Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Spike glycoprotein

Gene

S

Organism
Bat coronavirus Rp3/2004 (BtCoV/Rp3/2004) (SARS-like coronavirus Rp3)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Spike protein S1: attaches the virion to the cell membrane by interacting with host receptor, initiating the infection.UniRule annotation
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.UniRule annotation
Spike protein S2': Acts as a viral fusion peptide which is unmasked following S2 cleavage occurring upon virus endocytosis.UniRule annotation

Miscellaneous

Bat coronavirus rp3 is highly similar to SARS-CoV (SARS-like).

GO - Biological processi

Keywordsi

Biological processFusion of virus membrane with host endosomal membrane, Fusion of virus membrane with host membrane, Host-virus interaction, Viral attachment to host cell, Viral penetration into host cytoplasm, Virulence, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Spike glycoproteinUniRule annotation
Short name:
S glycoproteinUniRule annotation
Alternative name(s):
E2UniRule annotation
Peplomer proteinUniRule annotation
Cleaved into the following 3 chains:
Spike protein S1UniRule annotation
Spike protein S2UniRule annotation
Spike protein S2'UniRule annotation
Gene namesi
Name:SUniRule annotation
ORF Names:2
OrganismiBat coronavirus Rp3/2004 (BtCoV/Rp3/2004) (SARS-like coronavirus Rp3)
Taxonomic identifieri349344 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiRhinolophus ferrumequinum (Greater horseshoe bat) [TaxID: 59479]
Rhinolophus macrotis (Big-eared horseshoe bat) [TaxID: 196889]
Rhinolophus pearsonii [TaxID: 188571]
Rhinolophus sinicus (Chinese rufous horseshoe bat) [TaxID: 89399]
Proteomesi
  • UP000006570 Componenti: Genome

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini14 – 1181ExtracellularUniRule annotationAdd BLAST1168
Transmembranei1182 – 1202HelicalUniRule annotationAdd BLAST21
Topological domaini1203 – 1241CytoplasmicUniRule annotationAdd BLAST39

GO - Cellular componenti

Keywords - Cellular componenti

Host cell membrane, Host membrane, Membrane, Viral envelope protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 13UniRule annotationAdd BLAST13
ChainiPRO_000004307614 – 1241Spike glycoproteinAdd BLAST1228
ChainiPRO_000044406614 – 653Spike protein S1UniRule annotationAdd BLAST640
ChainiPRO_0000043078654 – 1241Spike protein S2UniRule annotationAdd BLAST588
ChainiPRO_0000444067784 – 1241Spike protein S2'UniRule annotationAdd BLAST458

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi65N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi115N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi124N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi125N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi162N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi231N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi273N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi298N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi322N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Disulfide bondi327 ↔ 352UniRule annotation
Glycosylationi334N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi361N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Disulfide bondi370 ↔ 423UniRule annotation
Glycosylationi575N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi588N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi629N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi677N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi685N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi769N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi1042N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi1066N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi1102N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi1126N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi1141N-linked (GlcNAc...) asparagine; by hostUniRule annotation1
Glycosylationi1162N-linked (GlcNAc...) asparagine; by hostUniRule annotation1

Post-translational modificationi

Specific enzymatic cleavages in vivo yield mature proteins. The precursor is processed into S1 and S2 by host cell furin or another cellular protease to yield the mature S1 and S2 proteins. Additionally, a second cleavage leads to the release of a fusion peptide after viral attachment to host cell receptor.UniRule annotation
The cytoplasmic Cys-rich domain is palmitoylated. Spike glycoprotein is digested within host endosomes.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei653 – 654CleavageUniRule annotation2
Sitei783 – 784CleavageUniRule annotation2

Keywords - PTMi

Disulfide bond, Glycoprotein, Lipoprotein, Palmitate

Proteomic databases

PRIDEiQ3I5J5

Interactioni

Subunit structurei

Homotrimer; each monomer consists of a S1 and a S2 subunit. The resulting peplomers protrude from the virus surface as spikes.UniRule annotation

Structurei

Secondary structure

11241
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ3I5J5
SMRiQ3I5J5
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ3I5J5

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni310 – 513Receptor-binding domainUniRule annotationAdd BLAST204
Regioni756 – 774Fusion peptideUniRule annotationAdd BLAST19
Regioni888 – 938Heptad repeat 1UniRule annotationAdd BLAST51
Regioni1131 – 1170Heptad repeat 2UniRule annotationAdd BLAST40

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili917 – 961UniRule annotationAdd BLAST45
Coiled coili1143 – 1171UniRule annotationAdd BLAST29

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi1237 – 1241KxHxxUniRule annotation5

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi1203 – 1222Cys-richAdd BLAST20

Sequence similaritiesi

Belongs to the betacoronaviruses spike protein family.UniRule annotation

Keywords - Domaini

Coiled coil, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

OrthoDBiVOG0900000Z

Family and domain databases

Gene3Di1.20.5.790, 1 hit
HAMAPiMF_04099 BETA_CORONA_SPIKE, 1 hit
InterProiView protein in InterPro
IPR002552 Corona_S2
IPR027400 S_HR2
IPR032500 Spike_N
IPR018548 Spike_rcpt-bd
IPR036326 Spike_rcpt-bd_sf
PfamiView protein in Pfam
PF01601 Corona_S2, 1 hit
PF16451 Spike_NTD, 1 hit
PF09408 Spike_rec_bind, 1 hit
SUPFAMiSSF143587 SSF143587, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q3I5J5-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKILILAFLA SLAKAQEGCG IISRKPQPKM AQVSSSRRGV YYNDDIFRSN
60 70 80 90 100
VLHLTQDYFL PFDSNLTQYF SLNVDSDRFT YFDNPILDFG DGVYFAATEK
110 120 130 140 150
SNVIRGWIFG STFDNTTQSA VIVNNSTHII IRVCNFNLCK EPMYTVSRGA
160 170 180 190 200
QQSSWVYQSA FNCTYDRVEK SFQLDTAPKT GNFKDLREYV FKNRDGFLSV
210 220 230 240 250
YQTYTAVNLP RGLPIGFSVL RPILKLPFGI NITSYRVVMA MFSQTTSNFL
260 270 280 290 300
PESAAYYVGN LKYTTFMLSF NENGTITNAI DCAQNPLAEL KCTIKNFNVS
310 320 330 340 350
KGIYQTSNFR VSPTQEVIRF PNITNRCPFD KVFNATRFPN VYAWERTKIS
360 370 380 390 400
DCVADYTVLY NSTSFSTFKC YGVSPSKLID LCFTSVYADT FLIRSSEVRQ
410 420 430 440 450
VAPGETGVIA DYNYKLPDDF TGCVIAWNTA KQDQGQYYYR SHRKTKLKPF
460 470 480 490 500
ERDLSSDENG VRTLSTYDFY PSVPVAYQAT RVVVLSFELL NAPATVCGPK
510 520 530 540 550
LSTQLVKNQC VNFNFNGLKG TGVLTESSKR FQSFQQFGRD TSDFTDSVRD
560 570 580 590 600
PQTLEILDIS PCSFGGVSVI TPGTNASSEV AVLYQDVNCT DVPAAIHADQ
610 620 630 640 650
LTPAWRVYST GTNVFQTQAG CLIGAEHVNA SYECDIPIGA GICASYHTAS
660 670 680 690 700
TLRSVGQKSI VAYTMSLGAE NSIAYANNSI AIPTNFSISV TTEVMPVSMA
710 720 730 740 750
KTSVDCTMYI CGDSLECSNL LLQYGSFCTQ LNRALSGIAI EQDKNTQEVF
760 770 780 790 800
AQVKQMYKTP AIKDFGGFNF SQILPDPSKP TKRSFIEDLL FNKVTLADAG
810 820 830 840 850
FMKQYGECLG DISARDLICA QKFNGLTVLP PLLTDEMIAA YTAALVSGTA
860 870 880 890 900
TAGWTFGAGS ALQIPFAMQM AYRFNGIGVT QNVLYENQKQ IANQFNKAIS
910 920 930 940 950
QIQESLTTTS TALGKLQDVV NQNAQALNTL VKQLSSNFGA ISSVLNDILS
960 970 980 990 1000
RLDKVEAEVQ IDRLITGRLQ SLQTYVTQQL IRAAEIRASA NLAATKMSEC
1010 1020 1030 1040 1050
VLGQSKRVDF CGKGYHLMSF PQAAPHGVVF LHVTYVPSQE RNFTTAPAIC
1060 1070 1080 1090 1100
HEGKAYFPRE GVFVSNGTSW FITQRNFYSP QIITTDNTFV AGSCDVVIGI
1110 1120 1130 1140 1150
INNTVYDPLQ PELDSFKEEL DKYFKNHTSP DVDLGDISGI NASVVNIQKE
1160 1170 1180 1190 1200
IDRLNEVAKN LNESLIDLQE LGKYEQYIKW PWYVWLGFIA GLIAIVMVTI
1210 1220 1230 1240
LLCCMTSCCS CLKGACSCGS CCKFDEDDSE PVLKGVKLHY T
Length:1,241
Mass (Da):137,560
Last modified:November 8, 2005 - v1
Checksum:i4C55A922A7A463B4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ071615 Genomic RNA Translation: AAZ67052.1

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ071615 Genomic RNA Translation: AAZ67052.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZVAX-ray1.50A912-948[»]
A1135-1169[»]
ProteinModelPortaliQ3I5J5
SMRiQ3I5J5
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ3I5J5

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

OrthoDBiVOG0900000Z

Miscellaneous databases

EvolutionaryTraceiQ3I5J5

Family and domain databases

Gene3Di1.20.5.790, 1 hit
HAMAPiMF_04099 BETA_CORONA_SPIKE, 1 hit
InterProiView protein in InterPro
IPR002552 Corona_S2
IPR027400 S_HR2
IPR032500 Spike_N
IPR018548 Spike_rcpt-bd
IPR036326 Spike_rcpt-bd_sf
PfamiView protein in Pfam
PF01601 Corona_S2, 1 hit
PF16451 Spike_NTD, 1 hit
PF09408 Spike_rec_bind, 1 hit
SUPFAMiSSF143587 SSF143587, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSPIKE_BCRP3
AccessioniPrimary (citable) accession number: Q3I5J5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: November 8, 2005
Last modified: June 20, 2018
This is version 87 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

We'd like to inform you that we have updated our Privacy Notice to comply with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018.

Do not show this banner again