Strain

USA_BAT_2006_NC_022103 (Region: USA: Boulder County, CO;  Strain: Bat coronavirus CDPHE15/USA/2006, complete genome.;  Date: 2006)

Gene

spike glycoprotein

Description

Annotated in NCBI,  spike glycoprotein

Location

NC_022103(+):20553-24647

GenBank Accession

YP_008439202.1

Full name

Spike glycoprotein      

Alternative Name

E2
Peplomer protein

CDS

ATGAAATTGATTATTTTGTTGTGCATAGGCTTTGCTTATGCCAATCAACGTAATGTTGGTTGCAGCGAAGGCGGGTATCTTGATCCACCTAAGCGTTTACAGCTAGGATTGGATAATGTAACTGCCTTAGTACCTGGTGCCTTGCCACTCCCAGGTCTTTGGAATTGCACTGTTACTAGTAACTTTATATATGGACCAACGCCTCGTCCTATTGGCCTATTTATAATGTACTATGCCAGTGCCCAAGTGGCCCAGTTTGGGATTTCTTCCACTCTTAGACGTTCTTTGTCACCATATTCGTTGTACTTTTTAAACTATGGTAATGGCAGACGTCACATAATTCGCATTTGCAAGTGGGACACTGACAAAATGCTTCAGGATTCTGATGCCACTACTGGTTACGATTGCATTGCTAATGTTCGCATCAATGATGTTGTGCTTGAGCATGGTGGTCGCCAGATCTATGGCTTGTCTTGGTCTGGTAATGTAGTTACTCTCCATATGCTTAAAGGTATTAGGCACATCACAGTGCCGGGGGCGCAATATTGGGACATTATTAGGTTTTCCTGTGGACACAAAGACTCCTGTGGCCACCAGGTAGTTTACTCAACTAATGTTTTCAATGTCACAGTGCTCAACGGCTTTATTACTAACTACCAAGTTTTGCCTGATAGTGGTGAATTTTCAGACAATTTGTTTACCGTTGGCGATGATGGTTCTATACCACCATCCTTTGGCTTTAACAATTGGTTTGTGCTTTCTAATTCCTCTTCCATTATTTCCGGCACGGTTGTTAGTAACCAGCCGTTGCGTCTCACTTGTTTGTGGCCTATTCCATCCAGTACTGGTGCTCTGGCCACTATATATTTTAATGGTACTAACGGTGCACAGTGCAATGGGTTTGACAGTAATGCACCCTTTGATGCCATTAGGTTTAATCTTAATGGCACTTTGAGTGGACATAACTTCGTTAGTGGTTTTGTCCTCCATGCTGCAAATGGTGCAACTTTGGGTTTTTCATGTACCAACTCAACTGATGCCCCCTATTTACGTCAAATACCTTTTGGCATTGGTGACACGCCATATTATTGCTATCTTAATGTCACTACTGACATTAATAGTACAATGTCCTTTGTTGGGGCTTTGCCTCTTAATTTGCGGGAGATTGTTATAGCTTCTAATGGTGATGTTTATATGAATGGGTATCGCTACTTTGCTGCTGGTGATCTTAGTAGTGTTGATGTTGAGCTTCCTTCACAACAAGTTTTTGGTTCAACTTTTTGGACCATAGCTTTTACTGTTTTTGAGACAGTGTTGTTGGAAGTTGATGGTACTTCTATTAATCGCATGTTGTACTGTGATAATCCGCTTAACCGTGTTAAGTGTAGTCACACACAATTTGATCTGGTTGATGGTTTTTATCCATTAACCGATGTTGATCTTGCTGTCAAACCATTTACTTTTGTCACGTTGCCTACTTTTGCTGACCATAGCTTTGTTTATTTTAATTTTTCATTAATGTTTGATGACCTTAATGAAGATTTCAGATTGCAGAGCTTTAATCTTACTATTAATGGCCAATTGTCGTATTGTGTCCAGAGCAGGCAATTTACTACTAGTGGTAGTGTTCGAACTAATACCAATCATCAGTTTGGCTTTTACACACAGCGTGCGGCTTCTAATGGTTGCCCTTTTACCATAGACACTTTGAACAACTATCTTACATTTGGTAGGATTTGTTTCTCGTTTGGTGAAAGTGGTGCAGGCTGTGGTGTTGATGTCATGGTGGAGTCTCAGTACAACATGTTTAAGGTCACTACTATTTTTGTGTCTTATAGTGAAGGTGATATAATTGCTGGTATGCCCAAACCTTCTGAAGGTATTCGTGATGTTTCAAAAATCCACTTGGACGTCTGTAGTACCTACAGTATATATGGTCATACTGGTGATGGCATTATCCGTCTTACTAATGACACATTGTTAGGTGGCCTCTATTACACTTCGCCTGGTGGTGCGCTTTTAGGTTTTAAAAATGTTACCACTGGTGAAATTTACTCCGTCACACCATGTTCTCTGACTCAGCAGGTTGCTGTTGTTTCAGATGAAATTGTTGGTGTGGTGTCATCTAGTGCTAATGTTAGTGATCAATTCAGCTTTACTTATACCACTGTCACTGAGCAGTTTTACTATATGACTGATGGTAATAGTAGTTGTTCTGAACCTGTACTAACATATAGTTCGCTAGGTGTTTGCAAAGACGGAGCATTGCGTATTCTGCAACCACGTGAGGATACTACCCAACCCACACCTATTGTTTCTGGTGTTATTTCTATTGCAACCAACTTTACTCTTAGTGTTGTCACAGAATACATTCAATTGGCAAACACACCTATCAGTGTTGACTGTGCCATGTATGTTTGTAATGGCAACCCTAGGTGTAATATGCTGCTCGCACAGTATTCTTCTGCTTGTCAGACTATCGAAAATGCGCTGCAGCTTAGTGCTAAACTTGAGTCTATTGAAGTTACTAACATGCTTACAGTTTCTGAAGACAATTTGCAAATTGCTAACATTTCCACTTTTAATGGTGGTGGTTACAATTTCACTAATTTGATGGGTACAACGTACTCAACCAAATCTGTTGTCGAGGACATTTTGTTTGACAAAGTCGTCACAAGTGGACTCGGAACTGTTGATGCAGATTATAAGGCATGTTCTAATGGCCTTTCCATTGCTGATCTTGTTTGTGCTCAGTATTATCAGGGTGTTATGGTTTTGCCAGGCGTTGTTGATGCTGCTAAGTTGCATATGTACTCTGCATCTTTGATGGGCGGTATGGCCTTAGGAGGCGTTACTGCAGCCGCTGCGTTGCCTTTTAGTTACGCCGTTCAAGCCCGCCTTAATTATGTTGCATTGCAGACCGATGTTCTACAACGTAATCAACAAATTCTTGCTGAGTCATTCAACAATGCCATTGGTAACATAACTAATGCATTTGCTAGTGTTAACGATGCCATATCACAGACTGCTGAAGGTCTTAGTACTGTTGCTGAGGCCCTTTCTAAAGTCCAAGATGTTGTTAACAACCAGGGTATGGCACTAAATCATCTAACTCTGCAATTGCAAAACAATTTCCAGGCTATTAGTTCTTCTATCGCCGACATTTATCGCAGGTTAGATCAACTTACTGCGGATGCTCAGGTAGATAGGTTAATTAATGGCAGATTGGCTGCTCTTAATGCCTTTGTTTCACAAACTTTGACAAAGTATTCTCAAGTGCAGGCTTCTCGTAGTTTGGCCAAGCAGAAGATTAATGAGTGCGTTTTGTCTCAGTCACCTAGATATGGGTTCTGTGGTGACGGTGGCAGGCATGTTTTCACTGTTACACAGGCTGCACCACAAGGGATTCTCTTTTTACACACCGTACTCAGACCTACTGGCAGTGTTAATGTTACTGCTGCTGCTGGTATTTGTGTTGATGGTGCGGGGTATGCTTTGAACCAACCTGGTTTAGTTCTTATTTACCAAGATGGTACATACCTTATTACACCCAGAGTTATGTTTGAACCACGCCAGCCTCAGATTAGTGACTTTGTGCGTATTGAAGGCTGTGACGTAGAGTATTTTAATGTCACTGGTGAGTCTTTACCTGACATTTTCCCAGACTTTATTGATGTTAATAAAACTCTGGAAGATATTCTTTCACAGCTGCAAAACAACACTGGACCTAAGTTTGATATTGACATTTTTAATGCCACATATCTCAACTTATCCAGTGAAATTGCAGACCTCGAAATGAGGTCTGAATCTTTGCACAATACTACAGAGGAACTTAAGCGACTTATTGATAATATAAATTCAACACTTGTGGACCTTGAATGGCTCAATAGGGTTGAAACTTATATTAAGTGGCCATGGTGGGTGTGGTTGCTTATTGCCATTGCGCTCATTTTTACTGTTTCTTTGTTGTTGTTCTGTTGTATTGCAACAGGGTGTTGTGGCTGTTGTGGCTGTTGTGCTTCTTGTTTAACTGGTTGTTGTAAAGGTCCTAGATTACAACCATACGAAGCTATTGAAAAGGTCCACGTGCAGTAA

Protein

MKLIILLCIGFAYANQRNVGCSEGGYLDPPKRLQLGLDNVTALVPGALPLPGLWNCTVTSNFIYGPTPRPIGLFIMYYASAQVAQFGISSTLRRSLSPYSLYFLNYGNGRRHIIRICKWDTDKMLQDSDATTGYDCIANVRINDVVLEHGGRQIYGLSWSGNVVTLHMLKGIRHITVPGAQYWDIIRFSCGHKDSCGHQVVYSTNVFNVTVLNGFITNYQVLPDSGEFSDNLFTVGDDGSIPPSFGFNNWFVLSNSSSIISGTVVSNQPLRLTCLWPIPSSTGALATIYFNGTNGAQCNGFDSNAPFDAIRFNLNGTLSGHNFVSGFVLHAANGATLGFSCTNSTDAPYLRQIPFGIGDTPYYCYLNVTTDINSTMSFVGALPLNLREIVIASNGDVYMNGYRYFAAGDLSSVDVELPSQQVFGSTFWTIAFTVFETVLLEVDGTSINRMLYCDNPLNRVKCSHTQFDLVDGFYPLTDVDLAVKPFTFVTLPTFADHSFVYFNFSLMFDDLNEDFRLQSFNLTINGQLSYCVQSRQFTTSGSVRTNTNHQFGFYTQRAASNGCPFTIDTLNNYLTFGRICFSFGESGAGCGVDVMVESQYNMFKVTTIFVSYSEGDIIAGMPKPSEGIRDVSKIHLDVCSTYSIYGHTGDGIIRLTNDTLLGGLYYTSPGGALLGFKNVTTGEIYSVTPCSLTQQVAVVSDEIVGVVSSSANVSDQFSFTYTTVTEQFYYMTDGNSSCSEPVLTYSSLGVCKDGALRILQPREDTTQPTPIVSGVISIATNFTLSVVTEYIQLANTPISVDCAMYVCNGNPRCNMLLAQYSSACQTIENALQLSAKLESIEVTNMLTVSEDNLQIANISTFNGGGYNFTNLMGTTYSTKSVVEDILFDKVVTSGLGTVDADYKACSNGLSIADLVCAQYYQGVMVLPGVVDAAKLHMYSASLMGGMALGGVTAAAALPFSYAVQARLNYVALQTDVLQRNQQILAESFNNAIGNITNAFASVNDAISQTAEGLSTVAEALSKVQDVVNNQGMALNHLTLQLQNNFQAISSSIADIYRRLDQLTADAQVDRLINGRLAALNAFVSQTLTKYSQVQASRSLAKQKINECVLSQSPRYGFCGDGGRHVFTVTQAAPQGILFLHTVLRPTGSVNVTAAAGICVDGAGYALNQPGLVLIYQDGTYLITPRVMFEPRQPQISDFVRIEGCDVEYFNVTGESLPDIFPDFIDVNKTLEDILSQLQNNTGPKFDIDIFNATYLNLSSEIADLEMRSESLHNTTEELKRLIDNINSTLVDLEWLNRVETYIKWPWWVWLLIAIALIFTVSLLLFCCIATGCCGCCGCCASCLTGCCKGPRLQPYEAIEKVHVQ

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.

Miscellaneous

Bat coronavirus 512/2005 is highly similar to porcine epidemic diarrhea virus (PEDV).

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   Reference proteome  

Feature

chain  Spike glycoprotein

Uniprot

S5YNL4   A0A220YLM0   A0A3G3NGU0   A0A3G3NGU7   A0A3G3NGX2   A0A3G3NH26   + More
A0A3G3NGH9   A0A3G3NGQ6   A0A3G3NGQ9   A0A3G3NGV5   A0A4Y6GL38   A0A3G3NHJ6   A0A3G3NHI1   A0A3G3NH56   A0A3G3NH85   A0A286R3Q7   A0A1D8MIN4   Q0GJJ0   A0A4Y6A7L9   A0A5J6DE25   A0A3G3NGN7   A0A3G3NGV3   I1TLC3   F5HNC9   A0A219TUS3   F5HND5   A0A3G3NHJ0   F5HND0   A0A4Y6GL57   A0A0H4AC20   H2DFZ6   A0A4Y6GL52   A0A3G3NGM2   G5D078   F5HND2   I2EBM9   A0A4Y6GL18   A0A3G3NHI3   I7BQC9   I1TLD0   A0A5A4M1T6   A0A3G3NGK2   A0A0U2SJS6   A0A0U3HSZ7   A0A2N8Z1W1   A0A0U1YG53   A0A0P0F2D1   F5HND1   Q91AV1   A0A0C5B2R6   A0A0D5BVW6   A0A0K0WTL0   A0A286RW20   A0A1C9C4G6   Q0Q466   A0A3G3NH05   A0A2L0V4P5   Q84712   Q0Q4F5   A0A3G3NGX8   A0A0C5B4Y4   A0A0S3MR13   A0A023UL53   A0A067YRL9   A0A0U3SAZ0   A0A3G2C516   A0A2K8IYF0   A0A1C9C4H1   A0A3G3NGW9   A0A3G3NGJ7   A0A3G3NHL7   A0A2N8Z1U7   Q0QBB8   A0A109QKG8   A0A239QPZ3   L7YE88   A0A089WZ38   A0A0H4A7A3   A0A2N8Z212   A0A075ECF0   W8Q548   S4V9P2   A0A2U8QMX5   A0A076MKN4   A0A5A4M1V6   A0A023ULP1   Q0Q4F4   A0A5A4MDF7   J7LKT6   A0A0K2D7F9   A0A219PSP4   A0A1P8A7E4   A0A0M4I404   G8HAL5   I7BGJ8   A0A3S8TLM6   A0A1B3Q5X6   A0A0U2L0Z5   A0A125R587   A0A075EAW2  

Pubmed

28840816    17072758    31503522    22532530    21559974    22843324    + More
26611909    21980030    29540176    27056240    8291230    9782358    11724265    16840328    8397280    8176382    26477934    23599287    25279722    24750580    29770590    25217400    26714453    26841768   

EMBL

KF430219    AGT21333.1    KY799179    ASL24654.1    MH687960    AYR18549.1    + More
MH687958    AYR18537.1    MH687965    AYR18579.1    MH687956    AYR18525.1    MH687944    AYR18461.1    MH687957    AYR18531.1    MH687955    AYR18519.1    MH687943    AYR18455.1    MK211372    QDF43805.1    MH687942    AYR18448.1    MH687937    AYR18418.1    MH687961    AYR18555.1    MH687966    AYR18585.1    MF577027    ASV51733.1    KU836638    AOV85634.1    DQ862099    ABI30278.1    MG923574    QDE55565.1    MN065811    QER90704.1    MH687951    AYR18499.1    MH687940    AYR18436.1    JQ023161    AFE85962.1    AB548618    BAK32938.1    KT346372    ANV78630.1    AB548624    BAK32944.1    MH687954    AYR18513.1    AB548619    BAK32939.1    MK211371    QDF43800.1    KR296666    AKN45968.1    JN599150    KT323979    AEX92968.1    ALS35469.1    MK211369    QDF43790.1    MH687934    AYR18400.1    JN547228    AEQ55004.1    KY619780    AB548621    ATJ03635.1    BAK32941.1    JQ638924    AFJ97039.1    MK211370    QDF43795.1    MH687938    AYR18424.1    JX018180    AFO42861.1    JQ023162    AFE85969.1    MG198635    AXS76459.1    MH687948    AYR18481.1    KR061458    ALR84908.1    KU297956    ALU34112.1    LT906620    SNX30664.1    KJ857476    AJD09599.1    KR514323    ALJ33144.1    AB548620    BAK32940.1    AF353511    KP455316    AJL35175.1    KP162057    AJW67223.1    KP768390    AKS26489.1    MF737355    ASW30994.1    KX534205    AOM53008.1    DQ648858    MH687952    AYR18505.1    MG781192    AUZ98436.1    Z25483    CAA80971.1    DQ648792    ABG11964.1    MH687963    AYR18567.1    KP455317    AJL35176.1    LC063845    BAT33323.1    KJ451036    AHY04179.1    KJ158152    KY420075    AHG97559.1    ASO96550.1    KT388414    ALV66166.1    MG706122    AYM47397.1    KY619748    ATJ03603.1    KX534206    AOM53015.1    MH687967    AYR18591.1    MH687941    AYR18442.1    MH687964    AYR18573.1    LT906582    SNW64184.1    DQ462404    ABG78322.1    KT428878    AMB20700.1    LT898439    LT900499    SNQ28038.1    SNT95659.1    KC109141    KC210146    AGD98685.1    AGG55745.1    KM403155    KM403156    KM403157    AIR95864.1    AIR95870.1    AIR95871.1    KR296677    AKN45979.1    LT906581    SNW64190.1    KJ645655    AID56787.1    KJ399978    AHL38184.1    KC787543    AGO59793.1    MH052680    AWM11503.1    KJ645695    KJ645696    KM196109    KM392232    KR265759    KR265760    KM975738    KM975739    KM975740    KY619745    AID57027.1    AID57033.1    AIJ19447.1    AIN52136.1    AKJ21701.1    AKJ21707.1    AKP80610.1    AKP80617.1    AKP80624.1    ATJ03600.1    MG198645    AXS76469.1    KJ451037    AHY04180.1    DQ648793    ABG11965.1    MG198638    AXS76462.1    JX242462    AFR11480.1    KP870127    ALA15720.1    KT591944    AMD11118.1    KU975401    AMR60838.1    KT206205    ALD19741.1    JN543367    AER10516.1    JX018181    AFO42862.1    MH593141    AZL47242.1    KU985229    AOG30831.1    KR061459    ALR84915.1    KT860508    AMD11124.1    KJ645649    AID56751.1   

Proteomes

UP000174423    UP000122353    UP000180353    UP000095955    UP000126260    UP000124407    + More
UP000132054    UP000276154    UP000008159    UP000096075    UP000113079    UP000127975    UP000149796    UP000274194    UP000269355    UP000274124    UP000134644    UP000180354    UP000109281    UP000269222    UP000151262    UP000107011    UP000096695    UP000120524    UP000123161    UP000154382    UP000154704    UP000125818    UP000173775    UP000161506   

PRIDE

Q91AV1    Q0Q466   

Pfam

PF01600   Corona_S1
PF01601   Corona_S2

Interpro

IPR002551   Corona_S1
IPR002552   Corona_S2
IPR042552   ALPHA_CORONA_SPIKE

ProteinModelPortal

S5YNL4   A0A220YLM0   A0A3G3NGU0   A0A3G3NGU7   A0A3G3NGX2   A0A3G3NH26   + More
A0A3G3NGH9   A0A3G3NGQ6   A0A3G3NGQ9   A0A3G3NGV5   A0A4Y6GL38   A0A3G3NHJ6   A0A3G3NHI1   A0A3G3NH56   A0A3G3NH85   A0A286R3Q7   A0A1D8MIN4   Q0GJJ0   A0A4Y6A7L9   A0A5J6DE25   A0A3G3NGN7   A0A3G3NGV3   I1TLC3   F5HNC9   A0A219TUS3   F5HND5   A0A3G3NHJ0   F5HND0   A0A4Y6GL57   A0A0H4AC20   H2DFZ6   A0A4Y6GL52   A0A3G3NGM2   G5D078   F5HND2   I2EBM9   A0A4Y6GL18   A0A3G3NHI3   I7BQC9   I1TLD0   A0A5A4M1T6   A0A3G3NGK2   A0A0U2SJS6   A0A0U3HSZ7   A0A2N8Z1W1   A0A0U1YG53   A0A0P0F2D1   F5HND1   Q91AV1   A0A0C5B2R6   A0A0D5BVW6   A0A0K0WTL0   A0A286RW20   A0A1C9C4G6   Q0Q466   A0A3G3NH05   A0A2L0V4P5   Q84712   Q0Q4F5   A0A3G3NGX8   A0A0C5B4Y4   A0A0S3MR13   A0A023UL53   A0A067YRL9   A0A0U3SAZ0   A0A3G2C516   A0A2K8IYF0   A0A1C9C4H1   A0A3G3NGW9   A0A3G3NGJ7   A0A3G3NHL7   A0A2N8Z1U7   Q0QBB8   A0A109QKG8   A0A239QPZ3   L7YE88   A0A089WZ38   A0A0H4A7A3   A0A2N8Z212   A0A075ECF0   W8Q548   S4V9P2   A0A2U8QMX5   A0A076MKN4   A0A5A4M1V6   A0A023ULP1   Q0Q4F4   A0A5A4MDF7   J7LKT6   A0A0K2D7F9   A0A219PSP4   A0A1P8A7E4   A0A0M4I404   G8HAL5   I7BGJ8   A0A3S8TLM6   A0A1B3Q5X6   A0A0U2L0Z5   A0A125R587   A0A075EAW2  

PDB

6U7K     E-value=0,     Score=3127