Strain

ARABIA_CAMEL_2015_NC_028752 (Region: Saudi Arabia;  Strain: Camel alphacoronavirus isolate camel/Riyadh/Ry141/2015, complete genome.;  Date: 2015)

Gene

spike protein

Description

Annotated in NCBI,  spike protein

Location

NC_028752(+):20585-24094

GenBank Accession

YP_009194639.1

Full name

Spike glycoprotein      

Alternative Name

E2
Peplomer protein

CDS

ATGTTTGTACTTGTTGCATATGCCTTGTTGCATATTGCTGGTTGTCAAACTATAAATGTTCTGAACACTAGTCACTCTGTTTGTAACGGCTGTGTTGGTTATTCAGAAAATGTATTTGCTGTTGAGAGTGGTGGTTATATACCCTCCGACTTTGCATTTAATAATTGGTTTCTCTTAACTAATACCTCATCTGTTGTAGACGGTGTTGTGAGGAGTTTTCAGCCTTTGTTGCTTAATTGCTTATGGTCTGTTTCTGGYTCGCGGTTTACTACTGGTTTTGTCTATTTTAATGGTACTGGGAGAGGTGATTGTAAAGGTTTTTCTTCAAATGTTTTGTCTGATGTCATACGTTACAACATCAATTTTGAAGAAAACCTTAGACGTGGAACCATTTTGTTTAAAACATCTTTTGGTGTTGTTGTGTTTTATTGTACCAACAACACTTTAGTTTCAGGTGATGCTTACATACCATTTGGTACAGTTTTGGGCAATTTTTATTGCTTTGTAAATACTACTATTGGCAATGAAACTACTTCTTCTTTTGTGGGTGCACTACCTAAGACAGTTCGTGAGTTTGTTATTTCACGCACAGGACATTTTTATATTAATGGCTATCGCTATTTTACTTTAGGTAATTTAGAAGCCGTTAATTTCAATGTCACTAATGCAGAAACCACTTTTTGTACTGTTGCGTTAGCTTCTTATGCTGACGTTTTGGTTAATGTGTCACAAACCGCTATTGCTAATATAATTTATTGCAACTCTGTTATTAACAGACTGAGATGTGACCAGTTGTCCTTTGATGTACCAGATGGTTTTTATTCCACAAGTCCTATTCAATCCGTTGAGCTACCTGTGTCTATTGTGTCGCTACCTGTTTATCACAAACATACGTTTATTGTGTTGTATGTTGATTTTAAACCTCAGAGTGGCGCCGGCACGTGTTATAACTGTCGTCCTTCTGTTGTTAATATTACACTGGCCAATTTTAATGAAACTAAAGGGCCTTTGTGTGTTGAAACATCACACTTCACTACCAAATACGTTGCTTCCAATGTTGGTAGGTGGAGTGCTAGTATTAACACGGGAAATTGCCCTTTTTCTTTTGGCAAAGTTAATAACTTTGTTAAATTTGGCAGTGTATGTTTTTCACTAAAGGATATACCCGGTGGTTGCGCAATGCCTATAGTGGCTAATTTTGCTTATATTAATTCTTATACTATAGGCTCATTGTATGTTTCTTGGAGTGATGGTGATGGAATTACTGGCGTCCCAAAACCTGTTGAGGGTGTTAGTTCCTTTATGAATGTTACATTGAATAAATGTACTAAATATAATATTTATGATGTATCTGGTGTGGGTGTTATTCGCATTAGCAATGACACCTTTCTTAATGGAATTACGTACACATCAACTTCAGGTAACCTTTTGGGTTTCAAAGATGTTACTAATGGTATCATCTACTCTATCACTCCTTGTAACCCACCAGATCAGCTTGTTGTTTATCAGCAAGCTGTTGTTGGTGCTATGTTGTCTGAAAATTCAAGTAGTTACGGCTTCTCTAATGTTGTGGAATTGCCTAACTTTTTCTACGCTTCTAATGGCACTTACAATTGCACAGATGCTGTTTTAACTTATTCTAGCTTTGGTGTTTGTGCAGATGGTTCTATAATTGCTGTTCAACCACGCAATGTTTCTTATGATGGTGTCTCAGCGATTGTCACAGCTAATTTGTCTATACCTTCCAATTGGACTACTTCAGTCCAGGTTGAGTATTTACAAATTACAAGCACACCTATTTTAGTGGATTGCTCCACTTATGTTTGCAATGGTAATGTGCGCTGTGTTGAATTGCTTAAGCAGTATACTTCTGCTTGTAAAACTATTGAAGATGCCTTAAGAATTAGTGCTATGCTGGAGTCTGCAGATGTTGGTGAGATGCTCACTTTTGACGAGAAAGCGTTTACACTTGCTAATGTTAGTAGTTTTGGTGACTACAACCTTAGCAGTGTTATACCTAGCTTGCCTACAAGTGGTAGTAGAGTAGCCGGTCGCAGTGCCATAGAAGACATACTTTTTAGTAAAGTTGTTACTTCTGGACTTGGCACTGTGGACGCAGACTACAAAAAGTGCACTAAGGGTCTTTCCATTGCTGATTTGGCTTGTGCTCAATATTATAATGGCATTATGGTTTTGCCTGGCGTTGCTGATGCTGAACGAATGGCCATGTACACAGGTTCCTTAATTGGTGGCATTGCCTTAGGAGGTCTTACATCAGCCGCTGCAATACCATTTTCTTTAGCTCTTCAGGCACGTTTGAACTATGTGGCATTGCAGACTGATGTTTTGCAAGAAAATCAGAAAATTCTTGCTGCATCTTTTAATAAAGCAATGACTAACATTGTCGATGCCTTTACAGGAGTTAATGATGCTATTACTCAAACTTCACAAGCTATACAAACAGTTGCCACTGCACTTAATAAGATTCAGGATGTTGTGAATCAACAAGGCAATGCATTGAACCATCTAACTTCTCAGTTGAGGCAAAATTTTCAAGCTATTTCCAGTTCTATTCAGGCTATCTATGACAGACTTGACACTATTCAGGCTGATCAACAAGTAGATAGGCTTATTACTGGTAGACTGGCTGCTTTGAACGCATTTGTTGCTCAGACACTTACTAAGTATACTGAGGTGCGTGCTTCTAGACAGCTTGCACAACAAAAAGTGAATGAATGTGTCAAATCCCAGTCTAACCGTTATGGTTTCTGTGGAAATGGCACACACATTTTCTCAATTGTGAATTCTGCTCCTGAAGGCCTTGTTTTTCTTCACACTGTCTTGTTGCCCACGCAATATAAGGATGTTGAGGCGTGGTCCGGGCTTTGCGTTGATAATACAAACGGTTATGTGCTGCGACAACCTAATCTTGCTCTTTACAAAGAAGGCAATTATTATAGAATCACATCACGTTTTATGTTTGAACCACGCATTCCTACTATGGCAGATTTTGTCCAGATTGAAAATTGCAATGTCACATTTGTTAACATTTCTCGCTCTGAGTTGCAAACTATTGTGCCAGAGTATATTGATGTTAACAAGACGCTGCAAGAATTAATTGACAAATTGCCAAATTATACTGTCCCAGACCTAGGCATCGACCAGTACAACCAGACTATTTTGAATTTGACCAGTGAAATTAGCACCCTTGAAAATAAATCTGCGGAGCTTAATTACACTGTTCAAAGACTGCAAACTCTTATTGACAACATAAATAGCACTTTAGTCGACTTAAAGTGGCTCAACCGGGTTGAGACTTATCTCAAGTGGCCGTGGTGGGTGTGGTTGTGCATTTCAGTCGTGCTCATCTTTGTGGTGAGTGTTTTGCTATTATGTTGTTGCTCTACTGGTTGCTGTGGCTTCTTTAGTTGTCTTGCATCTTCTACTAGAGGTTGTTGTGAGTCAACTAAACTTCCTTATTACGACGTTGAAAAGATTCACATACAGTAA

Protein

MFVLVAYALLHIAGCQTINVLNTSHSVCNGCVGYSENVFAVESGGYIPSDFAFNNWFLLTNTSSVVDGVVRSFQPLLLNCLWSVSGSRFTTGFVYFNGTGRGDCKGFSSNVLSDVIRYNINFEENLRRGTILFKTSFGVVVFYCTNNTLVSGDAYIPFGTVLGNFYCFVNTTIGNETTSSFVGALPKTVREFVISRTGHFYINGYRYFTLGNLEAVNFNVTNAETTFCTVALASYADVLVNVSQTAIANIIYCNSVINRLRCDQLSFDVPDGFYSTSPIQSVELPVSIVSLPVYHKHTFIVLYVDFKPQSGAGTCYNCRPSVVNITLANFNETKGPLCVETSHFTTKYVASNVGRWSASINTGNCPFSFGKVNNFVKFGSVCFSLKDIPGGCAMPIVANFAYINSYTIGSLYVSWSDGDGITGVPKPVEGVSSFMNVTLNKCTKYNIYDVSGVGVIRISNDTFLNGITYTSTSGNLLGFKDVTNGIIYSITPCNPPDQLVVYQQAVVGAMLSENSSSYGFSNVVELPNFFYASNGTYNCTDAVLTYSSFGVCADGSIIAVQPRNVSYDGVSAIVTANLSIPSNWTTSVQVEYLQITSTPILVDCSTYVCNGNVRCVELLKQYTSACKTIEDALRISAMLESADVGEMLTFDEKAFTLANVSSFGDYNLSSVIPSLPTSGSRVAGRSAIEDILFSKVVTSGLGTVDADYKKCTKGLSIADLACAQYYNGIMVLPGVADAERMAMYTGSLIGGIALGGLTSAAAIPFSLALQARLNYVALQTDVLQENQKILAASFNKAMTNIVDAFTGVNDAITQTSQAIQTVATALNKIQDVVNQQGNALNHLTSQLRQNFQAISSSIQAIYDRLDTIQADQQVDRLITGRLAALNAFVAQTLTKYTEVRASRQLAQQKVNECVKSQSNRYGFCGNGTHIFSIVNSAPEGLVFLHTVLLPTQYKDVEAWSGLCVDNTNGYVLRQPNLALYKEGNYYRITSRFMFEPRIPTMADFVQIENCNVTFVNISRSELQTIVPEYIDVNKTLQELIDKLPNYTVPDLGIDQYNQTILNLTSEISTLENKSAELNYTVQRLQTLIDNINSTLVDLKWLNRVETYLKWPWWVWLCISVVLIFVVSVLLLCCCSTGCCGFFSCLASSTRGCCESTKLPYYDVEKIHIQ

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   Reference proteome   Signal   Transmembrane   Transmembrane helix   Viral attachment to host cell   Viral envelope protein   Virion   Virulence   Virus entry into host cell  

Feature

chain  Spike glycoprotein

Uniprot

A0A0U2GRB2   A0A0U2GRL6   A0A0U2GQ76   A0A0U2GN50   A0A0U2GNG3   A0A0U2GMN8   + More
A0A0U2GMQ4   I1VWF5   A0A1C8YZ37   A0A1C8YZ34   A0A0U2GME6   A0A1C8YZ26   A0A0U2GQI5   A0A0U2GMG2   A0A0U2GN82   A0A1B3TNA4   Q1HVM5   Q1HVM3   Q1HVL9   Q1HVM0   Q1HVM1   Q1HVL7   Q1HVL8   P15423   S5YNL7   Q1HVM6   H1AG29   A0A059SGA9   S5YGU2   Q1HVL4   Q1HVL3   S5YAI3   S5YGT1   S5YNN4   Q1HVK9   A0A384RK44   Q1HVK6   H1AG30   Q1HVK5   J9VBQ8   A0A1V0E0W8   Q1HVL0   A0A384QXY4   Q1HVK3   Q1HVL1   Q1HVK4   A0A384QXM1   H1AG31   A0A384QXM2   H1AG33   J9UWK8   A0A384RJX8   A0A384RBT6   A0A1Z1R0Z6   A0A384RNQ9   A0A384R2L9   A0A384RJY2   A0A384RBT3   A0A384RJY8   A0A2S1PV28   H1AG32   A0A384QXL8   A0A384R9G2   A0A384RBT4   A0A384RK26   A0A1Y0EV30   A0A384RNP7   A0A1B3TN99   A0A1L7B942   A0A384RHP9   A0A1L7B8Z9   A0A1W6DZS3   A0A1L7B908   A0A384R9G0   A0A1L7B931   A0A1L7B944   A0A1L7B934   A0A1V0BZ86   A0A5B9MYJ0   A0A5C2D4L1   A0A223FUI6   A0A0P0KI80   A0A0P0KR98   A0A0N7J129   A0A0P0K0X5   A0A0P0KBC5   A0A0N7J128   A0A0P0KXK6   A0A1L2KGF1   A0A1L2KGE4   A0A0P0K6L9   A0A0P0KMM1   A0A0P0KR90   A0A0P0KRB3   A0A0P0KWD4   A0A0P0KH07   Q06Y16   A0A0K1D6F6   A0A513ZT30   A0A1V0E0U5  

Pubmed

26678874    27528677    16603522    2345367    11369870    9870593    + More
2701946    1350662    8970993    12551991    12634402    11162792    22673931    22926811    28893443    29167251    26378164    17054987    27799635   

EMBL

KT368907    KT368908    ALA50193.1    ALA50200.1    KT368903    ALA50165.1    + More
KT368899    ALA50137.1    KT368898    ALA50130.1    KT368916    ALA50256.1    KT368892    KT368893    KT368894    KT368902    KT368904    KT368905    KT368906    KT368909    KT368910    KT368911    KT368912    KT368913    KT368914    ALA50088.1    ALA50095.1    ALA50102.1    ALA50158.1    ALA50172.1    ALA50179.1    ALA50186.1    ALA50207.1    ALA50214.1    ALA50221.1    ALA50228.1    ALA50235.1    ALA50242.1    KT368901    ALA50151.1    JQ410000    AFI49431.1    KT253324    KT253326    KT253328    AOI28259.1    AOI28275.1    AOI28291.1    KT253327    AOI28283.1    KT368895    KT368896    MF593473    ALA50109.1    ALA50116.1    ATI09437.1    KT253325    AOI28267.1    KT368915    ALA50249.1    KT368897    ALA50123.1    KT368900    ALA50144.1    KU291449    AOG74789.1    DQ243964    ABB90507.1    DQ243966    ABB90509.1    DQ243970    ABB90513.1    DQ243965    DQ243969    ABB90508.1    ABB90512.1    DQ243967    DQ243968    ABB90510.1    ABB90511.1    DQ243972    ABB90515.1    DQ243971    ABB90514.1    X16816    AF304460    AF344186    AF344187    AF344188    AF344189    Y09923    Y10051    Y10052    X15654    KF514429    AGT21338.1    DQ243963    ABB90506.1    AB691763    BAL45637.1    KF293664    KF293665    KF293666    AGW80948.1    KF514432    AGT21360.1    DQ243973    DQ243974    DQ243975    ABB90516.1    ABB90517.1    ABB90518.1    DQ243976    ABB90519.1    KF514433    AGT21367.1    KF514430    AGT21345.1    KF514431    AGT21353.1    DQ243980    ABB90523.1    KM055559    AIW52756.1    DQ243983    ABB90526.1    AB691764    BAL45638.1    DQ243984    ABB90527.1    JX503061    AFR79257.1    KY674919    ARB07425.1    DQ243979    ABB90522.1    KM055557    AIW52754.1    DQ243986    ABB90529.1    DQ243977    DQ243978    ABB90520.1    ABB90521.1    DQ243985    ABB90528.1    KM055534    KM055545    KM055546    KM055547    AIW52731.1    AIW52742.1    AIW52743.1    AIW52744.1    AB691765    BAL45639.1    KM055555    AIW52752.1    KM055552    KM055554    AB691767    AIW52749.1    AIW52751.1    BAL45641.1    JX503060    AFR79250.1    KM055532    KM055533    AIW52729.1    AIW52730.1    KM055558    AIW52755.1    KY996417    ARX11396.1    KM055551    AIW52748.1    KM055556    AIW52753.1    KM055543    AIW52740.1    KM055538    AIW52735.1    KM055553    AIW52750.1    MH048989    AWH62679.1    AB691766    BAL45640.1    KM055535    KM055536    KM055537    KM055539    KM055540    KM055541    KM055542    AIW52732.1    AIW52733.1    AIW52734.1    AIW52736.1    AIW52737.1    AIW52738.1    AIW52739.1    KM055560    AIW52757.1    KM055548    AIW52745.1    KM055549    AIW52746.1    KY983587    ARU07601.1    KM055531    AIW52728.1    KU291448    AOG74783.1    KY369913    APT69883.1    KM055544    AIW52741.1    KY369908    APT69849.1    KY967357    ARK08642.1    KY369909    KY674914    KY621348    APT69856.1    ARB07392.1    ARK08620.1    KM055550    AIW52747.1    KY369912    APT69876.1    KY369914    APT69890.1    KY369910    KY369911    APT69862.1    APT69869.1    KY684760    ARA15429.1    MN306046    QEG03785.1    MN369046    QEO75985.1    MF542265    AST12964.1    KT253266    ALK28772.1    KT253270    ALK28781.1    KT253269    ALK28775.1    KT253265    ALK28771.1    KT253267    ALK28773.1    KT253261    KT253263    ALK28767.1    ALK28769.1    KT253262    ALK28768.1    KY073748    APD51507.1    KY073747    APD51499.1    KT253271    ALK28787.1    KT253268    ALK28774.1    KT253264    ALK28770.1    KT253272    ALK28793.1    KT253259    ALK28765.1    KT253260    ALK28766.1    DQ445911    ABE97137.1    KT266906    KX179494    KX179495    KX179496    AKT07952.1    APF29061.1    APF29062.1    APF29063.1    MN026166    QDH43736.1    KY674916    ARB07406.1   

Proteomes

UP000120649    UP000151210    UP000103783    UP000136947    UP000116691    UP000152663    + More
UP000100137    UP000103248    UP000108758    UP000110675    UP000115199    UP000115399    UP000124352    UP000128900    UP000136940    UP000152773    UP000153580    UP000171347    UP000173795    UP000173458    UP000146121    UP000101679    UP000169049    UP000153625    UP000147133    UP000104585    UP000006716    UP000110267    UP000139984    UP000137891    UP000143565    UP000105041    UP000122373    UP000118770    UP000096398    UP000130985    UP000115484    UP000141634   

PRIDE

P15423   

Pfam

PF01601   Corona_S2
PF01600   Corona_S1

Interpro

IPR042552   ALPHA_CORONA_SPIKE
IPR002551   Corona_S1
IPR002552   Corona_S2

ProteinModelPortal

A0A0U2GRB2   A0A0U2GRL6   A0A0U2GQ76   A0A0U2GN50   A0A0U2GNG3   A0A0U2GMN8   + More
A0A0U2GMQ4   I1VWF5   A0A1C8YZ37   A0A1C8YZ34   A0A0U2GME6   A0A1C8YZ26   A0A0U2GQI5   A0A0U2GMG2   A0A0U2GN82   A0A1B3TNA4   Q1HVM5   Q1HVM3   Q1HVL9   Q1HVM0   Q1HVM1   Q1HVL7   Q1HVL8   P15423   S5YNL7   Q1HVM6   H1AG29   A0A059SGA9   S5YGU2   Q1HVL4   Q1HVL3   S5YAI3   S5YGT1   S5YNN4   Q1HVK9   A0A384RK44   Q1HVK6   H1AG30   Q1HVK5   J9VBQ8   A0A1V0E0W8   Q1HVL0   A0A384QXY4   Q1HVK3   Q1HVL1   Q1HVK4   A0A384QXM1   H1AG31   A0A384QXM2   H1AG33   J9UWK8   A0A384RJX8   A0A384RBT6   A0A1Z1R0Z6   A0A384RNQ9   A0A384R2L9   A0A384RJY2   A0A384RBT3   A0A384RJY8   A0A2S1PV28   H1AG32   A0A384QXL8   A0A384R9G2   A0A384RBT4   A0A384RK26   A0A1Y0EV30   A0A384RNP7   A0A1B3TN99   A0A1L7B942   A0A384RHP9   A0A1L7B8Z9   A0A1W6DZS3   A0A1L7B908   A0A384R9G0   A0A1L7B931   A0A1L7B944   A0A1L7B934   A0A1V0BZ86   A0A5B9MYJ0   A0A5C2D4L1   A0A223FUI6   A0A0P0KI80   A0A0P0KR98   A0A0N7J129   A0A0P0K0X5   A0A0P0KBC5   A0A0N7J128   A0A0P0KXK6   A0A1L2KGF1   A0A1L2KGE4   A0A0P0K6L9   A0A0P0KMM1   A0A0P0KR90   A0A0P0KRB3   A0A0P0KWD4   A0A0P0KH07   Q06Y16   A0A0K1D6F6   A0A513ZT30   A0A1V0E0U5  

PDB

6U7H     E-value=0,     Score=5483