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Protein

Spike glycoprotein

Gene

S

Organism
Avian infectious bronchitis virus (strain Beaudette) (IBV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

S1 attaches the virion to the cell membrane by interacting with cell receptors, initiating the infection.1 Publication
S2 is a class I viral fusion protein. Under the current model, the protein has at least 3 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 (By similarity).By similarity

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 endocytosis by host, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Spike glycoprotein
Short name:
S glycoprotein
Alternative name(s):
E2
Peplomer protein
Cleaved into the following 2 chains:
Gene namesi
Name:S
ORF Names:2
OrganismiAvian infectious bronchitis virus (strain Beaudette) (IBV)
Taxonomic identifieri11122 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeGammacoronavirus
Virus hostiGallus gallus (Chicken) [TaxID: 9031]
Proteomesi
  • UP000006717 Componenti: Genome

Subcellular locationi

Spike protein S2 :
Spike protein S1 :

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini19 – 1095ExtracellularSequence analysisAdd BLAST1077
Transmembranei1096 – 1116HelicalSequence analysisAdd BLAST21
Topological domaini1117 – 1162CytoplasmicSequence analysisAdd BLAST46

GO - Cellular componenti

Keywords - Cellular componenti

Host membrane, Membrane, Viral envelope protein, Virion

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi1159K → A: Localizes exclusively to the cell membrane. 1 Publication1
Mutagenesisi1160K → A: Localizes exclusively to the cell membrane. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 18Sequence analysisAdd BLAST18
ChainiPRO_000003716219 – 1162Spike glycoproteinAdd BLAST1144
ChainiPRO_000003716319 – 537Spike protein S1Sequence analysisAdd BLAST519
ChainiPRO_0000037164538 – 1162Spike protein S2Sequence analysisAdd BLAST625

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi51N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi77N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi103N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi144N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi163N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi178N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi212N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi237N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi247N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi264N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi276N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi306N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi425N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi447N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi513N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi530N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi579N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi591N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi669N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi676N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi714N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi947N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi960N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi979N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi1014N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi1038N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi1051N-linked (GlcNAc...); by hostSequence analysis1
Glycosylationi1074N-linked (GlcNAc...); by hostSequence analysis1

Post-translational modificationi

Specific enzymatic cleavages in vivo yield mature proteins. The precursor is processed into S1 and S2 by host cell furin or furin-like protease to yield the mature S1 and S2 proteins. The cleavage site between S1 and S2 requires the optimal sequence [KR]-X-[KR]-R. Cleavage is not necessary for virus-cell fusion (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei537 – 538Cleavage; by hostSequence analysis2

Keywords - PTMi

Cleavage on pair of basic residues, Glycoprotein

Proteomic databases

PRIDEiP11223.

Interactioni

Subunit structurei

Homotrimer; each monomer consists of a S1 and a S2 subunit. The resulting peplomers protrude from the virus surface as spikes (By similarity).By similarity

Structurei

3D structure databases

ProteinModelPortaliP11223.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili822 – 866Sequence analysisAdd BLAST45
Coiled coili1055 – 1083Sequence analysisAdd BLAST29

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi1159 – 1162Di-lysine motif4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi1120 – 1137Cys-richAdd BLAST18

Domaini

The di-lysine motif confers endoplasmic reticulum localization for type I membrane proteins.By similarity

Sequence similaritiesi

Belongs to the coronaviruses spike protein family.Curated

Keywords - Domaini

Coiled coil, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

KOiK19254.

Family and domain databases

Gene3Di1.20.5.790. 1 hit.
InterProiView protein in InterPro
IPR002551. Corona_S1.
IPR002552. Corona_S2.
IPR027400. S_HR2.
PfamiView protein in Pfam
PF01600. Corona_S1. 1 hit.
PF01601. Corona_S2. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P11223-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLVTPLLLVT LLCALCSAVL YDSSSYVYYY QSAFRPPSGW HLQGGAYAVV
60 70 80 90 100
NISSEFNNAG SSSGCTVGII HGGRVVNASS IAMTAPSSGM AWSSSQFCTA
110 120 130 140 150
HCNFSDTTVF VTHCYKHGGC PLTGMLQQNL IRVSAMKNGQ LFYNLTVSVA
160 170 180 190 200
KYPTFRSFQC VNNLTSVYLN GDLVYTSNET IDVTSAGVYF KAGGPITYKV
210 220 230 240 250
MREVKALAYF VNGTAQDVIL CDGSPRGLLA CQYNTGNFSD GFYPFTNSSL
260 270 280 290 300
VKQKFIVYRE NSVNTTCTLH NFIFHNETGA NPNPSGVQNI QTYQTKTAQS
310 320 330 340 350
GYYNFNFSFL SSFVYKESNF MYGSYHPSCK FRLETINNGL WFNSLSVSIA
360 370 380 390 400
YGPLQGGCKQ SVFKGRATCC YAYSYGGPSL CKGVYSGELD HNFECGLLVY
410 420 430 440 450
VTKSGGSRIQ TATEPPVITQ NNYNNITLNT CVDYNIYGRT GQGFITNVTD
460 470 480 490 500
SAVSYNYLAD AGLAILDTSG SIDIFVVQGE YGLNYYKVNP CEDVNQQFVV
510 520 530 540 550
SGGKLVGILT SRNETGSQLL ENQFYIKITN GTRRFRRSIT ENVANCPYVS
560 570 580 590 600
YGKFCIKPDG SIATIVPKQL EQFVAPLFNV TENVLIPNSF NLTVTDEYIQ
610 620 630 640 650
TRMDKVQINC LQYVCGSSLD CRKLFQQYGP VCDNILSVVN SVGQKEDMEL
660 670 680 690 700
LNFYSSTKPA GFNTPVLSNV STGEFNISLL LTNPSSRRKR SLIEDLLFTS
710 720 730 740 750
VESVGLPTND AYKNCTAGPL GFFKDLACAR EYNGLLVLPP IITAEMQALY
760 770 780 790 800
TSSLVASMAF GGITAAGAIP FATQLQARIN HLGITQSLLL KNQEKIAASF
810 820 830 840 850
NKAIGHMQEG FRSTSLALQQ IQDVVSKQSA ILTETMASLN KNFGAISSVI
860 870 880 890 900
QEIYQQFDAI QANAQVDRLI TGRLSSLSVL ASAKQAEYIR VSQQRELATQ
910 920 930 940 950
KINECVKSQS IRYSFCGNGR HVLTIPQNAP NGIVFIHFSY TPDSFVNVTA
960 970 980 990 1000
IVGFCVKPAN ASQYAIVPAN GRGIFIQVNG SYYITARDMY MPRAITAGDV
1010 1020 1030 1040 1050
VTLTSCQANY VSVNKTVITT FVDNDDFDFN DELSKWWNDT KHELPDFDKF
1060 1070 1080 1090 1100
NYTVPILDID SEIDRIQGVI QGLNDSLIDL EKLSILKTYI KWPWYVWLAI
1110 1120 1130 1140 1150
AFATIIFILI LGWVFFMTGC CGCCCGCFGI MPLMSKCGKK SSYYTTFDND
1160
VVTEQYRPKK SV
Length:1,162
Mass (Da):128,047
Last modified:July 1, 1989 - v1
Checksum:i0BAAD58113C8EBD5
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti122L → I in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti130L → F in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti364K → R in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti405G → D in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti421N → H in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti623K → N in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti683N → T in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti689K → R in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti692L → V in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti709N → D in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti723F → L in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1
Natural varianti1012S → I in strain: Isolate Vero cell-adapted p36 and Isolate Vero cell-adapted p65. 1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M95169 Genomic RNA. Translation: AAA70235.1.
X02342 Genomic RNA. Translation: CAA26201.1.
DQ001342 mRNA. Translation: AAY21248.1.
DQ001339 Genomic RNA. Translation: AAY24433.1.
PIRiS14939.
RefSeqiNP_040831.1. NC_001451.1.

Genome annotation databases

GeneIDi1489741.
KEGGivg:1489741.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M95169 Genomic RNA. Translation: AAA70235.1.
X02342 Genomic RNA. Translation: CAA26201.1.
DQ001342 mRNA. Translation: AAY21248.1.
DQ001339 Genomic RNA. Translation: AAY24433.1.
PIRiS14939.
RefSeqiNP_040831.1. NC_001451.1.

3D structure databases

ProteinModelPortaliP11223.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiP11223.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1489741.
KEGGivg:1489741.

Phylogenomic databases

KOiK19254.

Family and domain databases

Gene3Di1.20.5.790. 1 hit.
InterProiView protein in InterPro
IPR002551. Corona_S1.
IPR002552. Corona_S2.
IPR027400. S_HR2.
PfamiView protein in Pfam
PF01600. Corona_S1. 1 hit.
PF01601. Corona_S2. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSPIKE_IBVB
AccessioniPrimary (citable) accession number: P11223
Secondary accession number(s): P05134, Q4ZJS1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: July 1, 1989
Last modified: October 5, 2016
This is version 102 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.