Strain

CANADA_AVIAN_2007_NC_010800 (Region: Canada;  Strain: Turkey coronavirus, complete genome.;  Date: 2007)

Gene

spike protein

Description

Annotated in NCBI,  spike protein

Location

NC_010800(+):20360-24040

GenBank Accession

YP_001941166.1

Full name

Spike glycoprotein      

Alternative Name

E2
Peplomer protein

CDS

ATGTTGGTGCAGTTGTGTTGCCTGACGATAATCTTGTCACTTGTATGTAATGTGAGTTCTATTCCCACAATTTGTCTCAATGCTACTGTAGGTAGTGGTGTGTGTCTACCTTGCACAAACATACCAGAGTATGCAGATGGTAAAAATGGGGGTGAAGCCCTAGATTTTTATAGTCCAGATGTTATGAGACCGCCAGATGGCGCATATATACAATCCGGTTATTATGAACCACTTTTCACAGGTTGCTTTAATCAAACTAATCAAACTGATAGCACCTGTAGAAATGGGCTTTATAAAGGGTCGCCAGGTAATTTTACTATACAAGGTGATTTTCTTAAAAATTATGATGCTGTTGGCATAATGTTTTGGTGGGGTTTAGCTACTAATGTGGGTAAAGTAACACCACCCAATGATCCTACTTTTAATTTAACATGGGGCAACTTTTTTCTTAATTCTAAGAATTTTACAGGTTTCCATAAAGTTAAAAGTGTCATATTTATTGCCACTGGAGATATCTTCGTAAATGGCGTTTTAATGGGTTTTTATAATCTAAATTTTACACAAACCTTAACAATTTGGTTAGCACAGTGTGTTGGCACAATGAAGGTTGTTATTTTACGTAATAGTAATGCTCTAGTTCATTTTTCGGCTGGCAACGTAGTTGCTTTCGAACCCTGCACAGGAGACACTACTATTAATAAGTTACGTTGCGCTTATCAGCAATTTAATTTTTCTACAGGATTTTATGACATAGATACTTTTGTACCTGTGACATCTAATATTACATATTTACCTTACCCAGATTTAAAAGACAATACTGGTCAAGAGGTATGTGACTTTTATGTAGCTCTTAAAGGAGATCATGTTATTTACAACCAAAGTTGTGTAGACTCTAAGTACCCATTCTTTAAATTAAAGTGTAATAATACTTATTCATGGGATAATGATAAGTTGTGTATTTTAGGGTCTGAAATATATGTGCCGGGGTATAATGTTTACACTAATACGCAACATTCATATGCTGGCACTATACCGAATTATCCAACTTGTTCTTCCAAAGGTCTTAGTTTGGAAAATATTTATAATAATATAGGTTTCAATAGATTTTGTGTAACTAAATTGTTGACGACTCGTGATATATCATCTATAACCCAATACACTTGTGTTTATGTCGTTAGTGTAGAAGGTTTTGATAGTTATAATCAAGGTATTGTATACAGTTATGTTGGTGTAAACTTTGATTTTGGTACAGCTATGTATAGTGTGAAAACTGCACCTATGCAGTTCATCTATACAGAGCAATGTCATAAGTATAATATTTACAACATAAGAGGTGTTGGTCAAATATTAAATGTCACTGGTAAAGATAATACTACACTTGTAGACGGTGGTCTAGTAATAACTAGTGGCAGTGGCTTATTGGCTTTTCGTAATAATGGAAGTCTTTTTAGTGTACAACCTTGCCGGACAGTTTCAACTCAAGCTGTAATTGTTAATGGGAGTTTTGTAGGCTTGTTTGTTCCTGCATCTTGTTGGTTAGCCGATCAATTTAATCTAGGTAACCACACAGAATATGTAGATGGTGGTTGTCTTATTAGTAATAAGACTATTAGTAGAAAGCGTAGGTCTACTAACGCTGTTTATACTGGTGAATGCACAGGTTTATTTGCAGCTATGGGTACATCTTGTATTTATAGTAATGGCACAGTTCTTAATAGAACATTACCACAACCATCTGTTCAAACTAGTGTGCAACCATTACTAGGTGTTGTAGCAAATGTGTCTATTCCAAAAGAATTGACACTTGCTGTAACCACAGAATACTTACAAACTCGTTATCAGAAAGTTACTATTGATTGTGCTAAATATGTCTGTGGTGATTCTACAAGGTGCCGCACGTTGCTGCAGCAGTATGGTTCTTTTTGCCAGAGTGTTAATGCTATATTAAGTGGTGTTAATGAGAATGAAGATAATGGTTTACTGCAATATGCGGAAGCTATTAATACAGGTTACACACTTAATTTTACTGGTTATAATGTATCCAATTTGGGTGGGTTTGATTTGTCCCTTGTTCTACCCAAAAATCTTACTTTGGCACAAAATCAAGGTAGGTCTACTATTGAAGACTTACTTTTTGACAAAGTTGTTACTCTAGGTGTTAGTGAAGTTGATCAGAATTATGATAAATGTATAGCATCTAGAGGTGGTTCTTTTACTAATTTAGCAGATTTAACTTGTGCTCAGTTTTACAATGGTGTCATGGTGCTCCCTGGTGTTGTTGACCCTGGTCTAATGGCAGTGTACACCGGCTCTTTAATAGGTGGTATGGCGCTCGGAGGCATTACAGCAGCGGCATCCATACCATTTGCTACTCAAATACAAGCACGTGTCAATTATTTAGCGTTGACACAATCAGTGCTTTTAGATAACCAAAATTTGATAGCAAATTCCTTTAATAAGGCCCTTAAAGGTATACAGTCAGCATTAGACACTGTTTCCCAGGGGTTTGTTGAAGTAGCTAGAGGTTTTGAGAGCGTAACTGTAGCACTTAATAAAGTTCAGGATGTGGTTAACACACATTCCGACATATTAAATAAACTTATGGCTCAGCTTAGTGTTAATTTTGGGGCTGTTTCATCTTCTCTTAATGAGATATACCTAAAATTAGACCAGATTAATGCAGATGCTCAGGTTGATAGGTTAATTACTGGTAGGTTGACTGCATTATCAACTTACGTAGCATCTCTTCAATTAGCAGCTTATAAGGCTGACCAGTCAAGACGCTTGGCTCTACAGAAAGTAGAGGAGTGTGTTAAGTCGCAATCCATGCGATATGGTTTCTGTGGTAATGGTAGCCATGTTCTAACAATACCACAGAGTGCTCCTAATGGAATATTCTTTATCCACTACACGTACCAACCCACTTCTTATGTTACAATTGAAGCAGTGCCTGGTCTATGTGTAACAACACCTTCTGGAAAGTATGGTGTAATGCCCAAGACTGGAAGTGGCATCATATTTAGACAGAATGATACTTTCTTTGTCACTTCCACACAGTTATATGAGCCTAAGCTTTTATCATATTCAGAAGTGGTCAATTTAACATCTTGTGAAGCTAATTATTACAATGTTAGTGAAAGTGAAACACCCTTTCAACCAGCATTGCCTAATTTCGATGACGAGTTTAATGACATTTTTACTGAGTTAAATACCTCAAAAGATGCCATTAAAAATATCAGTTCCAATTTTAACTACACAATTCCCATCCTAAATCTTGAGGATGAGATTTGTAGATTGAATCACTCCATTAACACACTATATAATTATAGTGATGTTATTGATAAAATTAACCAGGGTCTTAATGACACCTTTATTAATCTTGAACAACTTAATAAAATTACACGTTACATTAAGTGGCCTTGGTATGTTTGGTTAGCAATTGGTTTTGCTTGTTTAATATTCATCTTAATATTAGGATGGGTGTTTTTCATGACTGGTTGTTGTGGTTGTTGTTGCGGATGCTTTGGCATTATTCCGCTAATGAGTAAGTGTGGTAAGAAATCCTCTTACTACACGACTTTTGATAATGATGTGGTGTATAACAAAACAGACCTAAAAAGTCTGTTTAATGATTCAAACTCCAACATCTTTTCTAATAGTGTTAATTCTTCTTTGGTTTAA

Protein

MLVQLCCLTIILSLVCNVSSIPTICLNATVGSGVCLPCTNIPEYADGKNGGEALDFYSPDVMRPPDGAYIQSGYYEPLFTGCFNQTNQTDSTCRNGLYKGSPGNFTIQGDFLKNYDAVGIMFWWGLATNVGKVTPPNDPTFNLTWGNFFLNSKNFTGFHKVKSVIFIATGDIFVNGVLMGFYNLNFTQTLTIWLAQCVGTMKVVILRNSNALVHFSAGNVVAFEPCTGDTTINKLRCAYQQFNFSTGFYDIDTFVPVTSNITYLPYPDLKDNTGQEVCDFYVALKGDHVIYNQSCVDSKYPFFKLKCNNTYSWDNDKLCILGSEIYVPGYNVYTNTQHSYAGTIPNYPTCSSKGLSLENIYNNIGFNRFCVTKLLTTRDISSITQYTCVYVVSVEGFDSYNQGIVYSYVGVNFDFGTAMYSVKTAPMQFIYTEQCHKYNIYNIRGVGQILNVTGKDNTTLVDGGLVITSGSGLLAFRNNGSLFSVQPCRTVSTQAVIVNGSFVGLFVPASCWLADQFNLGNHTEYVDGGCLISNKTISRKRRSTNAVYTGECTGLFAAMGTSCIYSNGTVLNRTLPQPSVQTSVQPLLGVVANVSIPKELTLAVTTEYLQTRYQKVTIDCAKYVCGDSTRCRTLLQQYGSFCQSVNAILSGVNENEDNGLLQYAEAINTGYTLNFTGYNVSNLGGFDLSLVLPKNLTLAQNQGRSTIEDLLFDKVVTLGVSEVDQNYDKCIASRGGSFTNLADLTCAQFYNGVMVLPGVVDPGLMAVYTGSLIGGMALGGITAAASIPFATQIQARVNYLALTQSVLLDNQNLIANSFNKALKGIQSALDTVSQGFVEVARGFESVTVALNKVQDVVNTHSDILNKLMAQLSVNFGAVSSSLNEIYLKLDQINADAQVDRLITGRLTALSTYVASLQLAAYKADQSRRLALQKVEECVKSQSMRYGFCGNGSHVLTIPQSAPNGIFFIHYTYQPTSYVTIEAVPGLCVTTPSGKYGVMPKTGSGIIFRQNDTFFVTSTQLYEPKLLSYSEVVNLTSCEANYYNVSESETPFQPALPNFDDEFNDIFTELNTSKDAIKNISSNFNYTIPILNLEDEICRLNHSINTLYNYSDVIDKINQGLNDTFINLEQLNKITRYIKWPWYVWLAIGFACLIFILILGWVFFMTGCCGCCCGCFGIIPLMSKCGKKSSYYTTFDNDVVYNKTDLKSLFNDSNSNIFSNSVNSSLV

Function

Spike protein S1: attaches the virion to the host cell membrane by interacting with sialic acids, initiating the infection.
Spike protein S2': Acts as a viral fusion peptide after 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 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.
attaches the virion to the host cell membrane by interacting with sialic acids, initiating the infection.
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 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.
Acts as a viral fusion peptide after S2 cleavage occurring upon virus endocytosis.

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 gammacoronaviruses spike protein family.

Keywords

Cleavage on pair of basic residues   Coiled coil   Fusion of virus membrane with host endosomal membrane   Fusion of virus membrane with host membrane   Glycoprotein   Host membrane   Host-virus interaction   Membrane   Signal   Transmembrane   Transmembrane helix   Viral attachment to host cell   Viral envelope protein   Viral penetration into host cytoplasm   Virion   Virulence   Virus endocytosis by host   Virus entry into host cell  

Feature

chain  Spike protein S2

Uniprot

B3FHU5   C9DSU8   A0A0N6YPJ4   D0ECU0   A0A0N6YR14   D3X6W4   + More
D3X6W5   D3X6W3   C9DSV9   A0A0N6YR01   A0A0N6YPZ1   A0A0N6YPJ7   A0A0N6YPI7   A0A0N6YPK1   A0A0N6YPH6   A0A0N6YSM3   A0A0N6YPJ5   D0ECU1   A0A0N6YSN1   B3TD48   A0A0N6YPX8   A0A0N6YPY3   A0A0N6YPK6   D3X6W6   A0A0N6YR06   D0ECU2   A0A0N6YQK0   A0A0N6YPI3   C9DST7   A0A0N6W221   A0A0N6YQK7   A0A0N6YPD0   A0A0N6YSN7   B3TD61   A0A0N6W222   A0A0N6YPD8   Q7T5V2   Q7T5V3   A0A3S7SW51   U4DCU7   A0A4Y5QS01   A0A0F6YS09   A0A0S2ZWY7   E6YDV7   D9YMZ5   E6YDV6   A0A2Z5D876   P12722   P05135  

Pubmed

18468711    20022075    18514348    25712772    26053682    26585962    + More
2550899    3025348   

EMBL

EU095850    GQ427173    ABW81427.1    ACV87236.1    GQ427175    ACV87265.1    + More
KF652240    AIL92614.1    GQ469644    ACX30000.1    KF652235    AIL92609.1    GU213200    ADD14081.1    GU213201    ADD14082.1    GU213199    ADD14080.1    GQ427176    GQ469643    ACV87276.1    ACX29999.1    KF652218    AIL92592.1    KF652238    AIL92612.1    KF652223    AIL92597.1    KF652221    AIL92595.1    KF652239    AIL92613.1    KF652222    AIL92596.1    KF652219    AIL92593.1    KF652230    AIL92604.1    GQ469645    ACX30001.1    KF652228    AIL92602.1    EU022525    ABW75125.1    KF652220    AIL92594.1    KF652229    AIL92603.1    KF652232    AIL92606.1    GU213202    ADD14083.1    KF652227    AIL92601.1    GQ469646    ACX30002.1    KF652225    AIL92599.1    KF652231    AIL92605.1    GQ427174    ACV87254.1    KF652226    AIL92600.1    KF652234    AIL92608.1    KF652224    AIL92598.1    KF652237    AIL92611.1    EU022526    ABW75138.1    KF652236    AIL92610.1    KF652233    AIL92607.1    AY342357    AAQ20922.1    AY342356    AAQ20921.1    MG765535    AYC44319.1    HF544506    LN610099    CCN27367.1    CEK09108.1    MK142676    QCX41896.1    KM454473    AKF17724.1    KR822424    ALQ43515.1    FN545819    CBB12677.1    GQ411201    ADK88938.1    FN434203    CBA13338.1    MH021175    AXB38894.1    X15832    X04723   

Proteomes

UP000106026    UP000123786    UP000112634    UP000167574    UP000117980    UP000098674    + More
UP000099410    UP000126934    UP000172234    UP000138261   

Pfam

PF01601   Corona_S2
PF01600   Corona_S1

Interpro

IPR002552   Corona_S2
IPR002551   Corona_S1
IPR042549   GAMMA_CORONA_SPIKE
IPR027400   S_HR2

Gene 3D

1.20.5.790    

ProteinModelPortal

B3FHU5   C9DSU8   A0A0N6YPJ4   D0ECU0   A0A0N6YR14   D3X6W4   + More
D3X6W5   D3X6W3   C9DSV9   A0A0N6YR01   A0A0N6YPZ1   A0A0N6YPJ7   A0A0N6YPI7   A0A0N6YPK1   A0A0N6YPH6   A0A0N6YSM3   A0A0N6YPJ5   D0ECU1   A0A0N6YSN1   B3TD48   A0A0N6YPX8   A0A0N6YPY3   A0A0N6YPK6   D3X6W6   A0A0N6YR06   D0ECU2   A0A0N6YQK0   A0A0N6YPI3   C9DST7   A0A0N6W221   A0A0N6YQK7   A0A0N6YPD0   A0A0N6YSN7   B3TD61   A0A0N6W222   A0A0N6YPD8   Q7T5V2   Q7T5V3   A0A3S7SW51   U4DCU7   A0A4Y5QS01   A0A0F6YS09   A0A0S2ZWY7   E6YDV7   D9YMZ5   E6YDV6   A0A2Z5D876   P12722   P05135  

PDB

6CV0     E-value=1.83774e-124,     Score=1146