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Virus coat protein: Difference between revisions

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<StructureSection load='' size='350' side='right' caption='Structure of HIV-I coat protein hexamer (PDB entry [[3gv2]])' scene='51/516486/Cv/1'>
<StructureSection load='' size='350' side='right' caption='Structure of HIV-I coat protein hexamer (PDB entry [[3gv2]])' scene='51/516486/Cv/1'>


'''Virus coat proteins''' (VCP) or capsid proteins coat the virus<ref>PMID:19825049</ref>.  The various VCPs are designated as Vp1, Vp2, etc.  The VCP P domain (protruding domain) in noroviruses binds histo blood group antigen receptors.  The outer capsid protein '''VP4''' is a virus spike-forming protein which mediates the virial attachment to the host epithelial cell receptors.  VP4 is an outer capsid protein of non-enveloped viruses. VP4 attaches to sialic acid or to integrin heterodimers<ref>PMID:2538649</ref>.  VP4 domains include: '''VP5*''' which forms the foot of the spike and acts in the permeabilization of the cell membrane and '''VP8*''' which forms the head of the spike and binds to sialic acid.
'''Virus coat proteins''' (VCP) or '''capsid proteins''' coat the virus<ref>PMID:14019094</ref>.  The various VCPs are designated as Vp1, Vp2, etc.  The VCP P domain (protruding domain) in noroviruses binds histo blood group antigen receptors.  The outer capsid protein '''VP4''' is a virus spike-forming protein which mediates the virial attachment to the host epithelial cell receptors.  The distal portion of Vp4 - '''Vp8*''' - is implicated in binding the cellular receptor<ref>PMID:22761376</ref>.  VP4 is an outer capsid protein of non-enveloped viruses. VP4 attaches to sialic acid or to integrin heterodimers<ref>PMID:2538649</ref>.  VP4 domains include: '''VP5*''' which forms the foot of the spike and acts in the permeabilization of the cell membrane and '''VP8*''' which forms the head of the spike and binds to sialic acid.


The biological assembly of HIV-I coat protein is <scene name='51/516486/Cv/4'>homohexamer</scene> (PDB entry [[3gv2]]).
The biological assembly of HIV-I coat protein is <scene name='51/516486/Cv/4'>homohexamer</scene> (PDB entry [[3gv2]]).


For details on Zika virus capsid protein see [[Hugo Heringer de Almeida/5YGH]].
*Adeno-associated virus 9 Vp1 see [[Adeno-Associated Virus]].
See also [[Canine parvovirus]]
*Ebola virus [[Journal:Acta Cryst F:S2053230X19004424|Structure of the Ebola virus nucleoprotein - RNA complex]]
</StructureSection>
*Encephalitis virus, Eastern equine see [[FirstGlance/Virus Capsids and Other Large Assemblies#Eastern Equine Encephalitis Virus]]
*[[Hiv-1 gag]]
**[[Tumor susceptibility gene 101]]
*[[Canine parvovirus|Parvovirus, canine]]
*Poliovirus [[Journal:PLoS ONE:1|Antiviral Activity of 3(2H)- and 6-Chloro-3(2H)-Isoflavenes against Highly Diverged, Neurovirulent Vaccine-Derived, Type2 Poliovirus Sewage Isolates]]
*Poliovirus capsid (interactive) at [[FirstGlance/Virus Capsids and Other Large Assemblies]]
*[[Poliovirus receptor-related protein]]
*[[Human rhinovirus|Rhinovirus, human]]
*[[SV40 Capsid Simplified]]
*[[Tobacco Mosaic Virus]]
*[[User:Eric Martz/Virus capsid visualization resources|Virus capsid visualization resources]]
*[[Hugo Heringer de Almeida/5YGH|Zika virus capsid protein]]


==3D structures of virus coat proteins==
==3D structures of virus coat proteins==
[[Virus coat proteins 3D structures]]
</StructureSection>


Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
== References ==
{{#tree:id=OrganizedByTopic|openlevels=0|
<references/>
 
*Virus coat protein of parvovirus
 
**[[2cas]] – cpvVCP - canine parvovirus<br />
**[[1s58]] - VCP – human parvovirus<br />
**[[4qc8]] - VCP Vp2 – bovine parvovirus<br />
**[[1k3v]] – VCP Vp2 – pig parvovirus<br />
**[[1ijs]], [[1p5w]], [[1p5y]] – cpvVCP (mutant) + DNA<br />
**[[4dpv]] - cpvVCP + DNA
 
*Virus coat protein of HIV
 
**[[1afv]], [[1e6j]] – HivVCP + antibody – HIV-1<br />
**[[3gv2]], [[3h47]], [[3h4e]] – HivVCP (mutant) <br />
**[[1aum]], [[1a8o]], [[1a43]], [[2ont]], [[3lry]], [[3mge]] – HivVCP C terminal<br />
**[[2jyl]], [[2jyg]] - HivVCP C terminal (mutant) – NMR<BR />
**[[3dph]], [[3ds2]], [[3ds5]], [[3dtj]] - HivVCP C terminal (mutant) <br />
**[[2buo]] - HivVCP C terminal + inhibitor of capsid assembly<br />
**[[2xt1]], [[2xv6]], [[2xxm]] - HivVCP C terminal + camelid VHH 9<br />
**[[3ds0]], [[3ds1]], [[3ds3]], [[3ds4]] - HivVCP C terminal (mutant) + inhibitor of capsid assembly<br />
**[[1m9c]], [[1m9d]] - HivVCP N terminal + cyclophilin<br />
**[[1m9e]], [[1m9f]], [[1m9x]], [[1m9y]] - HivVCP N terminal (mutant)+ cyclophilin<br />
**[[2x82]], [[2x83]] – VCP N terminal – HIV-2
 
*Virus coat protein of Rous sarcoma virus
 
**[[1d1d]] – RsvVCP – Rous sarcoma virus – NMR<BR />
**[[1em9]], [[1p7n]] – RsvVCP N terminal<br />
**[[1eoq]], [[3g1g]], [[3g1i]], [[3g21]], [[2x8q]] - RsvVCP C terminal<br />
**[[3g0v]], [[3g26]], [[3g28]], [[3g29]] - RsvVCP C terminal (mutant) <br />
**[[3tir]] – RsvVCP P27
 
*Virus coat protein of rotavirus
 
**[[1qhd]] – brvVCP Vp6 – bovine rotavirus<br />
**[[3kz4]] - brvVCP Vp2<br />
**[[4v7q]] - rrVCP Vp4 – rhesus rotavirus – Cryo EM<br />
**[[2p3i]], [[2p3k]] - rrVCP Vp4 Vp8* domain <br />
**[[2p3j]] – rrVCP Vp4 Vp8* domain (mutant) <br />
**[[1kri]] - rrVCP Vp4 Vp8* domain – NMR<br />
**[[2b4h]], [[2b4i]], [[1slq]] - Vp4 Vp5* domain <br />
**[[3gzt]], [[3gzu]] – rrVCP Vp7 – Cryo EM<BR />
**[[1kqr]], [[3tb0]] – rrVCP Vp4 Vp8* domain + neuraminic acid derivative <BR />
**[[3tay]] – prVCP Vp4 Vp8* domain (mutant) + neuraminic acid derivative <BR />
**[[2i2s]] - VCP Vp4 Vp8* domain – pig rotavirus<br />
**[[3sis]], [[3sit]] - prVCP Vp4 Vp8* domain + glycan<br />
**[[2dwr]] - hrvVCP Vp4 Vp8* domain – human rotavirus<br />
**[[4drr]], [[4drv]], [[4ds0]] - hrvVCP Vp4 Vp8* domain + antigen
 
*Virus coat protein of hepatitis virus
 
**[[1qgt]], [[2qij]] – hbvVCP – hepatitis B virus<br />
**[[3kxs]] – hbvVCP (mutant) <br />
**[[2ztn]], [[3ggq]], [[2zzq]], [[3rkc]] - hevVCP – hepatitis E virus<br />
**[[3rkd]] – hevVCP + antibody<br />
**[[3iyo]] – hevVCP – Cryo EM<BR />
 
*Virus coat protein of norovirus
 
**[[1ihm]], [[3by1]], [[3by2]], [[3d26]], [[2zl5]], [[2zl6]], [[2zl7]] – NvVCP – Norwalk virus<br />
**[[3onu]], [[3ony]], [[2obr]], [[2obs]], [[2obt]], [[3lq6]], [[3lqe]], [[3ry8]] – NvVCP P domain<br />
**[[3pa1]], [[3pa2]], [[3q38]], [[3q39]], [[3q3a]], [[3q6q]], [[3q6r]], [[3asp]], [[3asq]], [[3asr]], [[3ass]], [[3ast]] - NvVCP P domain + antigen<br />
**[[3v7a]] – NvVCP P domain + antibody<br />
 
*Virus coat protein of sindbis virus
 
**[[2snv]], [[2snw]], [[1svp]], [[1kxa]], [[1wyk]], [[3muu]] – svVCP – sindbis virus<br />
**[[1svp]], [[1kxb]], [[1kxc]], [[1kxd]], [[1kxe]], [[1kxf]] – svVCP (mutant)<br />
**[[1ld4]], [[3j0f]], [[3muw]], [[1z8y]] – svVCP + envelope proteins – Cryo EM<BR />
**[[3muw]] - svVCP – Cryo EM<br />
 
*Virus coat protein of zika virus
 
**[[5ygh]], [[5z0r]] – zvVCP – zika virus <br />
**[[6c44]] – zvVCP - NMR<br />
**[[5ire]] – zvVCP – Cryo EM<br />
**[[5z0v]] – zvVCP (mutant) <br />
 
*Virus coat protein of plant viruses
 
**[[1js9]], [[1yc6]] – bmvVCP – brome mosaic virus<br />
**[[3j7l]], [[3j7m]], [[3j7n]] – bmvVCP – cryo EM<br />
**[[1f15]] – VCP – cucumber mosaic virus<br />
**[[1auy]], [[1w39]] – VCP – turnip yellow mosaic virus<br />
**[[5a79]] – VCP – barley stripe mosaic virus – cryo EM<br />
**[[5a2t]] – VCP – bamboo mosaic virus – cryo EM<br />
**[[3zxa]] - tcvVCP – turnip crinkle virus<br />
**[[3zx8]], [[3zx9]] – tcvVCP – Cryo EM<BR />
**[[1f2n]] - VCP – rice yellow mosaic virus<br />
**[[1a34]], [[2tmv]], [[1ei7]] – tmvVCP + RNA - satellite tobacco mosaic virus<br />
**[[3j06]] - tmvVCP + RNA – Cryo EM<BR />
**[[2om3]], [[2xea]], [[4udv]] – tmvVCP – Cryo EM<BR />
**[[3kml]] – tmvVCP (mutant) <br />
**[[2buk]], [[1vtm]], [[4nia]], [[4oq8]], [[4oq9]] - tmvVCP - satellite tobacco necrosis virus<br />
**[[1a6c]] - VCP - tobacco ringspot virus<br />
**[[4y6t]], [[4y6x]] – VCP – tobacco streak virus<br />
**[[4v4m]] – VCP – tobacco necrosis satellite virus<br />
**[[1e57]] – VCP – Physalis mottle virus<br />
**[[2izw]] - VCP – ryegrass mottle virus<br />
**[[1opo]] - VCP – carnation mottle virus<br />
**[[3jb8]] – VCP - maize chlorotic mottle virus<br />
**[[4v5t]], [[4v5w]] – VCP – grapevine fanleaf virus<br />
**[[1ny7]], [[1cwp]], [[2bfu]] – VCP – cowpea mosaic virus<br />
**[[1za7]] - VCP (mutant) – cowpea chlorotic mottle virus<br />
**[[1pgl]], [[1pgw]], [[1bmv]] – VCP + RNA – bean pod mottle virus<br />
**[[2tbv]] – VCP – tomato bushy stunt virus<br />
**[[1smv]] – VCP – sesbania mosaic virus<br />
**[[1stm]], [[4v99]] – VCP - satellite panicum mosaic virus<br />
**[[4sbv]] – VCP – southern bean mosaic virus<br />
**[[1m1c]] – VCP – yeast L-A virus<br />
**[[1laj]] – VCP + RNA – tomato aspermy virus<br />
**[[1uf2]] – VCP + proteins – rice dwarf virus<br />
**[[3iym]] – VCP – Penicillium stoloniferum virus – Cryo EM<BR />
 
*Virus coat protein by fiber diffraction
 
**[[1cgm]] – VCP – cucumber green mottle virus<br />
**[[1rmv]] - VCP + RNA – fibgrass mosaic virus<br />
**[[1pfi]], [[2ifm]] – VCP – Pf1 virus<br />
**[[1vtm]] - VCP - satellite tobacco mosaic virus<br />
 
*Virus coat protein of other viruses
 
**[[2mev]], [[1mec]] – VCP – mengo virus<br />
**[[1bvp]] – VCP – bluetongue virus VP7<br />
**[[1nov]] – VCP – Nodamura virus<br />
**[[1mvm]], [[1z1c]] – mvVCP + DNA – minute virus<br />
**[[2xgk]] – mvVCP Vp2 (mutant) <br />
**[[1bbt]], [[1fod]], [[1fmd]], [[1qgc]] – fmdvVCP – foot and mouth disease virus<br />
**[[2wv4]], [[2wv5]] – fmdvVCP Vp1 + picornain<br />
**[[1fpv]], [[1c8e]], [[1c8f]], [[1c8g]] – VCP – feline panleukopenia virus<br />
**[[1c8d]], [[1c8h]] - VCP – canine panleukopenia virus<br />
**[[2bbv]] – VCP + RNA – black beetle virus<br />
**[[1pov]] – VCP – poliovirus<br />
**[[1sva]] – svVCP – simian virus 40<br />
**[[3bwq]], [[3bwr]] – svVCP Vp1
**[[1sid]], [[1sie]], [[1vpn]], [[1vps]], [[1cn3]] – VCP – murine polyomavirus<br />
**[[3s7v]] - pvVCP Vp1 – polyomavirus<br />
**[[3s7x]] - pvVCP Vp1 (mutant) <br />
**[[1vcp]], [[1vcq]] – sfvVCP – semliki forest virus<br />
**[[1dyl]] – sfvVCP – Cryo EM<br />
**[[2yew]] - VCP  + envelope glycoprotein – Barmah forest virus - Cryo EM<BR />
**[[2eia]], [[1eia]] – VCP – equine infectious anemia virus<br />
**[[1dnv]] – VCP – Galleria mellonella densovirus<br />
**[[1ep5]], [[1ep6]] – eevVCP C terminal – equine encephalitis virus<br />
**[[3j0c]], [[3j0g]] - eevVCP C terminal + envelope glycoprotein – Cryo EM<BR />
**[[3ve6]] – eevVCP NLS + importin<br />
**[[1qrj]] – HtlvVCP – HumanT-cell lymphotrophic virus – NMR<BR />
**[[1g03]] - HtlvVCP N terminal - NMR<BR />
**[[1dzl]] – hpvVCP L1 (mutant) – Human papillomavirus<br />
**[[3iyj]] - VCP L1 – bovine papillomavirus – Cryo EM<BR />
**[[2r5h]], [[2r5i]], [[2r5j]], [[2r5k]] - hpvVCP L1<br />
**[[1f8v]] – VCP + RNA – pariacoto virus<br />
**[[2r18]], [[2z7j]] – VCP Vp3 – birnavirus<br />
**[[2vf1]] – VCP – rabbit picobirnavirus<br />
**[[4agj]], [[4agk]], [[4uon]] – VCP – aura virus<br />
**[[3j2w]] – VCP + E1 + E2 – chikungunya virus – Cryo EM<br />
**[[1jew]] – VCP + receptor – coxsackievvirus – Cryo EM<BR />
**[[1fn9]] – VCP sigma 3 – reovirus<br />
**[[3iyl]] – VCP Vp4+Vp1+Vp3 – grass carp virus – Cryo EM<BR />
**[[1lp3]], [[2g8g]], [[2qa0]], [[3ra2]], [[3ra4]], [[3ra8]], [[3ra9]], [[3raa]], [[3ng9]] – aavVCP – adeno-associated virus<br />
**[[3kic]], [[3kie]], [[4v86]], [[3shm]], [[3ux1]] – aavVCP Vp1<br />
**[[3j1s]] - aavVCP Vp1 + antibody<br />
**[[2gh8]] – VCP – San Miguel sea lion virus<br />
**[[5tiq]], [[5tip]] – PbcvVCP – Parmecium bursaria chlorella virus<br />
**[[1m4x]] – PbcvVCP – Cryo EM<BR />
**[[1no7]] – VCP Vp5 – Human herpes simplex virus<br />
**[[1ohf]] – VCP – Nudaurelia capensis omega virus<br />
**[[1mqt]] – VCP – swine vesicular disease virus<br />
**[[2p5p]] – VCP domain III – West Nile virus<br />
**[[3cnf]] – VCP Vp1+Vp3 – polyhedrosis virus – Cryo EM<BR />
**[[2v4x]] – VCP N terminal – sheep retrovirus<br />
**[[3fbm]] – VCP Vp2 – avian infectious bursal disease virus<br />
**[[2qqp]] – VCP + RNA – Providence virus<br />
**[[2kgf]] – mpmvVCP N-terminal – Mason-Pfizer monkey virus<br />
**[[4ard]] – mpmvVCP P27 – Cryo EM<BR />
**[[3ide]] – VCP Vp2 – infectious pancreatic necrosis virus<br />
**[[4rft]], [[4rfu]], [[4wiz]] - VCP – grouper nervous necrosis virus<br />
**[[3lob]], [[4fte]], [[4fts]] – fhvVCP (mutant) + RNA – flock house virus<br />
**[[4fsj]], [[4ftb]] - fhvVCP + RNA<br />
**[[3nap]] – VCP – triatoma virus<br />
**[[2xgu]], [[2xgv]] – relvVCP N terminal – rabbit endogenous lentivirus<br />
**[[3zue]] – VCP Vp60 - rabbit hemorrhagic disease virus – Cryo EM<BR />
**[[2xgy]] – relvVCP N terminal + cyclophilin<br />
**[[3r0r]] – VCP – pig circovirus<br />
**[[3izx]] – bmcvVCP Vp3 + structural protein 5 – Bombyx mori cypovirus – Cryo EM<BR />
**[[3j17]] - bmcvVCP Vp3 Vp5<br />
**[[3vbf]], [[3vbh]], [[3vbo]], [[3vbr]], [[3vbs]], [[3vbu]] – VCP – human enterovirus<br />
**[[3s6p]] – VCP – Helicoverpa armigera stunt virus<br />
**[[3m8l]] – VCP – feline calcivirus<br />
**[[5fn1]] – VCP – pepino mosaic virus – Cryo EM<br />
**[[5tc1]] – Epms2VCP + maturation protein + phage MS2 genome – Enterobacteria phage MS2<br />
**[[4zor]] – Epms2VCP <br />
**[[5kip]] – VCP –  phage Qbeta<br />
**[[3j9x]] – VCP – Sulfolobus iselandicus virus <br />


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