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Protein

Genome polyprotein

Gene
N/A
Organism
Langat virus (strain Yelantsev)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Capsid protein C self-assembles to form an icosahedral capsid about 30 nm in diameter. The capsid encapsulates the genomic RNA (By similarity).By similarity
prM acts as a chaperone for envelope protein E during intracellular virion assembly by masking and inactivating envelope protein E fusion peptide. prM is matured in the last step of virion assembly, presumably to avoid catastrophic activation of the viral fusion peptide induced by the acidic pH of the trans-Golgi network. After cleavage by host furin, the pr peptide is released in the extracellular medium and small envelope protein M and envelope protein E homodimers are dissociated (By similarity).By similarity
Envelope protein E binding to host cell surface receptor is followed by virus internalization through clathrin-mediated endocytosis. Envelope protein E is subsequently involved in membrane fusion between virion and host late endosomes. Synthesized as a homodimer with prM which acts as a chaperone for envelope protein E. After cleavage of prM, envelope protein E dissociate from small envelope protein M and homodimerizes (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processClathrin-mediated endocytosis of virus by host, Fusion of virus membrane with host endosomal membrane, Fusion of virus membrane with host membrane, Host-virus interaction, Viral attachment to host cell, Viral penetration into host cytoplasm, Virus endocytosis by host, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 5 chains:
Alternative name(s):
Core protein
Alternative name(s):
Matrix protein
OrganismiLangat virus (strain Yelantsev)
Taxonomic identifieri31639 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageFlaviviridaeFlavivirustick-borne encephalitis virus group
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Ixodida (ticks) [TaxID: 6935]

Subcellular locationi

Peptide pr :

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini1 – 98CytoplasmicSequence analysisAdd BLAST98
Transmembranei99 – 117HelicalSequence analysisAdd BLAST19
Topological domaini118 – 242ExtracellularSequence analysisAdd BLAST125
Transmembranei243 – 260HelicalSequence analysisAdd BLAST18
Topological domaini261CytoplasmicSequence analysis1
Transmembranei262 – 280HelicalSequence analysisAdd BLAST19
Topological domaini281 – 727ExtracellularSequence analysisAdd BLAST447
Intramembranei728 – 748HelicalSequence analysisAdd BLAST21
Topological domaini749 – 755ExtracellularSequence analysis7
Intramembranei756 – 776HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Keywords - Cellular componenti

Capsid protein, Host endoplasmic reticulum, Host membrane, Membrane, Secreted, Viral envelope protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004051331 – ›776Genome polyproteinAdd BLAST›776
ChainiPRO_00000376991 – 96Capsid protein CBy similarityAdd BLAST96
PropeptideiPRO_000040513497 – 117ER anchor for the protein C, removed in mature form by serine protease NS3By similarityAdd BLAST21
ChainiPRO_0000405135118 – 280Protein prMBy similarityAdd BLAST163
ChainiPRO_0000037700118 – 205Peptide prBy similarityAdd BLAST88
ChainiPRO_0000037701206 – 280Small envelope protein MBy similarityAdd BLAST75
ChainiPRO_0000037702281 – 776Envelope protein EBy similarityAdd BLAST496

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi144N-linked (GlcNAc...) asparagine; by hostSequence analysis1
Disulfide bondi283 ↔ 310By similarity
Disulfide bondi340 ↔ 396By similarity
Disulfide bondi354 ↔ 385By similarity
Disulfide bondi372 ↔ 401By similarity
Glycosylationi434N-linked (GlcNAc...) asparagine; by hostSequence analysis1
Disulfide bondi466 ↔ 570By similarity
Disulfide bondi587 ↔ 618By similarity

Post-translational modificationi

Specific enzymatic cleavages in vivo yield mature proteins Peptide 2K acts as a signal sequence and is removed from the N-terminus of NS4B by the host signal peptidase in the ER lumen. Signal cleavage at the 2K-4B site requires a prior NS3 protease-mediated cleavage at the 4A-2K site (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei96 – 97Cleavage; by viral protease NS3Sequence analysis2
Sitei117 – 118Cleavage; by host signal peptidaseBy similarity2
Sitei205 – 206Cleavage; by host furinSequence analysis2
Sitei280 – 281Cleavage; by host signal peptidaseSequence analysis2

Keywords - PTMi

Cleavage on pair of basic residues, Disulfide bond, Glycoprotein

Interactioni

GO - Molecular functioni

Structurei

Secondary structure

1776
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni589 – 5913
Beta strandi596 – 6005
Beta strandi605 – 6095
Beta strandi617 – 6193
Beta strandi623 – 6264
Beta strandi652 – 6543
Beta strandi661 – 6644
Beta strandi669 – 6724

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1Z66NMR-A580-675[»]
ProteinModelPortaliP29838.
SMRiP29838.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP29838.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni33 – 68Hydrophobic; homodimerization of capsid protein CBy similarityAdd BLAST36

Keywords - Domaini

Transmembrane, Transmembrane helix

Family and domain databases

CDDicd12149. Flavi_E_C. 1 hit.
Gene3Di2.60.40.350. 1 hit.
3.30.387.10. 1 hit.
3.30.67.10. 1 hit.
InterProiView protein in InterPro
IPR000069. Env_glycoprot_M_flavivir.
IPR013755. Flav_gly_cen_dom_subdom1.
IPR001122. Flavi_capsidC.
IPR027287. Flavi_E_Ig-like.
IPR026470. Flavi_E_Stem/Anchor_dom.
IPR002535. Flavi_propep.
IPR000336. Flavivir/Alphavir_Ig-like_sf.
IPR011998. Glycoprot_cen/dimer.
IPR036253. Glycoprot_cen/dimer_sf.
IPR013756. GlyE_cen_dom_subdom2.
IPR014756. Ig_E-set.
PfamiView protein in Pfam
PF01003. Flavi_capsid. 1 hit.
PF02832. Flavi_glycop_C. 1 hit.
PF00869. Flavi_glycoprot. 1 hit.
PF01004. Flavi_M. 1 hit.
PF01570. Flavi_propep. 1 hit.
SUPFAMiSSF56983. SSF56983. 1 hit.
SSF81296. SSF81296. 1 hit.
TIGRFAMsiTIGR04240. flavi_E_stem. 1 hit.

Sequencei

Sequence statusi: Fragment.

Sequence processingi: The displayed sequence is further processed into a mature form.

P29838-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAGKAVLKGK GGGPPRRASK VAPKKTRQLR VQMPNGLVLM RMLGVLWHAL
60 70 80 90 100
TGTARSPVLK AFWKVVPLKQ ATLALRKIKR TVSTLMVGLH RRGSRRTTID
110 120 130 140 150
WMTPLLITVM LGMCLTATVR RERDGSMVIR AEGRDAATQV RVENGTCVIL
160 170 180 190 200
ATDMGSWCDD SLAYECVTID QGEEPVDVDC FCRGVEKVTL EYGRCGRREG
210 220 230 240 250
SRSRRSVLIP SHAQRDLTGR GHQWLEGEAV KAHLTRVEGW VWKNKLFTLS
260 270 280 290 300
LVMVAWLMVD GLLPRILIVV VALALVPAYA SRCTHLENRD FVTGVQGTTR
310 320 330 340 350
LTLVLELGGC VTVTADGKPS LDVWLDSIYQ ESPAQTREYC LHAKLTGTKV
360 370 380 390 400
AARCPTMGPA TLPEEHQSGT VCKRDQSDRG WGNHCGLFGK GSIVTCVKFT
410 420 430 440 450
CEDKKKATGH VYDVNKITYT IKVEPHTGEF VAANETHSGR KSASFTVSSE
460 470 480 490 500
KTILTLGDYG DVSLLCRVAS GVDLAQTVVL ALDKTHEHLP TAWQVHRDWF
510 520 530 540 550
NDLALPWKHD GAEAWNEAGR LVEFGTPHAV KMDVFNLGDQ TGVLLKSLAG
560 570 580 590 600
VPVASIEGTK YHLKSGHVTC EVGLEKLKMK GLTYTVCDKT KFTWKRAPTD
610 620 630 640 650
SGHDTVVMEV GFSGTRPCRI PVRAVAHGVP EVNVAMLITP NPTMENNGGG
660 670 680 690 700
FIEMQLPPGD NIIYVGDLNH QWFQKGSSIG RVLQKTRKGI ERLTVLGEHA
710 720 730 740 750
WDFGSVGGVM TSIGRAMHTV LGGAFNTLLG GVGFLPKILL GVAMAWLGLN
760 770
MRNPTLSMGF LLSGGLVLAM TLGVGA
Length:776
Mass (Da):84,537
Last modified:February 1, 1996 - v2
Checksum:i5F7557E55A33BE3B
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Non-terminal residuei7761

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M73835 Unassigned RNA. Translation: AAA02740.1.
PIRiA41704.

Similar proteinsi

Entry informationi

Entry nameiPOLG_LANVY
AccessioniPrimary (citable) accession number: P29838
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: February 1, 1996
Last modified: November 22, 2017
This is version 109 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references