Strain

JAPAN_FERRET_2013_LC119077 (Region: Japan;  Strain: Ferret coronavirus genomic RNA, complete genome, strain: FRCoV4370.;  Date: 2013)

Gene

spike protein

Description

Annotated in NCBI,  spike protein

Location

LC119077(+):20215-24564

GenBank Accession

BAV31349.1

Full name

Spike glycoprotein      

Alternative Name

E2
Peplomer protein

CDS

ATGTGTAACATGATCGGGGTAACATTGTTGTTACTTTCGTGTGTTAGTCTTGTTATAACATACGAGAACTACAATTTTACCACTGATTTTTCGCAGTGTGATTCTACAGAGTTCATAAACACGACGTTGGTAAATCAGTATTATCTTCTAGACAATTTTATTAAAGATTATAGTAAGCGTTTACCAACAAGTTCCCATGTGGTGTTAGGAGATTATTTTCCTACAGTACAACCATGGTATGGTTGTAGGTTTAATAGAAGTGCAAACGGTACAATGCTATCCTTGCATGACATTAAAGCTCTATATTGGGATGTTAGGAAGACTAATACCACAGTCTCTGATTGTTTTGTGGTACACCTTTATGGCGAACCGTACACTGTAACTGTTAAAATATCAGCTCATCACATTATAGCGAAAGATCGTAATGTTATGTGCATTTGTAGCGGGAAGCATGAACCGTATAATTACGACTGTTTAGCTGAAGGCAGAACTTGTGGTGATGGCTGCACGCCGCACACTTTCACAGCATGTGCCAATGCGAGCACCTGTGGTGACACTCTCTTTGGTTTGCGCTGGTCAAATTCCGAACTGGCAGCATATTTATCTGGCAACGTGTATCGTTTTAGATTAGCCAACCATTGGTACAATTATGCCACCATATCAGATCCTGATCCCTATAAGGGTGATAATAGTTGGTGGTTTAACCCTGTTAAAAGTTTCACTTATTACAACGTTAGCAAACTTAGTAATGGTACTGTTGTTTTTTCCAATTGCACCCATAATTGTGCAGATTATGTGACCAATGTATTTGCCGTCGAGGAAGGCGGGCTCATACCACCAGATTTTAGTTTCAACAATTGGTTTGTTTTAACAAACAGTTCGACAGTTACTAGTGGCAAGTTTGTTTCGAGCCAGCCTCTACTTGTTAATTGTTTAACACCTGTGCCTAGTTTTGGTGAGGAGGCTCTAACCGTGGGTTTCAACGAAATCCCTAGCCAATGTAATGGTGCTACTGTCAACAACAGTTTTGATGTTGTTAGGTTTAACCTAAATTTCACGAGTGGTGTTGCGTCAGCTAGTGGTGCCAAGTCTATTGCGTTGAACACAACTGGTGGTGTTGTATTATATCTATCTTGTTTTAATGAGTCTAGAACTACAAATTTGCTTAGTAGTAACGGTTATGTACCATTTGGTGAACATGAAGGTGCTCTTTATTGTTATGTCAGTTACAATGACACCATGTTTAAGTTCATTGGCGTACTACCACCTAGTGTTCAAGAAATAGCTATTAGCAAATGGGGTGGTGTTTATGTCAATGGTTACAATTACTTCCAAACATTTCCACTTGATAGCGTTTCATTTAATCTAACGACTGGTAGTAGTGGTGCATTTTGGACTGTGGCTTATACGACATTTACAGATGTACTGTTAGATGTCGCAGACACACAAATCAAGAGTGTCGTGTATTGTAATAGTTATGTTAATGATATTAAATGTTCACAGTTGTCTACCAACCTACCGGATGGGTTTTACCCTGTGTCCTCTTTAAACCTGCCCAACGCTAATTTGAGTTTTGTAACATTGCCAGCTAATTTTGATCATAGTTACATTAATGTTACAGGTAATGTGAAAGTGGCTGTTTATGGCAAGCCTCAAATTTTGTCTGAAAGTAGTAATGTAACTCTCTACTCTGGTACTGTACAGTCATTGTGTGTAAACACGTCACAGTTTACACTTAATTTTAACTCCTATTGCAGCGTTCAATATGGCTCTACATGTTCTGGTGCAGCCAGGACAGAAGTTGTAGTTGGGTCAGGTAGTTGTCCTTTTTCATTCGACAAGTTGAATAAGCACATGACTTTTGAGAAATTGTGCTTCTCAACGATACCGGTGGATGATGATTGTAAGTTTGATTTAATAGCGAGAACAATGTTGGGTGATTTTGTGTTTGCACAATTGTATGTTGGTTATAAGTTTGGTCTGGACATCACGGGTGTAGAACGTCCAAACACAGGTGTTAAAGACCTATCCAACTTGCACCTAAATGTGTGTACTGAGTACAACATTTATGGACATGTTGGATTTGGCATTATAAGACAAACTAATGAGACACTTTTTGGAGGTCTGTACTACACTTCATTGTCAGGAGATCTTTTAGGTTTTAAAAATGTGACAACTGGTGTTGTGTATTCCATAACACCTTGTGAAGTTAGTGCACAAGCGGCAGTCATAGGTGGTAAGATAGTAGGTGCTATTACGTCTGTTGAGTCTGACATGCTAAACCTACCACATTACATTGAAACACCGTCGTTTTACTACCGCTCTATTTACAATTATAGTGCTATGACTTATGCGACATCAGGTATGCAAAAATACCTTGTTAATTGCACACCAGTTATCACATACTCTAATATGGGCGTGTGTGAAAATGGTGCTTTGGTATTTGTCAATATTACACAAAGTAATAGTGTTGCACAACCTATAAGCACTGGTAACATTACAATCCCTAGTAATTTTACAATTTCAGTGCAGGTTGAGTACCTCCAAATGTCTTCTGAGTTAGTCTCAATCGACTGTGCTCGGTATGTTTGTAACGGCAATGCTAGGTGCAACAAGTTGCTTACACAGTACATGAGCGCATGCCACACTATAGAGCAAGCATTGCAAACGGGTGTTAGGTTAGAGTCTCTAGAATTAGAGTCTATGATCTCTATATCTGATGCAGCTCTTGCTATTGCATCGGTTGACGAATTTAACAGTTCTCAGTACTTGAACCCTGTGTATAGTGAAGGTAACAACACTATAGGTGGAATTTACATGGATGGTCTTATGAACATACTTCCTAAAAAGGGATGCACTAACAAACACGGTTCCTGTCGTTCCACTATAGAAGATCTGTTGTTTAATAAGGTTGTAACATCAGGACTTGGTACTGTTGATGAGGATTATAAGCGTTGTACTAAAGGTTTGGACATAGCAGACTTGGTGTGTGCTCAATACCATAATGGCATTATGGTGCTACCAGGTGTCGTCAATAGTGACAAGATGGCTATGTACACAGCATCCCTCGCAGGTGGTATAACTTTAGGAGCTTTAGGTGGTGGCCTTGTAGCTGTACCTTTTGCCACTGCTGTGCAAGCGCGACTAAATTATGTTGCTCTTCAGACAGATGTTTTACAGAAAAATCAGAAAATGTTAGCAGCCTCCTTCAATCAAGCCATTGGTAACATCACGCAGGCTTTTGGTAAAGTTAACAGTGCCATTCAGCAAACTGCTAAGGGACTATCAACTGTAGCACAAGCCCTTACAAAAGTTCAAGATGTTGTCAATAGTCATGGCAAGGCTTTGAACCAACTCACTGCACAACTGCAAAACAATTTTCAGGCTGTTAGCAGTTCTATAGCTGATATCTATTATAGATTGGATGAGCTTCATGCTGACGCTCAAGTTGATCGTCTTATAACAGGCAGGTTGGCAGCACTTAATGCCTTTGTCACTCAAACACTGACGAGAATGACTCAGGTTCGTGCTAGCAGACAGTTGGCTAAAGAAAAGATTAATGAGTGTGTGCGTTCACAGTCTAGTAGGTTTGGTTTCTGTGGCAACGGCACTCACTTGTTTTCTTTAGCTAATGCTGCACCTAGTGGTATCATGCTATTTCATACTGTCCTAGTGCCCACGTCTTACACAAGTGTAGTAGCGTGGTCTGGCATTTGTTTTGAGAACGTTGGTTTGATTGTCAAGGATGTTTCGTTGACGTTGTTTAAAACTCATGATGGTAACTTCTACTTGACACCACGTACTATGTATGAGCCGCGTGTTGCGACTAGTGCAGATTTCGTGCGAATTAATAGCTGTGCCACTACATTTGTTAATGCCACTGTTACAGAGCTACCTAATATTATACCTGATTATATTGATGTTAATAAGACAATTCAAGACATGCTAGAGCAGTACAAGCCCAATTGGACAGTACCAAATTTATCCCTTGACTTATTCAATCTAACATATCTAAATCTCACGGGTGAGATTAATGATTTAGAGAACAGGTCTGCCACCTTGCAACAAACTGTTGTCGAATTACAGACTTTAATTGATAATATTAATGGGACTCTTGTAAATCTTGAGTGGCTTAACACAATTGAAACATATGTTAAGTGGCCCTGGTGGGTTTGGGTTATTATTGGGTTAATATTGCTGATTGCTTTACCTATTTTGTTATTCTGTTGTTTATCAACAGGTTGTTGTGGCTGTTGTGGTTGTTTAACCAGCTGCTTAGCCGGTTGTTGTAAAAATAGTTGTAAAAGGCCGTCTTATTATGAGCCTATAGAGAAAGTGCATATAAATTAG

Protein

MCNMIGVTLLLLSCVSLVITYENYNFTTDFSQCDSTEFINTTLVNQYYLLDNFIKDYSKRLPTSSHVVLGDYFPTVQPWYGCRFNRSANGTMLSLHDIKALYWDVRKTNTTVSDCFVVHLYGEPYTVTVKISAHHIIAKDRNVMCICSGKHEPYNYDCLAEGRTCGDGCTPHTFTACANASTCGDTLFGLRWSNSELAAYLSGNVYRFRLANHWYNYATISDPDPYKGDNSWWFNPVKSFTYYNVSKLSNGTVVFSNCTHNCADYVTNVFAVEEGGLIPPDFSFNNWFVLTNSSTVTSGKFVSSQPLLVNCLTPVPSFGEEALTVGFNEIPSQCNGATVNNSFDVVRFNLNFTSGVASASGAKSIALNTTGGVVLYLSCFNESRTTNLLSSNGYVPFGEHEGALYCYVSYNDTMFKFIGVLPPSVQEIAISKWGGVYVNGYNYFQTFPLDSVSFNLTTGSSGAFWTVAYTTFTDVLLDVADTQIKSVVYCNSYVNDIKCSQLSTNLPDGFYPVSSLNLPNANLSFVTLPANFDHSYINVTGNVKVAVYGKPQILSESSNVTLYSGTVQSLCVNTSQFTLNFNSYCSVQYGSTCSGAARTEVVVGSGSCPFSFDKLNKHMTFEKLCFSTIPVDDDCKFDLIARTMLGDFVFAQLYVGYKFGLDITGVERPNTGVKDLSNLHLNVCTEYNIYGHVGFGIIRQTNETLFGGLYYTSLSGDLLGFKNVTTGVVYSITPCEVSAQAAVIGGKIVGAITSVESDMLNLPHYIETPSFYYRSIYNYSAMTYATSGMQKYLVNCTPVITYSNMGVCENGALVFVNITQSNSVAQPISTGNITIPSNFTISVQVEYLQMSSELVSIDCARYVCNGNARCNKLLTQYMSACHTIEQALQTGVRLESLELESMISISDAALAIASVDEFNSSQYLNPVYSEGNNTIGGIYMDGLMNILPKKGCTNKHGSCRSTIEDLLFNKVVTSGLGTVDEDYKRCTKGLDIADLVCAQYHNGIMVLPGVVNSDKMAMYTASLAGGITLGALGGGLVAVPFATAVQARLNYVALQTDVLQKNQKMLAASFNQAIGNITQAFGKVNSAIQQTAKGLSTVAQALTKVQDVVNSHGKALNQLTAQLQNNFQAVSSSIADIYYRLDELHADAQVDRLITGRLAALNAFVTQTLTRMTQVRASRQLAKEKINECVRSQSSRFGFCGNGTHLFSLANAAPSGIMLFHTVLVPTSYTSVVAWSGICFENVGLIVKDVSLTLFKTHDGNFYLTPRTMYEPRVATSADFVRINSCATTFVNATVTELPNIIPDYIDVNKTIQDMLEQYKPNWTVPNLSLDLFNLTYLNLTGEINDLENRSATLQQTVVELQTLIDNINGTLVNLEWLNTIETYVKWPWWVWVIIGLILLIALPILLFCCLSTGCCGCCGCLTSCLAGCCKNSCKRPSYYEPIEKVHIN

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

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   Reference proteome  

Feature

chain  Spike glycoprotein

Uniprot

A0A1B4X972   A0A222UBY8   D3XGJ4   A0A224AV51   A0A222UC54   A0A0K2SF41   + More
D3XGI6   A0A172AZS6   D9J1Z4   A0A2R4QKY5   D9J204   B7T072   B7T061   B7T4A8   B7T4B7   E7E035   D2WXL7   E7E026   Q4ZJU7   A0A384VAD1   A0A384V9I6   A0A384V9L2   A0A384V9H2   A0A384VNK4   A0A384VGG6   Q0PL30   A0A384VGL9   A0A384VK82   P33470   A0A384V9T3   Q6PQ05   A0A384VNP4   A0A384V9Q2   P18450   A0A384VI41   A0A1L7NS37   A0A1S6KDW1   A4UII8   Q9DY22   Q0PKZ5   A0A0Y0RQT7   P07946   Q84853   M4I9Z1   F1CNY7   Q7T428   Q2LJ83   A0A140EDK0   M4I7F4   A0A1L6BQA9   R9RYG5   A0A384VA48   A0A3T0JMA0   R4R9R9   Q0PL21   A0A384VK31   Q88510   M4I8Z5   A0A384V9D4   Q01977   Q0PL04   A0A4Y6GTK3   M4I7E9   A7UIZ6   C8YR35   Q9YRA7   Q8QQW0   A0A077JJK7   Q0ZVX5   C6K2T6   G8A500   A4UII7   I0B0S0   Q6SR88   I0B0R0   H9TEV8   Q7T6T3   V9PIU3   K7Y4M1   V9PIU7   P10033   F6M1Q9   Q66928   A0A1L7NS43   K7XKS4   Q6TPL2   K7XKR8   Q6T522   A0A1Z2WQT0   H9TEX4   S6B8Z8   S6CE14   Q65984   P36300   S6BPG6   Q5RZ64   O91603  

Pubmed

20079778    21346029    19036814    21481551    17023013    1966416    + More
1964522    27840394    17267506    22876187    3037011    2829461    1326823    10805807    2170676    1350661    8970993    25890036    8546012    20229183    10365166    25180686    16704791    17275120    25953186    20603153    22542271    22438554    15177889    23996606    3312491    16033972    10627571    22002680    8021609    1431811    8985407    18306032   

EMBL

LC119077    BAV31349.1    KX512810    ASR18946.1    GU338457    ADD49358.1    + More
LC215871    BBA21168.1    KX512809    ASR18938.1    LC029419    BAS25710.1    GU338456    ADD49350.1    KM347965    AKG92640.1    HM245925    ADI80513.1    MF113046    AVY53336.1    HM245926    ADI80523.1    EU856362    ACJ63242.1    EU856361    ACJ63231.1    EU924790    ACJ64175.1    EU924791    ACJ64184.1    HQ450377    ADU17734.1    GQ477367    ADB28907.1    HQ450376    ADU17725.1    DQ001167    AAY22404.1    KX900403    ASV64367.1    KX900401    ASV64349.1    KX900395    KX900396    ASV64295.1    ASV64304.1    KX900399    ASV64331.1    KX900400    ASV64340.1    KX900397    ASV64313.1    DQ811785    ABG89301.1    KX900405    KX900406    KX900407    ASV64384.1    ASV64393.1    ASV64402.1    KX900411    ASV64438.1    S51223    KX900404    ASV64375.1    AY587882    AAT00645.1    KX900409    ASV64420.1    KX900408    KX900410    ASV64411.1    ASV64429.1    X53128    KX900398    ASV64322.1    LC190907    BAW32706.1    KX499468    AQT01349.1    EF192156    ABO88142.1    AF302263    AAG30227.1    DQ811789    ABG89335.1    KT696544    AMB66488.1    X05695    M21950    M94101    AJ271965    M94103    AAA46909.1    JQ693052    AFZ88847.1    HQ462571    JN624756    KP202848    ADY39740.1    AFA51944.1    AKA60054.1    AY335548    AY335549    AAQ02623.1    DQ201447    ABC72414.1    KU729220    AML22777.1    JQ693050    AFZ88845.1    KX083668    APQ31244.1    KC962433    AGM75126.1    KX900393    ASV64277.1    MH167923    AZV23901.1    KC609371    AGL80594.1    DQ811786    ABG89306.1    KX900402    ASV64358.1    Z35758    CAA84806.1    JQ693049    AFZ88844.1    KX900394    ASV64286.1    M94099    DQ811788    ABG89325.1    MK272773    QDF46688.1    JQ693051    AFZ88846.1    EU074218    ABU49659.1    FJ755618    ACN71196.1    AF104420    AAC96004.1    AF494337    AAM18703.1    AB907624    BAP19067.1    DQ112226    KP981644    AAZ91437.1    AKA65829.1    GQ152141    ACS44218.1    GU146061    ADB10849.1    EF192155    ABO88141.1    JQ408981    AFH55121.1    AY452031    AAR13815.2    JQ408980    AFH55111.1    JQ404409    AFG19726.1    AY342160    KC461236    AGZ84526.1    KC175339    AFX81091.1    KC461235    KC461237    AGZ84516.1    AGZ84536.1    X06170    DQ010921    AY994055    JF682842    AEE69322.1    X80799    CAA56778.1    LC190906    BAW32705.1    KC175341    AFX81108.1    AY390342    AAQ96366.1    KC175340    AFX81098.1    AY436637    AAR11077.1    KY063616    KY063617    KY063618    ASB15738.1    ASB15748.1    ASB15758.1    JQ404410    AFG19742.1    AB781790    BAN67918.1    AB781788    BAN67900.1    X77047    D13096    AB781789    BAN67909.1    AY796289    AAV65515.1    AB017789    BAA33439.1   

Proteomes

UP000272061    UP000150460    UP000156811    UP000132946    UP000129066    UP000145148    + More
UP000158285    UP000166023    UP000001440    UP000098772    UP000113525    UP000156732    UP000131894    UP000123026    UP000137024    UP000121388    UP000111647    UP000115330    UP000164750    UP000180339    UP000096172    UP000119169    UP000131699    UP000119918    UP000156095    UP000169693    UP000000835    UP000140386    UP000165378    UP000155481    UP000106470   

PRIDE

P33470    P18450    P07946    Q01977    Q7T6T3    P10033    + More
Q65984    P36300   

Pfam

PF01601   Corona_S2
PF01600   Corona_S1

Interpro

IPR002552   Corona_S2
IPR002551   Corona_S1
IPR042552   ALPHA_CORONA_SPIKE

ProteinModelPortal

A0A1B4X972   A0A222UBY8   D3XGJ4   A0A224AV51   A0A222UC54   A0A0K2SF41   + More
D3XGI6   A0A172AZS6   D9J1Z4   A0A2R4QKY5   D9J204   B7T072   B7T061   B7T4A8   B7T4B7   E7E035   D2WXL7   E7E026   Q4ZJU7   A0A384VAD1   A0A384V9I6   A0A384V9L2   A0A384V9H2   A0A384VNK4   A0A384VGG6   Q0PL30   A0A384VGL9   A0A384VK82   P33470   A0A384V9T3   Q6PQ05   A0A384VNP4   A0A384V9Q2   P18450   A0A384VI41   A0A1L7NS37   A0A1S6KDW1   A4UII8   Q9DY22   Q0PKZ5   A0A0Y0RQT7   P07946   Q84853   M4I9Z1   F1CNY7   Q7T428   Q2LJ83   A0A140EDK0   M4I7F4   A0A1L6BQA9   R9RYG5   A0A384VA48   A0A3T0JMA0   R4R9R9   Q0PL21   A0A384VK31   Q88510   M4I8Z5   A0A384V9D4   Q01977   Q0PL04   A0A4Y6GTK3   M4I7E9   A7UIZ6   C8YR35   Q9YRA7   Q8QQW0   A0A077JJK7   Q0ZVX5   C6K2T6   G8A500   A4UII7   I0B0S0   Q6SR88   I0B0R0   H9TEV8   Q7T6T3   V9PIU3   K7Y4M1   V9PIU7   P10033   F6M1Q9   Q66928   A0A1L7NS43   K7XKS4   Q6TPL2   K7XKR8   Q6T522   A0A1Z2WQT0   H9TEX4   S6B8Z8   S6CE14   Q65984   P36300   S6BPG6   Q5RZ64   O91603  

PDB

6U7K     E-value=0,     Score=2489