Strain

ITALY_PIG_2009_NC_028806 (Region: Italy;  Strain: Swine enteric coronavirus strain Italy/213306/2009, complete genome.;  Date: 2009)

Gene

spike protein

Description

Annotated in NCBI,  spike protein

Location

NC_028806(+):20355-24503

GenBank Accession

YP_009199242.1

Full name

Spike glycoprotein      

Alternative Name

E2
Peplomer protein

CDS

ATGAAGTTTTTAATCCACTGCTGGTTGTTCCTACCGCTATTGTCAGCCCTCAGCCTAACACAAGATGTCACTAGGTGTGGGGTAAACACTAATTTTAGACGGTTCTTTTCAAAATTCAATGTCCAGGCACCTGCCACCGTCATATTGGGTGGTTATCTACCTAGTATGAACTCTTCTAGCTGGTACTGTGGCCAAGGCATTGAAACTGCTAGTGGCGTCCACGGTATCTTTCTTAGCTACATTGATTCTGGCCAGGGCTTTGAAATTGGCATTGCGCAAGAGCCGTTTGACCCTAGTGGTTACCAGCTTTATCTATATAAGGATAATGGTAACACTGGTGCTACTGCACGACTGCGTATTTGCCAGTTTCCCCACAATAAAACATTGGGCCCCAGTGTTGGTGACGTTACAACAGGTCGTAACTGCCTAGTCAACAAAGCCATTCCAGCTCACCTGCAGGATAACAAAAACATTGTTGTCGGCTTAACATGGGATAATGATCGTGTCACTGTTTTTGCTGACAAGATCTATCATTTTTATCTTAAAAATGAATGGTCTCGTGTTGCGACAAGATGTTATAATAAGCGAAGTTGTGCTATGCAATATGTTTACACACCCATTTACTACATGCTTAATGTTACTAGTTCAGGTGAGGATGGTATTTACTACGAACCCTGCATATCCAATTGCATTGGTTACGCTGCTAATGTATTTGCCACTGAGTCCAATGGTCATATACCAGATAGTTTTAGTTTTAACAACTGGTTTCTTTTGTCCAATGACTCCACTTTGTTGCATGGTAAAGTGGTTTCTAATCAACCTTTGTTGGTCAATTGCCTCTGGGCCATTCCTAAGATTTATGGATTAGGCCAATTTTTCTCATTCAATCAAACGCTGGGTGGCTCTTGTAATGGAGCTGCTGCTGAGCGTGCCCCAGAGGCTTTGAGGTTTAACATTAATGACACCTCTGTCATTCTTGCTGACGGTTCAATTGTACTTCATACTGCTTTAGGAACAAATTTTTCTTTTGTTTGCAGTAATTCCTCAAACCCACATACAGCCACTTTCACTTTACCTTTGGGTGCTACTAAAGTACCCTACTATTGCTTTCTTAAAGTGGACACTTACAACTCCACTGTCTATAAATTCTTGGCTGTTTTACCTCCTACTGTCAGGGAAATTGTCATCACCAAGTACGGTGATGTTTATGTTAATGGGTTTGGCTATTTGCATATAGGTTTGCTGGATGCTGTCACAATTAATTTCACTGGCCATGGCACTGACGGCGACGTCTCAGGTTTCTGGACCATAGCATCGACTAATTTTGTTGATGCACTCGTCGAGGTTCAAGGAGCTGCCATTCAGCGTATTCTTTATTGTGATGATCCTGTTAGCCAACTCAAGTGTTCTCAGGTTTCTTTTGATCTTGATAATGGTTTTTACCCTATCTCTTCTAGAAACCTTCTGAGTCATGAACAGCCAATTTCTTTTGTTACTTTGCCCTCATTTAATGATCATTCTTTTGTTAATATTACTGTCTCTGCAGCTTTTGGTGGTCATAGTGGTGCCAATCTTGTTGCATCTGACACTACTATCAATGGGTTTAGTTCTTTCTGTGTTGAAACTAGACAATTTACCATCACACTGTTTTATAATGTTACAAACAGCTATGGTTACGTGTCTAAATCACAGACTAGCAATTGCCCTTTCACCTTGCAATCTGTTAATGATTACCTGTCTTTTAACAAATTTTGTATTTCAACCAGCCTTTTGGCTGGTGCTTGTACCATAGATATTTTTGGTTACCCTGATTTTGGTAGTGGTGTTAAGTTGACGTCCCTTTATTTTCAATTCACAAAAGGTGAGTTGATTACCGGCACGCCTAAACCACTTGTAGGTGTCACGGACGTTTCTTTTATGACTCTGGATGTTTGTACCAAGTATACTATCTATGGCTTCAAAGGTGAGGGTATTATTACCCTTACAAATTCTAGCTTTTTAGCAGGTGTTTATTATACATCTGATTCTGGACAGTTATTAGCTTTTAAGAATGTTACCAGTGGTGCTGTTTATTCTGTCACACCATGCTCTTTTTCAGAGCAGGCTGCATATGTTAATGATGATATAGTGGGTGTTATTTCTAGTTTGTCTAACTCCACTTTTAATAATACTAGGGAGTTGCCTGGTTTCTTCTACCATTCTAATGATGGCTCTAATTGTACAGAGCCTGTGTTGGTGTACAGTAACATAGGTGTTTGTACATCTGGCAGTATTGGCTATGTTCCATATCAGCATGGCCAAGTCAAGATTGCACCTACCGTTACTGGGAATATTAGTATTCCCACCAACTTTAGTATGAGTATTAGAACAGAGTACTTACAGCTTTACAACACACCTGTTAGTGTTGATTGTGCTACATATGTTTGCAATGGTAACTCCCGTTGTAAACAACTACTTTCCCAGTACACCGCAGCGTGTAAGACCATAGAATCAGCATTACAACTCAGCGCCAGGCTTGAGTCTGTTGAAGTCAACTCTATGCTTACTATCTCTGAAGAGGCTCTACAGTTAGCTGACATCAGTTCGTTTAATGGCGATGGATATAATTTTACCAGTGTGCTGGGTGTTTCTGTGTATGATCCAACAAGTGGCAGGGTGGTACAAAAAAGGTCTCTTATTGAAGACCTGCTCTTTAATAAAGTGGTTACTAATGGCCTTGGTACTGTTGATGAAGACTATAAGCGCTGTACTAATGGTCGCTCTGTGGCTGATTTAGTCTGTGCGCAGTATTACTCTGGTGTAATGGTACTACCTGGCGTTGTTGACGCTGAGAAGCTTCACATGTACAGTGCGTCTCTCATTGGTGGTATGGCGCTAGGCGGTTTAACTGCTGCGGTGGCATTGCCTTTTAGCTATGCTGTTCAAGCAAGACTTAATTATCTTGCCTTACAGACGGATGTTCTACAGCGCAACCAGCAATTGCTTGCTGAGTCTTTTAACGCTGCTATTGGTAATATAACTTCAGCCTTCGATAGTGTTAAAGAGGCTATTAGTCAGACTTCCCAGGGTTTGAACACTGTGGCTCATGCGCTTAATAAGGTTCAAGAGGTTGTTAATTCGCAGGGTGCAGCCTTGTCTCAACTTACTTTACAGCTTCAACACAACTTTCAAGCCATTTCTAGTTCTATTGATGATATTTATTCTCGACTGGACAGTCTTTCAGCTGATGTTCAGGTTGACCGTCTCATCACCGGCAGGTTATCAGCACTTAATTCTTTTGTTTCTCAAACCCTCGCTAAGTATACTGAGGTTCAGGCTAGCAGAAAGTTAGCACAGCAAAAGGTTAATGAGTGCGTCAAATCGCAATCTCAGCGTTATGGTTTTTGTGGTGGTGATGGTGAACATATTTTCTCTCTGGTACAGGCCGCACCGCAGGGCCTGCTGTTTTTACACACAGTACTTGTACCGGGCGATTTTGTAAATGTTATTGCCATCGCTGGCTTATGCGTTAATGATGAAATTGCCTTGACTCTACGTGAGCCTGGATTAGTCTTGTTTACGCATGAACTTCAAACCTACAATGCGACGGAATATTTTGTTTCTTCGCGACGTATGTTTGAACCTAGAAAACCTACTGTTAGTGATTTTGTTCAAATTGAGAGTTGTGTGGTCACCTATGTCAATTTGACTAGCGACCAACTACCAGATGTAATCCCAGATTACATTGATGTTAACAAAACATTTGATGAGATTGTAGCTTCTCTGCCCAATAGAACTGGTCCAAGTCTTCCTATAGATGTTTTTAATGCCACCTATCTTAATCTCACTGTTGAAATTGCAGATTTAGAGCAGCGCTCAGAGTCTCTTCATAATATTACAGAAGAGCTCCGAAGTCTCATATACAATATCAACAACACACTTGTTGACCTTGAGTGGCTCAATCGGGTTGAGACATATATCAAGTGGCCATGGTGGGTTTGGTTGATCATTTTCATTGTTCTCATCTTTGTTGTGTCATTACTAGTGCTCTGTTGCATTTCCACGGGTTGTTGTGGATGCTGCGGTTGCTGCGGTGCTTGTTTTTCAGGTTGTTGCAGAGGTCCTAGACTCCAACCTTACGAAGCTATTGAAAAGGTTCATGTGCAGTGA

Protein

MKFLIHCWLFLPLLSALSLTQDVTRCGVNTNFRRFFSKFNVQAPATVILGGYLPSMNSSSWYCGQGIETASGVHGIFLSYIDSGQGFEIGIAQEPFDPSGYQLYLYKDNGNTGATARLRICQFPHNKTLGPSVGDVTTGRNCLVNKAIPAHLQDNKNIVVGLTWDNDRVTVFADKIYHFYLKNEWSRVATRCYNKRSCAMQYVYTPIYYMLNVTSSGEDGIYYEPCISNCIGYAANVFATESNGHIPDSFSFNNWFLLSNDSTLLHGKVVSNQPLLVNCLWAIPKIYGLGQFFSFNQTLGGSCNGAAAERAPEALRFNINDTSVILADGSIVLHTALGTNFSFVCSNSSNPHTATFTLPLGATKVPYYCFLKVDTYNSTVYKFLAVLPPTVREIVITKYGDVYVNGFGYLHIGLLDAVTINFTGHGTDGDVSGFWTIASTNFVDALVEVQGAAIQRILYCDDPVSQLKCSQVSFDLDNGFYPISSRNLLSHEQPISFVTLPSFNDHSFVNITVSAAFGGHSGANLVASDTTINGFSSFCVETRQFTITLFYNVTNSYGYVSKSQTSNCPFTLQSVNDYLSFNKFCISTSLLAGACTIDIFGYPDFGSGVKLTSLYFQFTKGELITGTPKPLVGVTDVSFMTLDVCTKYTIYGFKGEGIITLTNSSFLAGVYYTSDSGQLLAFKNVTSGAVYSVTPCSFSEQAAYVNDDIVGVISSLSNSTFNNTRELPGFFYHSNDGSNCTEPVLVYSNIGVCTSGSIGYVPYQHGQVKIAPTVTGNISIPTNFSMSIRTEYLQLYNTPVSVDCATYVCNGNSRCKQLLSQYTAACKTIESALQLSARLESVEVNSMLTISEEALQLADISSFNGDGYNFTSVLGVSVYDPTSGRVVQKRSLIEDLLFNKVVTNGLGTVDEDYKRCTNGRSVADLVCAQYYSGVMVLPGVVDAEKLHMYSASLIGGMALGGLTAAVALPFSYAVQARLNYLALQTDVLQRNQQLLAESFNAAIGNITSAFDSVKEAISQTSQGLNTVAHALNKVQEVVNSQGAALSQLTLQLQHNFQAISSSIDDIYSRLDSLSADVQVDRLITGRLSALNSFVSQTLAKYTEVQASRKLAQQKVNECVKSQSQRYGFCGGDGEHIFSLVQAAPQGLLFLHTVLVPGDFVNVIAIAGLCVNDEIALTLREPGLVLFTHELQTYNATEYFVSSRRMFEPRKPTVSDFVQIESCVVTYVNLTSDQLPDVIPDYIDVNKTFDEIVASLPNRTGPSLPIDVFNATYLNLTVEIADLEQRSESLHNITEELRSLIYNINNTLVDLEWLNRVETYIKWPWWVWLIIFIVLIFVVSLLVLCCISTGCCGCCGCCGACFSGCCRGPRLQPYEAIEKVHVQ

Function

S1 region attaches the virion to the cell membrane by interacting with host ANPEP/aminopeptidase N, initiating the infection. Binding to the receptor probably induces conformational changes in the S glycoprotein unmasking the fusion peptide of S2 region and activating membranes fusion. S2 region belongs to the 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) regions 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. During virus morphogenesis, found in a complex with M and HE proteins. Interacts with host ANPEP.

Similarity

Belongs to the alphacoronaviruses spike protein family.

Keywords

3D-structure   Coiled coil   Glycoprotein   Host membrane   Host-virus interaction   Membrane   Signal   Transmembrane   Transmembrane helix   Viral attachment to host cell   Viral envelope protein   Virion   Virulence   Virus entry into host cell  

Feature

chain  Spike glycoprotein

Uniprot

A0A0U2L0Z5   A0A1D8ELP8   A0A1L3GVA2   I1TLC3   A0A1L3GVC2   A0A291PWN2   + More
A0A291PWM3   F5HND5   F5HNC9   F5HND0   F5HND1   A0A513PXP7   A0A5J6KLJ5   A0A2Z4QJF4   A0A1Z2WWY5   A0A2N8Z1W1   Q91AV1   A0A2N8Z1U7   A0A0K0WTL0   A0A2N8Z212   A0A239QPZ3   F5HND2   A0A0U3HSZ7   A0A5J6KK84   A0A0M4I404   A0A0U2SJS6   A0A2Z4QJA6   Q84712   I7BQC9   Q0GJJ0   A0A238TMM2   A0A2N8Z1T8   A0A3S8TLM6   I1TLD0   A0A5A4M1V6   A0A3S8TLU1   A0A5A4M1T6   I2EBM8   A0A0D5BVW6   A0A221HZH0   I2EBM9   H2DFZ6   A0A0P0E569   A0A109QKG8   A0A067YRL9   A0A0A8LEG6   A0A238TMM6   A0A0A8LF79   I7FS14   A0A0H4LTY7   J7LK74   A0A0P0F2D1   A0A5A4MDF7   A0A0H4A7A7   A0A075EAW2   A0A2R4FC33   A0A239QNQ6   A0A075ECF0   I3WD86   G5D078   A0A0F6TKU6   A0A3G2C516   A0A0K1LUM5   L7YE88   A0A238TQ27   A0A238TN36   A0A238TN08   A0A075EC92   A0A0S3MR49   Q692M1   A0A0U3SHN8   A0A0M5JV19   A0A238TM74   A0A5A4M655   A0A5J6KLN8   A0A238TMH6   A0A0K1LUK6   A0A068BEA0   A0A0E3XJT7   S4V9P2   A0A223DMZ5   A0A0H4J507   A0A1L3KJ30   A0A2L0V4P5   A0A2N8Z1U0   A0A1C9C4H1   A0A0M4HL64   A0A1C9C4G6   I2EBM6   A0A238TPF5   A0A3Q8TLN3   A0A238TMZ1   A0A1B3Q5X6   A0A239QPT4   A0A239QNW7   A0A0K2D7L3   A0A3Q8TMG0   I7BGJ8   A0A0K2D774   A0A0M4HL41  

Pubmed

27619563    22532530    21559974    28605965    8291230    9782358    + More
11724265    29540176    27056240    26714453    8397280    8176382    17072758    22843324    26611909    25279722    22840964    21980030    26044419    29981699    23599287    26477934    25999551    28755162    27880757   

EMBL

KR061459    ALR84915.1    KX689261    AOT21919.1    KY019624    APG31005.1    + More
JQ023161    AFE85962.1    KY019623    APG30998.1    KY305289    ATL23493.1    KY305287    ATL23491.1    AB548624    BAK32944.1    AB548618    BAK32938.1    AB548619    BAK32939.1    AB548620    BAK32940.1    MH593900    QAY31031.1    MK648473    QEV88421.1    MF974248    AWY10517.1    KX289955    KY305288    ASB30081.1    ATL23492.1    LT906620    SNX30664.1    AF353511    LT906582    SNW64184.1    KP768390    AKS26489.1    LT906581    SNW64190.1    LT898439    LT900499    SNQ28038.1    SNT95659.1    KY619780    AB548621    ATJ03635.1    BAK32941.1    KU297956    ALU34112.1    MK648470    QEV88418.1    KT206205    ALD19741.1    KR061458    ALR84908.1    MF974247    AWY10516.1    Z25483    CAA80971.1    JX018180    AFO42861.1    DQ862099    ABI30278.1    LT898436    LT898435    SNQ28016.1    SNQ28045.1    LT905450    SNU46336.1    MH593141    AZL47242.1    JQ023162    AFE85969.1    MG198645    AXS76469.1    MH593148    AZL47249.1    MG198635    AXS76459.1    JQ638923    AFJ97038.1    KP162057    AJW67223.1    KY381581    LT898447    ASM46788.1    SNQ28088.1    JQ638924    AFJ97039.1    JN599150    KT323979    AEX92968.1    ALS35469.1    KR514324    ALJ33145.1    KT428878    AMB20700.1    KJ158152    KY420075    AHG97559.1    ASO96550.1    LM645057    CDW77205.1    LT898423    SNQ27930.1    LM645058    CDW77213.1    JX070672    AFP25201.1    KP698769    AKP16768.1    JX242464    KP399632    AFR11482.1    ALD19721.1    KR514323    ALJ33144.1    MG198638    AXS76462.1    KR296682    AKN45984.1    KJ645649    AID56751.1    MF038017    AVT28076.1    LT898413    LT900502    SNQ27899.1    SNT95671.1    KJ645655    AID56787.1    JQ239431    AFL02626.1    JN547228    AEQ55004.1    KR011756    LT898416    LT898409    LT898410    LT898430    LT898446    LT900498    AKE47378.1    SNQ27923.1    SNQ27941.1    SNQ27961.1    SNQ27991.1    SNQ28064.1    SNT95653.1    MG706122    AYM47397.1    KR011122    LT898415    LT898414    LT898411    LT898412    LT898425    LT898427    LT898426    LT898438    LT898444    LT898417    AKU46227.1    SNQ27893.1    SNQ27911.1    SNQ27917.1    SNQ27955.1    SNQ27973.1    SNQ27985.1    SNQ28010.1    SNQ28022.1    SNQ28076.1    SNQ28082.1    KC109141    KC210146    AGD98685.1    AGG55745.1    LT898432    LT898443    SNQ27967.1    SNQ28057.1    LT898445    SNQ28070.1    LT898431    SNQ27978.1    KJ645635    KJ645702    KJ645704    LC063846    AID56667.1    AID57069.1    AID57081.1    BAT33329.1    LC063847    BAT33335.1    AY653204    AAT75298.1    KT388412    ALV66164.1    KT206204    LT898418    LT898433    LT898441    ALD19740.1    SNQ27931.1    SNQ27997.1    SNQ28051.1    LT898421    SNQ27905.1    MG198633    AXS76457.1    MK648472    QEV88420.1    LT898440    SNQ28032.1    KR011121    AKU46226.1    KJ642641    AIC83850.1    KR003452    AKC34872.1    KC787543    AGO59793.1    KY775053    ASS83140.1    KR265761    KP688354    AKJ21713.1    AKO63237.1    KX883635    APG77336.1    MG781192    AUZ98436.1    LT905451    SNU46342.1    KX534206    AOM53015.1    KT206206    ALD19742.1    KX534205    AOM53008.1    JQ638921    AFJ97036.1    LT898408    SNQ27887.1    MH061338    AZL47204.1    LT898420    SNQ27949.1    KU985229    AOG30831.1    LT900500    SNT95665.1    LT900501    SNT95677.1    KP870131    ALA15724.1    MH061336    AZL47192.1    JX018181    AFO42862.1    KP870128    ALA15721.1    KP399614    ALD19703.1   

Proteomes

UP000125818    UP000122353    UP000276154    UP000008159    UP000274194    UP000269222    + More
UP000269355    UP000274124    UP000132054    UP000124407    UP000278990    UP000280596    UP000278337    UP000126260    UP000096075    UP000271135    UP000180353    UP000149796    UP000138211    UP000277354    UP000155002    UP000161506    UP000270497    UP000274353    UP000151262    UP000095955    UP000100204    UP000267271    UP000276298    UP000277020    UP000279022    UP000280517    UP000281047    UP000270191    UP000270545    UP000273819    UP000274834    UP000275549    UP000275656    UP000275831    UP000276052    UP000278039    UP000278495    UP000134644    UP000180354    UP000272790    UP000276964    UP000281631    UP000267609    UP000122852    UP000136506    UP000147669    UP000153418    UP000107825    UP000271078    UP000274992    UP000278554    UP000268721    UP000267306    UP000166734    UP000096896    UP000107726    UP000281783    UP000277927    UP000269867    UP000271448    UP000281935   

PRIDE

Q91AV1   

Pfam

PF01601   Corona_S2
PF01600   Corona_S1

Interpro

IPR002551   Corona_S1
IPR002552   Corona_S2
IPR042552   ALPHA_CORONA_SPIKE

ProteinModelPortal

A0A0U2L0Z5   A0A1D8ELP8   A0A1L3GVA2   I1TLC3   A0A1L3GVC2   A0A291PWN2   + More
A0A291PWM3   F5HND5   F5HNC9   F5HND0   F5HND1   A0A513PXP7   A0A5J6KLJ5   A0A2Z4QJF4   A0A1Z2WWY5   A0A2N8Z1W1   Q91AV1   A0A2N8Z1U7   A0A0K0WTL0   A0A2N8Z212   A0A239QPZ3   F5HND2   A0A0U3HSZ7   A0A5J6KK84   A0A0M4I404   A0A0U2SJS6   A0A2Z4QJA6   Q84712   I7BQC9   Q0GJJ0   A0A238TMM2   A0A2N8Z1T8   A0A3S8TLM6   I1TLD0   A0A5A4M1V6   A0A3S8TLU1   A0A5A4M1T6   I2EBM8   A0A0D5BVW6   A0A221HZH0   I2EBM9   H2DFZ6   A0A0P0E569   A0A109QKG8   A0A067YRL9   A0A0A8LEG6   A0A238TMM6   A0A0A8LF79   I7FS14   A0A0H4LTY7   J7LK74   A0A0P0F2D1   A0A5A4MDF7   A0A0H4A7A7   A0A075EAW2   A0A2R4FC33   A0A239QNQ6   A0A075ECF0   I3WD86   G5D078   A0A0F6TKU6   A0A3G2C516   A0A0K1LUM5   L7YE88   A0A238TQ27   A0A238TN36   A0A238TN08   A0A075EC92   A0A0S3MR49   Q692M1   A0A0U3SHN8   A0A0M5JV19   A0A238TM74   A0A5A4M655   A0A5J6KLN8   A0A238TMH6   A0A0K1LUK6   A0A068BEA0   A0A0E3XJT7   S4V9P2   A0A223DMZ5   A0A0H4J507   A0A1L3KJ30   A0A2L0V4P5   A0A2N8Z1U0   A0A1C9C4H1   A0A0M4HL64   A0A1C9C4G6   I2EBM6   A0A238TPF5   A0A3Q8TLN3   A0A238TMZ1   A0A1B3Q5X6   A0A239QPT4   A0A239QNW7   A0A0K2D7L3   A0A3Q8TMG0   I7BGJ8   A0A0K2D774   A0A0M4HL41  

PDB

6U7K     E-value=0,     Score=6556