Strain

CHINA_AVIAN_2007_NC_016993 (Region: China: Hong Kong;  Strain: Magpie-robin coronavirus HKU18, complete genome.;  Date: 2007)

Gene

spike glycoprotein

Description

Annotated in NCBI,  spike glycoprotein

Location

NC_016993(+):19338-22991

GenBank Accession

YP_005352854.1

Full name

Spike glycoprotein      

Alternative Name

E2
Peplomer protein

CDS

ATGCGGGGAGCTATATTAACTTTAATCCTCGTCACATCAGTCAAAGCGTCTCCGCTTGCGGATTCCGTTCTTGACTTCTTAACCTTCCCTGGCGCCCACAGTTATCTACACCCAAGGAGGGGAGATCTAGGAGCGCTAGGCAACCGCATGCGTGCCAACATACGTAACTCTCAGACTGATGTTTGCACCACAATTCAGCAGGGCGGTTTCATACCCTCCACTTTCACTTTTCCTCAGTGGTATGTCCTAACCAATGGGTCGACTTTCCTACAGGGTGAGTACACCCTCTCTCAGCCATTGCTCGCCAATGCTCACTTCTGTCCCAGGAAGAACTCTGATGGGTATTGGCGCTATTCATTCAACAATTCATGCCTCTTTCCTGACCACCGCTGTCAGGACCACTGGTATGACTCCCAAAACCCTATCTGTCTAGGCTGGAATAACACTTTTGGCCTTTCCGACAATATCCGCATCAACATTAACATATCCCACGATGAGTACCAATCACATGGAGGTTATGTTAGCTTAACACTTGAGTCGGGTTCTGTTGTTAATATCACTTGCACTAACAACTCCGACCCATCAACGGTTACTCTAGCCACATCGCTACTGCCCTGGGCTAGGGCCATAGATCAGCCGATGTATTGCTTTGCCAACCTCACCACAGGCACTGCATCTCAGCTGGATTTTATGGGTATGTTACCACCTCTCGTGTCAGAACTTGCTTTTGACCGGACGGGTGGTATCTACATTAATGGCTACCGCTATTATTTAACTAGCGCCCTCCGTGATGTGGATTTCAAGTTAAAGCGCAACGACACCGCGGAGTACTTCGCCGTTACTTGGGCTAATTATACTGACGTCCATCTTAGCGTAGATGCTGGCGCCATTGAGAAAATTAAGTATTGCAACACCCCACTAGACAGGTTGGCGTGTGACATGAATGTCTTTAATCTAAGTGATGGGGTCTACTCCTACACCTCACTTGAAAAAGCCAGCGTTCCAGAGACCTTTGTAACGCTGCCCGTCTATTCAAACCATACGTATGTGACAATTAACACCTCCTACACCGTTGGTAGCTGTGTTAATTGTCCACCCATATCCTCCACCATTGACATCATGCACGCACGTAATGATACCTTATGTGTTAATTCTAGACAATTCACCGTCCGTCTTAACACCCATCACCATGCGCAGTACCCTCAGTACTTTAGTACTGCATTTGTAGCGGGCACTTGTCCTTTTACGCTACCCAATATTAATAATTATTTAACATTTGGTAGCGTTTGTTTTTCCACCGTTAACAATGGTGGTTGCACCATCCATGTCCAGAAGGTTTGGAACCACCAATACCACACCTTTGGCACCATCTATGTTGCCTACCAAGATGGCAACTACATCACAGCTCTGCCGCAGCCCTCCACTGGTGTTGCTGACATCTCCACTGTCCATCTTGATGTCTGTACCAAATACTCCATTTATGGTAAGACGGGTACGGGCGTCATACGCGAGACGAATCAGTCCTACACTGCCGGGCTCTATTACACTTCTTCTTCTGGAGATTTGTTAGCGTTCAAAAACGTAACCACCCAGAAGGTCTACTCTGTAACCCCCTGCACCCTTGCTAGTCAGGTTGCGGTTTACAACAACTCTATCCTGGCAGCATTCACCTCCACGGCGAACCTCACTGCCATAGATTTCAATTACACAATCGCTACTCCCACCTTTTACTACCATTCCATTGGTAATGAGACGTGCGAGCAGCCTGTTATCACTTATGGTTCCATAGGTCTCTGTCCCGGGGGTGGCCTTCGCCTTGCCCACCCCACGGAGGATGCAGCCCCTATTTTGGTTCCGATTTCCACAAGTAACATTTCCATACCCAAGAACTTTACTGTATCTATTCAAACTGAATACATACAGATCGAGCAACAGCCTGTTGTAGTTGACTGCCGGCAGTATGTTTGCAATGGCAACCCTCGCTGCTTACAGTTACTTCAGCAATACACCTCTGCATGCTCCACCATAGAGCAGGCTCTTTCACTAAATGCTCGTCTAGAGGCATCTAGCATTCAAGACTTGCTCACATATTCACCTGAGACACTGGTTCTAGCCAACATTTCAAACTTTGACTCGGGTGATCTTAATTACAACCTTTCCTCCCTCCTACCCAAGGAGCTGTATGGCAAGTCTGCCATTGAGGATCTACTTTTTAATAAAGTAGTCACTAATGGCCTAGGCACTGTTGATCAGGATTATAAGGCATGCACTAATGGCATGTCTATAGCTGACCTTGTCTGCGCCCAATACTATAACGGCATTATGGTTCTTCCAGGCGTTGCCGGTCCAGAAAAGATGGCTCAATACACGGCATCGCTTACTGGTGCTATGGTATTCGGCGGTATCACAGCCGCATCAGCTATACCCTTCTCACTAGCTGTTCAATCTCGACTTAATTATGTTGCACTACAGACTGATGTGCTGCAACAAAACCAGCAATTGTTAGCCGACTCATTTAATAATGCAATCGGCAATATTACATTAGCCTTCAAAGAAGTTAGTGAGGGCCTCTCACAAGTCTCGGGCGCGGTAGCAACCGTCGCCAATGCGCTCACCAAGGTTCAGACTGTTGTTAATGAACAAGGCCATGCCCTTGCAACACTAACGCAGCAACTGGCCAATAACTTTCAGGCTATCTCCGCCTCTATATCCGACATCTATAACAGACTCAACCAACTTGAGGCAGATGCTCAGGTTGATAGACTTATTACGGGACGTCTAGCATCACTAAATGCATTCGTCACACAGACACTATCAAAACTAGCTGAAGTCCGCCAGCAGCGGCAGCTAGCCACTGATAAAGTTAATGAGTGCGTTAAATCACAGTCCCCCCGCTATGGATTCTGTGGTAACGGCACCCATCTCTTCTCAATTGTCAATGCAGCGCCACAAGGGTTGTTATTCTTCCACACTGTGTTGTTACCAACCCAATATGCTTATGTGCAGGCCTTCTCGGGCATTTGCTACAATGGGATAGCGCTTGCCCTTAACGACCCCACACTAGCACTATTTAAGAATGGAGACAAGTACCTCGTGTCCCCGCGTAATATGTATCAGCCTCGAGTTCCCGCTCAAGCCGACTTCGTATACATTGAGACTTGTACCATCACCTATCTCAATCTCACTGATCTTACTATTGATGTTGTTATCCCTGATTACGTAGATGTTAATCAGACTGTTAATGACATTCTTAGTAAACTACCCAATAGTACTGGACCAAGTTTAACAATTGACCAGTATAACAATACTATCCTCAACCTCACCACTGAGATTGCGGACCTCAACAATCGCACTCAAAATCTATCTGACGTTGTTCAGAATCTTGAAGAGTACATTCATAAATTAAATGCCACACTAGTTGACCTCGATTGGCTCAACAGAGTGGAAACTTATATTAAGTGGCCGTGGTGGGTCTGGTTACTAATCACCCTCGCCATCGTCGCATTTGTTGTAATTTTAGTCACCATCTTCCTCTGCACTGGCTGCTGCGGAGGTTGCTTTGGTTGCTGTGGTGGCTGTTTTGGGCTCTTCTCTCACAACAAGAGAAACACCGAGTCCATACCGATCACCTCTTTTAAACTTAAGGAATGGTAG

Protein

MRGAILTLILVTSVKASPLADSVLDFLTFPGAHSYLHPRRGDLGALGNRMRANIRNSQTDVCTTIQQGGFIPSTFTFPQWYVLTNGSTFLQGEYTLSQPLLANAHFCPRKNSDGYWRYSFNNSCLFPDHRCQDHWYDSQNPICLGWNNTFGLSDNIRININISHDEYQSHGGYVSLTLESGSVVNITCTNNSDPSTVTLATSLLPWARAIDQPMYCFANLTTGTASQLDFMGMLPPLVSELAFDRTGGIYINGYRYYLTSALRDVDFKLKRNDTAEYFAVTWANYTDVHLSVDAGAIEKIKYCNTPLDRLACDMNVFNLSDGVYSYTSLEKASVPETFVTLPVYSNHTYVTINTSYTVGSCVNCPPISSTIDIMHARNDTLCVNSRQFTVRLNTHHHAQYPQYFSTAFVAGTCPFTLPNINNYLTFGSVCFSTVNNGGCTIHVQKVWNHQYHTFGTIYVAYQDGNYITALPQPSTGVADISTVHLDVCTKYSIYGKTGTGVIRETNQSYTAGLYYTSSSGDLLAFKNVTTQKVYSVTPCTLASQVAVYNNSILAAFTSTANLTAIDFNYTIATPTFYYHSIGNETCEQPVITYGSIGLCPGGGLRLAHPTEDAAPILVPISTSNISIPKNFTVSIQTEYIQIEQQPVVVDCRQYVCNGNPRCLQLLQQYTSACSTIEQALSLNARLEASSIQDLLTYSPETLVLANISNFDSGDLNYNLSSLLPKELYGKSAIEDLLFNKVVTNGLGTVDQDYKACTNGMSIADLVCAQYYNGIMVLPGVAGPEKMAQYTASLTGAMVFGGITAASAIPFSLAVQSRLNYVALQTDVLQQNQQLLADSFNNAIGNITLAFKEVSEGLSQVSGAVATVANALTKVQTVVNEQGHALATLTQQLANNFQAISASISDIYNRLNQLEADAQVDRLITGRLASLNAFVTQTLSKLAEVRQQRQLATDKVNECVKSQSPRYGFCGNGTHLFSIVNAAPQGLLFFHTVLLPTQYAYVQAFSGICYNGIALALNDPTLALFKNGDKYLVSPRNMYQPRVPAQADFVYIETCTITYLNLTDLTIDVVIPDYVDVNQTVNDILSKLPNSTGPSLTIDQYNNTILNLTTEIADLNNRTQNLSDVVQNLEEYIHKLNATLVDLDWLNRVETYIKWPWWVWLLITLAIVAFVVILVTIFLCTGCCGGCFGCCGGCFGLFSHNKRNTESIPITSFKLKEW

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   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

H9BR08   A0A2Z5XXR5   A0A2Z5XXT6   A0A2Z5XXS4   H9BR00   A0A1L2KGD0   + More
A0A1L2KGD3   B1PHK2   A0A1L2KGB2   A0A0P0K0X5   A0A0U1WHD0   A0A0P0KBC5   A0A0N7J128   A0A0P0KXK6   A0A0P0KR98   A0A0P0K6L9   A0A0P0KR90   A0A0P0KMM1   A0A0N7J129   A0A0P0KRB3   A0A0P0KWD4   A0A220YLM0   A0A0P0KH07   A0A0P0KI80   A0A1L2KGF1   F1DB14   A0A1W5YKS6   S5YNL4   A0A1L2KGE4   A0A4Y6GL52   A0A219TUS3   A0A1W5YKT3   A0A4Y6GL57   A0A0U1WHD7   A0A3G3NGM2   A0A4Y6GL18   A0A3G3NHJ0   A0A059SGA9   A0A0U1UZ37   A0A0U1WJW2   A0A3G3NHI3   A0A3G3NGW9   A0A3G3NHL7   A0A1B3TNA4   H1AG29   K4JZU5   A0A3G3NGK2   A0A3G3NGN7   A0A3G3NGV3   P15423   A0A3G3NGX8   K4KCP3   A0A3G3NHH0   Q0Q4F5   Q1HVM6   A0A0U2GQI5   A4ULL1   A0A3G3NH05   A0A0U2GNG3   A0A3G3NGT9   A0A3G3NGU7   Q0Q4F6   A0A3G3NGJ7   A0A0U2GRL6   A0A3G3NGU0   I1VWF5   A0A0U2GRB2   A0A286R3Q7   A0A1V0BZ86   A0A0U2GQ76   A0A0U2GMN8   A0A384R2L9   A0A0U2GN50   A0A0U2GMG2   Q0Q466   A0A0U2GME6   A0A1C8YZ37   A0A3G3NGX2   A0A0U2GMQ4   A0A1C8YZ26   A0A3G3NGQ0   A0A1C8YZ34   A0A3G3NGS7   A0A3G3NGQ6   A0A384R9G0   A0A1L7B942   A0A384RJY8   A0A3G3NGQ9   A0A3G3NGQ4   A0A1L7B8Z9   A0A384RK26   A0A1L7B934   A0A384R9G2   A0A384RNP7   A0A1Y0EV30   A0A482K0W7   A0A384RBT4   A0A2S1PV28   A0A482JZK4   A0A0U2GN82  

Pubmed

22278237    18420807    26378164    27125516    28840816    19239771    + More
22561208    28384506    27528677    22673931    22933277    2345367    11369870    9870593    2701946    1350662    8970993    12551991    12634402    11162792    16840328    16603522    26678874    17267506   

EMBL

JQ065046    AFD29217.1    LC364342    BBC54822.1    LC364344    BBC54842.1    + More
LC364343    BBC54832.1    JQ065045    AFD29209.1    KY073746    APD51491.1    KY073745    APD51483.1    EU420139    ACA52171.1    KY073744    APD51475.1    KT253265    ALK28771.1    KJ473798    AIA62220.1    KT253267    ALK28773.1    KT253261    KT253263    ALK28767.1    ALK28769.1    KT253262    ALK28768.1    KT253270    ALK28781.1    KT253271    ALK28787.1    KT253264    ALK28770.1    KT253268    ALK28774.1    KT253269    ALK28775.1    KT253272    ALK28793.1    KT253259    ALK28765.1    KY799179    ASL24654.1    KT253260    ALK28766.1    KT253266    ALK28772.1    KY073748    APD51507.1    HQ728485    ADX59488.1    KY770850    ARI44789.1    KF430219    AGT21333.1    KY073747    APD51499.1    MK211369    QDF43790.1    KT346372    ANV78630.1    KY770851    ARI44794.1    MK211371    QDF43800.1    KJ473806    AIA62246.1    MH687934    AYR18400.1    MK211370    QDF43795.1    MH687954    AYR18513.1    KF293664    KF293665    KF293666    AGW80948.1    KJ473810    AIA62271.1    KJ473807    AIA62252.1    MH687938    AYR18424.1    MH687967    AYR18591.1    MH687964    AYR18573.1    KU291449    AOG74789.1    AB691763    BAL45637.1    JQ989271    AFU92113.1    MH687948    AYR18481.1    MH687951    AYR18499.1    MH687940    AYR18436.1    X16816    AF304460    AF344186    AF344187    AF344188    AF344189    Y09923    Y10051    Y10052    X15654    MH687963    AYR18567.1    JQ989270    AFU92104.1    MH687946    AYR18473.1    DQ648792    ABG11964.1    DQ243963    ABB90506.1    KT368915    ALA50249.1    EF434381    ABO88151.1    MH687952    AYR18505.1    KT368916    ALA50256.1    MH687962    AYR18561.1    MH687958    AYR18537.1    DQ648791    ABG11963.1    MH687941    AYR18442.1    KT368903    ALA50165.1    MH687960    AYR18549.1    JQ410000    AFI49431.1    KT368907    KT368908    ALA50193.1    ALA50200.1    MF577027    ASV51733.1    KY684760    ARA15429.1    KT368899    ALA50137.1    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    KM055556    AIW52753.1    KT368898    ALA50130.1    KT368897    ALA50123.1    DQ648858    KT368895    KT368896    MF593473    ALA50109.1    ALA50116.1    ATI09437.1    KT253324    KT253326    KT253328    AOI28259.1    AOI28275.1    AOI28291.1    MH687965    AYR18579.1    KT368901    ALA50151.1    KT253325    AOI28267.1    MH687949    AYR18487.1    KT253327    AOI28283.1    MH687935    AYR18406.1    MH687957    AYR18531.1    KM055550    AIW52747.1    KY369913    APT69883.1    KM055553    AIW52750.1    MH687955    AYR18519.1    MH687939    AYR18430.1    KY369908    APT69849.1    KM055549    AIW52746.1    KY369910    KY369911    APT69862.1    APT69869.1    KM055560    AIW52757.1    KM055531    AIW52728.1    KY983587    ARU07601.1    MG916904    QBP43290.1    KM055548    AIW52745.1    MH048989    AWH62679.1    MG916901    QBP43256.1    KT368900    ALA50144.1   

Proteomes

UP000162232    UP000142997    UP000277178    UP000143524    UP000204102    UP000110898    + More
UP000122373    UP000096398    UP000118770    UP000130985    UP000174423    UP000144778    UP000144177    UP000106394    UP000162430    UP000006716    UP000155419    UP000153625    UP000152663    UP000103783    UP000146121    UP000120649    UP000151210    UP000136947    UP000100137    UP000103248    UP000108758    UP000110675    UP000115199    UP000115399    UP000124352    UP000128900    UP000136940    UP000152773    UP000153580    UP000171347    UP000173795    UP000116691    UP000147133    UP000113079    UP000101679    UP000169049    UP000173458    UP000104585   

PRIDE

P15423    Q0Q466   

Pfam

PF01601   Corona_S2
PF01600   Corona_S1

Interpro

IPR002551   Corona_S1
IPR002552   Corona_S2
IPR042552   ALPHA_CORONA_SPIKE

ProteinModelPortal

H9BR08   A0A2Z5XXR5   A0A2Z5XXT6   A0A2Z5XXS4   H9BR00   A0A1L2KGD0   + More
A0A1L2KGD3   B1PHK2   A0A1L2KGB2   A0A0P0K0X5   A0A0U1WHD0   A0A0P0KBC5   A0A0N7J128   A0A0P0KXK6   A0A0P0KR98   A0A0P0K6L9   A0A0P0KR90   A0A0P0KMM1   A0A0N7J129   A0A0P0KRB3   A0A0P0KWD4   A0A220YLM0   A0A0P0KH07   A0A0P0KI80   A0A1L2KGF1   F1DB14   A0A1W5YKS6   S5YNL4   A0A1L2KGE4   A0A4Y6GL52   A0A219TUS3   A0A1W5YKT3   A0A4Y6GL57   A0A0U1WHD7   A0A3G3NGM2   A0A4Y6GL18   A0A3G3NHJ0   A0A059SGA9   A0A0U1UZ37   A0A0U1WJW2   A0A3G3NHI3   A0A3G3NGW9   A0A3G3NHL7   A0A1B3TNA4   H1AG29   K4JZU5   A0A3G3NGK2   A0A3G3NGN7   A0A3G3NGV3   P15423   A0A3G3NGX8   K4KCP3   A0A3G3NHH0   Q0Q4F5   Q1HVM6   A0A0U2GQI5   A4ULL1   A0A3G3NH05   A0A0U2GNG3   A0A3G3NGT9   A0A3G3NGU7   Q0Q4F6   A0A3G3NGJ7   A0A0U2GRL6   A0A3G3NGU0   I1VWF5   A0A0U2GRB2   A0A286R3Q7   A0A1V0BZ86   A0A0U2GQ76   A0A0U2GMN8   A0A384R2L9   A0A0U2GN50   A0A0U2GMG2   Q0Q466   A0A0U2GME6   A0A1C8YZ37   A0A3G3NGX2   A0A0U2GMQ4   A0A1C8YZ26   A0A3G3NGQ0   A0A1C8YZ34   A0A3G3NGS7   A0A3G3NGQ6   A0A384R9G0   A0A1L7B942   A0A384RJY8   A0A3G3NGQ9   A0A3G3NGQ4   A0A1L7B8Z9   A0A384RK26   A0A1L7B934   A0A384R9G2   A0A384RNP7   A0A1Y0EV30   A0A482K0W7   A0A384RBT4   A0A2S1PV28   A0A482JZK4   A0A0U2GN82  

PDB

6U7H     E-value=0,     Score=2429