAGGGTAAGCATGACGGTGCTATAG
Protein
MLLLVTLFGLASGCSLPLTVSCPRGLPFTLQINTTSVTVEWYRVSPASMQGLTKINTGSTIFDNNFSVVNNNLYFKQCFGGFFLQHAVTARVSMTVL

Summary

Function
Spike protein S1: attaches the virion to the cell membrane by interacting with host receptor, initiating the infection.
Spike protein S2': Acts as a viral fusion peptide which is unmasked following S2 cleavage occurring upon virus endocytosis.
Spike protein S2: mediates fusion of the virion and cellular membranes by acting as a class I viral fusion protein. Under the current model, the protein has at least three conformational states: pre-fusion native state, pre-hairpin intermediate state, and post-fusion hairpin state. During viral and target cell membrane fusion, the coiled coil regions (heptad repeats) assume a trimer-of-hairpins structure, positioning the fusion peptide in close proximity to the C-terminal region of the ectodomain. The formation of this structure appears to drive apposition and subsequent fusion of viral and target cell membranes.
Subunit
Homotrimer; each monomer consists of a S1 and a S2 subunit. The resulting peplomers protrude from the virus surface as spikes.
Similarity
Belongs to the betacoronaviruses spike protein family.
Feature
chain  Spike protein S2
Pfam
PF09408   Spike_rec_bind
PF01601   Corona_S2
Interpro
IPR042578   BETA_CORONA_SPIKE
IPR027400   S_HR2
IPR018548   Spike_rcpt-bd
IPR002552   Corona_S2
IPR036326   Spike_rcpt-bd_sf
SUPFAM
SSF143587   SSF143587
Gene 3D
ProteinModelPortal

Ontologies

Subcellular Location

From MSLVP
Multi-Pass Membrane
From Uniprot
Virion membrane   Accumulates in the endoplasmic reticulum-Golgi intermediate compartment, where it participates in virus particle assembly. Some S oligomers are transported to the host plasma membrane, where they may mediate cell-cell fusion.   With evidence from 1 publications.
Host endoplasmic reticulum-Golgi intermediate compartment membrane   Accumulates in the endoplasmic reticulum-Golgi intermediate compartment, where it participates in virus particle assembly. Some S oligomers are transported to the host plasma membrane, where they may mediate cell-cell fusion.   With evidence from 1 publications.
Host cell membrane   Accumulates in the endoplasmic reticulum-Golgi intermediate compartment, where it participates in virus particle assembly. Some S oligomers are transported to the host plasma membrane, where they may mediate cell-cell fusion.   With evidence from 1 publications.

Topology

Length:
97
Number of predicted TMHs:
0
Exp number of AAs in TMHs:
0.72381
Exp number, first 60 AAs:
0.67927
Total prob of N-in:
0.03494
outside
1  -  97
 
 
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