Strain
Avian_LC364344
(Region: United Arab Emirates; Strain: Pigeon coronavirus UAE-HKU29 271F genomic RNA, complete genome.; Date: 2017/3/28)
Gene
spike protein
Description
Annotated in NCBI,
spike protein
Location
GenBank Accession
Full name
Spike glycoprotein
Alternative Name
E2
Peplomer protein
Peplomer protein
Sequence
CDS
ATGCAATCAATTATATTAGTTACCATCTTGTCAGCTGCTACGGCTTCGCCGCTAGCTGACAAGATTCTTGACTTTTTAACTTTTCCTGGAGCACATCAATACTTAAAACAAACCCCTCAGCCTAAGTTAGGTAGAGAGCGCTGTTTTAATGTGCTTCCAGGTGGCTACATTCCTGATAGTTTTGGATTTCCAAGCTGGTTTGTACTTACAAATAGCTCGACATTCCTTAATGGCGAGTATACTATGGAACAACCACTGTTTGCCAACGCACATTTATGTACGTGGCAATCAAATCAACAGTACAGGCGTTATGGATTCAATAACTCTTGTCTATTGCCTGCTGATAGTTGTAACCCTAAGCACAACGGTAGTTCACTCTTCAAGGGTTGGAATAACACTGTTGGGTTTTCAGACACTATAAGAATCAATGTCAATATCACCAGCTATGACTATGATAGTTATGCTGGTTTCATTAACATTTCCCAATCTGATGGTAGTTATATTTCCATCCAATGCACTAATGATTCAGACCCGTCAACACTTAGTGTGGCTAGGTCTGTTTTACCGTTAACTTATATTGGCAAGACTATTTATTGTTTTGCCAATTTTACTCAGCAGCAGACATCATACATACAATTTATGGGTGTTCTACCGCCACATGTTGCTGAGCTGGCGTTTGACAGAACAGGCAACATTTATATAAATGGTTATAGATATTTTCAAATATCTACTATTGATTATATACAGTTTGGATTAGCTTTTAATAATTCACCTATTCACTTTTCAGTCACATGGCTTAATTATACCAGAGTTCACTTTAACACTCAAGAGGGTGTTATTAAAAAGATTATGTATTGTGACTCTGATTATAATTCACTTACATGTGACATGAACACCTTTTCATTGCCTGATGGTGTCTATTCCTTTTCCTCTCTTCAGATGGATTTAGTACCACAGACATTTGTAACTCTACCAGTTTACGCAAACCACTCTGATCTAGTTCTTAACACTAGTTATACTGTTGGCTCTTGTGTAAACTGTCCGCCTATACAACACTCTATATATATAGAGGGTGCTGTAAATGACACTTATTGTGTTAATAGTAAACAATTCACACTTAAAATTAATTCACATGTAGATGCAAAATACAGTCAATATTTTAAGACTGTATTCACTGCTGGTACATGTCCATTCACATTTCCAAATGTAAATAACTTTTTGTCATTTGAATCATTTTGTATATCTACAGTCAATAATGGTGGCTGTACTATACATGTTCAAAAAGTATGGAATTCTGTAGTTCATACTTTTGCAACTCTTTATGTATCATACCAGGAGGGTAACAGCATTCATGCTATGCCAAAGCCTGCAACAGGTATATCCGATATATCTACTGTTTACCTTGACGTCTGCAGTAGATACAATATTTATGGTAAGACAGGTAATGGCATTATTAGGCTTACCAATCAATCTTATATAGCAGGATTATACTACACATCACCAAGTGGAGATCTTCTTGCATTTAAAAATGTCACTACACAGCAAGTTTACAGCGTTACACCCTGTAGACCTAGCTCTCAAGTTGCAGTGTACAATGGATCTATAATAGCAGCATTCACTTCTACAGAGAATGTTACTATTGAGACGCTTACATACTCACGAGCCACACCCATGTTTTACTATCATTCAGTTGGTAATGACTCATGTGACGCACCTGTAGTTTCCTTTGGATCTATAGGTGTATGTAGTGGTGGCGGCCTTCATTTTGTAGATTCTGCATCTAATGAATTCACTAATGTGGTTCCCATTAGTACGCAGAACATATCTATACCTGTGAATTTCACAGTTTCAATTCAATCAGAATACATACAAATAGAACAGCAGCCTGTCACAGTTGATTGCAGGCAGTATGTATGCAATGGAAATGAGCGCTGTTTACAGCTTCTCATGCAATATACTAGTGCTTGTTCCAGTATTGAACAGGCACTATCATTAAATGCTCGCCTTGAAGCAGCTGATATTCAAACTATGTTAACATATTCACCAGAAACACTAAAGTTAGCTAATATTACTAACTTTGAGTCTGGTGACGTTAACTACAATTTAACTAACATCCTACCAAAGAAATATCAAGGACGTTCCCCTATTGAGGATATACTCTTTGATAAAGTTGTCACCAATGGACTAGGCACTGTAGATCAAGACTACAAAGCTTGTACCAATGGTGTTTTTCTTGCTGATTTAGCCTGCGCTCAGTATTACAATGGCATTATGGTTTTGCCCGGCGTAGCTGACCCTGCTAAAATGGCTATGTATACTGCATCACTAACTGGAGGTATGGTGTTTGGTGGACTTACGTCTGCTGCTGCTATACCATTCTCATTAGCTGTGCAGTCTAGACTTAATTATGTTGCACTTCAAACAGATGTGCTTCAACAAAACCAGAAAATTCTTGCTGACTCTTTTAATAGTGCTATGGGAAATATTTCCCTTGCATTTAAGGAAGTTAGTGAGGGCCTTTCACAAGTTTCAGGAGCCATTACTACTGTTGCTAATGCTCTTACAAAAATTCAAACTGTTGTTAACTCTCAGGGACAGGCTTTAGCCACACTCACTGAGCAGTTAGCAAACAATTTCCAAGCTATCTCTGCATCCATTGCAGACATATATAATAGATTAAATCAACTTGAAGCAGACGCACAAGTTGACAGACTTATTACTGGACGTCTCGCAGCTCTTAATGCATTCGTCACACAAACACTCTCTAAGCTAGCTGAAGTCAGACAAGCTCGTCAGCTGGCTAATGACAAAATAAATGAGTGCGTAAAGTCTCAGAGTTCCAGGTATGGATTCTGTGGCAATGGCACACACCTCTTTTCAATGGTTAATGCAGCACCTTATGGTTTTGTATTTTTCCATACTGTACTTCTACCAACACAATACACCACTGTACAAGCGTACTCTGGTATATGCCAAAATGGCAAAGCTATGGCTCTTAAAGACCCTAGCTTAGCACTTTTTAGAGGTACCAGCCACTACCTTGTTACACCTCGTAACATGTACCAACCTAGACAAGCCTCAATATCAGACTTCGTCACTATTGAGAGCTGCACTGTTACGTATTTAAACTTAACTGACACTACCATAGATGCTGTTATACCGGACTATGTGGATGTCAATAAAACTGTTGAGGATATACTTAACAACCTCCCTAACTACACTAAACCAGACCTAGATTTAGGTCGGTATAATAATACTATACTCAATCTCACAACTGAGATCAATGACTTAAATGGTAGAGCAGAGAACTTGACTCAAATAGTTGAGAATCTGCAGGAATACATAGACAAAATTAATGCCACTATAATTGACCTTGAATGGTTGAACAGAGTGGAAACATATATAAAGTGGCCATGGTGGGTTTGGCTTTTAATAGTCCTTGCCATTGCAGCTTTTGCATGTATAGTCGTCACAATTTTCCTCTGCACTGGATGTTGTGGTGGCTGCTTTGGGTGTTGCGGTGGATGTTTTGGACTCTTTTCTAAAAAGAGACACCTTAACACAGAACCGACACCTGTATCTTTTAAACTCAAAGAATGGTAG
Protein
MQSIILVTILSAATASPLADKILDFLTFPGAHQYLKQTPQPKLGRERCFNVLPGGYIPDSFGFPSWFVLTNSSTFLNGEYTMEQPLFANAHLCTWQSNQQYRRYGFNNSCLLPADSCNPKHNGSSLFKGWNNTVGFSDTIRINVNITSYDYDSYAGFINISQSDGSYISIQCTNDSDPSTLSVARSVLPLTYIGKTIYCFANFTQQQTSYIQFMGVLPPHVAELAFDRTGNIYINGYRYFQISTIDYIQFGLAFNNSPIHFSVTWLNYTRVHFNTQEGVIKKIMYCDSDYNSLTCDMNTFSLPDGVYSFSSLQMDLVPQTFVTLPVYANHSDLVLNTSYTVGSCVNCPPIQHSIYIEGAVNDTYCVNSKQFTLKINSHVDAKYSQYFKTVFTAGTCPFTFPNVNNFLSFESFCISTVNNGGCTIHVQKVWNSVVHTFATLYVSYQEGNSIHAMPKPATGISDISTVYLDVCSRYNIYGKTGNGIIRLTNQSYIAGLYYTSPSGDLLAFKNVTTQQVYSVTPCRPSSQVAVYNGSIIAAFTSTENVTIETLTYSRATPMFYYHSVGNDSCDAPVVSFGSIGVCSGGGLHFVDSASNEFTNVVPISTQNISIPVNFTVSIQSEYIQIEQQPVTVDCRQYVCNGNERCLQLLMQYTSACSSIEQALSLNARLEAADIQTMLTYSPETLKLANITNFESGDVNYNLTNILPKKYQGRSPIEDILFDKVVTNGLGTVDQDYKACTNGVFLADLACAQYYNGIMVLPGVADPAKMAMYTASLTGGMVFGGLTSAAAIPFSLAVQSRLNYVALQTDVLQQNQKILADSFNSAMGNISLAFKEVSEGLSQVSGAITTVANALTKIQTVVNSQGQALATLTEQLANNFQAISASIADIYNRLNQLEADAQVDRLITGRLAALNAFVTQTLSKLAEVRQARQLANDKINECVKSQSSRYGFCGNGTHLFSMVNAAPYGFVFFHTVLLPTQYTTVQAYSGICQNGKAMALKDPSLALFRGTSHYLVTPRNMYQPRQASISDFVTIESCTVTYLNLTDTTIDAVIPDYVDVNKTVEDILNNLPNYTKPDLDLGRYNNTILNLTTEINDLNGRAENLTQIVENLQEYIDKINATIIDLEWLNRVETYIKWPWWVWLLIVLAIAAFACIVVTIFLCTGCCGGCFGCCGGCFGLFSKKRHLNTEPTPVSFKLKEW
Summary
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.
Uniprot
Pubmed
EMBL
Proteomes
ProteinModelPortal
PDB
6U7H
E-value=0.0 Score= 917 Identity=47.15%
Cov(Q)=92.25% Cov(P)=95.51%
3D Structure
Ontologies
GO
GO:0044173 C:host cell endoplasmic reticulum-Golgi intermediate compartment membrane
GO:0046813 P:receptor-mediated virion attachment to host cell
GO:0039654 P:fusion of virus membrane with host endosome membrane
GO:0019031 C:viral envelope
GO:0009405 P:pathogenesis
GO:0016021 C:integral component of membrane
GO:0075509 P:endocytosis involved in viral entry into host cell
GO:0055036 C:virion membrane
GO:0019064 P:fusion of virus membrane with host plasma membrane
GO:0046813 P:receptor-mediated virion attachment to host cell
GO:0039654 P:fusion of virus membrane with host endosome membrane
GO:0019031 C:viral envelope
GO:0009405 P:pathogenesis
GO:0016021 C:integral component of membrane
GO:0075509 P:endocytosis involved in viral entry into host cell
GO:0055036 C:virion membrane
GO:0019064 P:fusion of virus membrane with host plasma membrane
Subcellular Location
From MSLVP
Capsid
From Uniprot
Virion membrane
Accumulates in the endoplasmic reticulum-Golgi intermediate compartment, where it participates in virus particle assembly. With evidence from 1 publications.
Host endoplasmic reticulum-Golgi intermediate compartment membrane Accumulates in the endoplasmic reticulum-Golgi intermediate compartment, where it participates in virus particle assembly. With evidence from 1 publications.
Host endoplasmic reticulum-Golgi intermediate compartment membrane Accumulates in the endoplasmic reticulum-Golgi intermediate compartment, where it participates in virus particle assembly. With evidence from 1 publications.
Topology
Length:
1200
Number of predicted TMHs:
1
Exp number of AAs in TMHs:
45.03549
Exp number, first 60 AAs:
0.13875
Total prob of N-in:
0.00800
outside
1 - 1138
TMhelix
1139 - 1161
inside
1162 - 1200
