Virus coat protein

Virus coat proteins (VCP) or capsid proteins coat the virus. 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. 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 (PDB entry 3gv2). For details on Zika virus capsid protein see Hugo Heringer de Almeida/5YGH. For adeno-associated virus 9 Vp1 see Adeno-Associated Virus. See also Viral capsids

spinqualitylabelsall models Structure of HIV-I coat protein hexamer (PDB entry 3gv2) Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image

3D structures of virus coat proteins3D structures of virus coat proteins

Updated on 26-March-2020

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• Virus coat protein of parvovirus
  • 1s58 - VCP – human parvovirus
    
  • 4qc8 - VCP Vp2 – bovine parvovirus
    
  • 1k3v – VCP Vp2 – pig parvovirus
    
  • 2cas – cpvVCP - canine parvovirus
    
  • 6oas – cpvVCP - Cryo EM
    
  • 1ijs, 1p5w, 1p5y – cpvVCP (mutant) + DNA
    
  • 4dpv - cpvVCP + DNA
• Virus coat protein of HIV
  • 1afv, 1e6j – HivVCP + antibody – HIV-1
    
  • 3gv2, 3h47, 3h4e – HivVCP (mutant)
    
  • 1aum, 1a8o, 1a43, 2ont, 3lry, 3mge – HivVCP C terminal
    
  • 2jyl, 2jyg - HivVCP C terminal (mutant) – NMR
    
  • 3dph, 3ds2, 3ds5, 3dtj - HivVCP C terminal (mutant)
    
  • 2buo - HivVCP C terminal + inhibitor of capsid assembly
    
  • 2xt1, 2xv6, 2xxm - HivVCP C terminal + camelid VHH 9
    
  • 3ds0, 3ds1, 3ds3, 3ds4 - HivVCP C terminal (mutant) + inhibitor of capsid assembly
    
  • 1m9c, 1m9d - HivVCP N terminal + cyclophilin
    
  • 1m9e, 1m9f, 1m9x, 1m9y - HivVCP N terminal (mutant)+ cyclophilin
    
  • 2x82, 2x83 – VCP N terminal – HIV-2
• Virus coat protein of Rous sarcoma virus
  • 1d1d – RsvVCP – Rous sarcoma virus – NMR
    
  • 1em9, 1p7n – RsvVCP N terminal
    
  • 1eoq, 3g1g, 3g1i, 3g21, 2x8q - RsvVCP C terminal
    
  • 3g0v, 3g26, 3g28, 3g29 - RsvVCP C terminal (mutant)
    
  • 3tir – RsvVCP P27
• Virus coat protein of rotavirus
  • 1qhd – brvVCP Vp6 – bovine rotavirus
    
  • 3kz4 - brvVCP Vp2
    
  • 4v7q - rrVCP Vp4 – rhesus rotavirus – Cryo EM
    
  • 2p3i, 2p3k - rrVCP Vp4 Vp8* domain
    
  • 2p3j – rrVCP Vp4 Vp8* domain (mutant)
    
  • 1kri - rrVCP Vp4 Vp8* domain – NMR
    
  • 2b4h, 2b4i, 1slq - Vp4 Vp5* domain
    
  • 3gzt, 3gzu – rrVCP Vp7 – Cryo EM
    
  • 1kqr, 3tb0 – rrVCP Vp4 Vp8* domain + neuraminic acid derivative
    
  • 3tay – prVCP Vp4 Vp8* domain (mutant) + neuraminic acid derivative
    
  • 2i2s - VCP Vp4 Vp8* domain – pig rotavirus
    
  • 3sis, 3sit - prVCP Vp4 Vp8* domain + glycan
    
  • 2dwr - hrvVCP Vp4 Vp8* domain – human rotavirus
    
  • 4drr, 4drv, 4ds0 - hrvVCP Vp4 Vp8* domain + antigen
• Virus coat protein of hepatitis virus
  • 1qgt, 2qij – hbvVCP – hepatitis B virus
    
  • 3kxs – hbvVCP (mutant)
    
  • 2ztn, 3ggq, 2zzq, 3rkc - hevVCP – hepatitis E virus
    
  • 3rkd – hevVCP + antibody
    
  • 3iyo – hevVCP – Cryo EM
    
• Virus coat protein of norovirus
  • 1ihm, 3by1, 3by2, 3d26, 2zl5, 2zl6, 2zl7 – NvVCP – Norwalk virus
    
  • 3onu, 3ony, 2obr, 2obs, 2obt, 3lq6, 3lqe, 3ry8 – NvVCP P domain
    
  • 3pa1, 3pa2, 3q38, 3q39, 3q3a, 3q6q, 3q6r, 3asp, 3asq, 3asr, 3ass, 3ast - NvVCP P domain + antigen
    
  • 3v7a – NvVCP P domain + antibody
    
• Virus coat protein of sindbis virus
  • 2snv, 2snw, 1svp, 1kxa, 1wyk, 3muu – svVCP – sindbis virus
    
  • 1svp, 1kxb, 1kxc, 1kxd, 1kxe, 1kxf – svVCP (mutant)
    
  • 1ld4, 3j0f, 3muw, 1z8y – svVCP + envelope proteins – Cryo EM
    
  • 3muw - svVCP – Cryo EM
    
• Virus coat protein of zika virus
  • 5ygh, 5z0r – zvVCP – zika virus
    
  • 6c44 – zvVCP - NMR
    
  • 5ire – zvVCP – Cryo EM
    
  • 5z0v – zvVCP (mutant)
    
• Virus coat protein of plant viruses
  • 1js9, 1yc6 – bmvVCP – brome mosaic virus
    
  • 3j7l, 3j7m, 3j7n – bmvVCP – cryo EM
    
  • 1f15 – VCP – cucumber mosaic virus
    
  • 6mrl – VCP – cucumber leaf spot virus - Cryo EM
    
  • 1auy, 1w39 – tumvVCP – turnip yellow mosaic virus
    
  • 6t34 – tumvVCP – Cryo EM
    
  • 3zxa - tcvVCP – turnip crinkle virus
    
  • 3zx8, 3zx9 – tcvVCP – Cryo EM
    
  • 5a79 – VCP – barley stripe mosaic virus – cryo EM
    
  • 6scl – VCP – barley yellow dwarf virus – Cryo EM
    
  • 5a2t – VCP – bamboo mosaic virus – cryo EM
    
  • 1f2n - VCP – rice yellow mosaic virus
    
  • 1uf2 – VCP + proteins – rice dwarf virus
    
  • 1a34, 2tmv, 1ei7 – stmvVCP + RNA - satellite tobacco mosaic virus
    
  • 3j06 - stmvVCP + RNA – Cryo EM
    
  • 2om3, 2xea, 4udv – stmvVCP – Cryo EM
    
  • 3kml – stmvVCP (mutant)
    
  • 2buk, 1vtm, 4nia, 4oq8, 4oq9 - stnvVCP - satellite tobacco necrosis virus
    
  • 6i5a, 6sae, 6sag – tmvVCP - tobacco mosaic virus - Cryo EM
    
  • 1a6c - VCP - tobacco ringspot virus
    
  • 4y6t, 4y6x – VCP – tobacco streak virus
    
  • 4v4m – VCP – tobacco necrosis satellite virus
    
  • 1e57 – VCP – Physalis mottle virus
    
  • 2izw - VCP – ryegrass mottle virus
    
  • 1opo - VCP – carnation mottle virus
    
  • 3jb8 – VCP - maize chlorotic mottle virus
    
  • 4v5t, 4v5w – VCP – grapevine fanleaf virus
    
  • 1ny7, 1cwp, 2bfu – VCP – cowpea mosaic virus
    
  • 1za7 - VCP (mutant) – cowpea chlorotic mottle virus
    
  • 1pgl, 1pgw, 1bmv – VCP + RNA – bean pod mottle virus
    
  • 6qcc – VCP – broad bean stain virus – Cryo EM
    
  • 2tbv – VCP – tomato bushy stunt virus
    
  • 1laj – VCP + RNA – tomato aspermy virus
    
  • 1smv – VCP – sesbania mosaic virus
    
  • 1stm, 4v99 – VCP - satellite panicum mosaic virus
    
  • 4sbv – VCP – southern bean mosaic virus
    
  • 6mrm – VCP - red clover necrotic mosaic virus - Cryo EM
    
  • 6f2s – VCP - ageratum yellow vein virus - Cryo EM
    
  • 6ek5 – VCP - African cassava mosaic virus - Cryo EM
    
  • 1m1c – VCP – yeast L-A virus
    
  • 3iym – VCP – Penicillium stoloniferum virus – Cryo EM
    
  • 6hxx – pvVCP – potato virus – Cryo EM
    
  • 6sco – pvVCP + RNA – Cryo EM
    
  • 6hxx – VCP – potato leaf roll virus – Cryo EM
    
  • 5fn1 – VCP – pepino mosaic virus – Cryo EM
    
• Virus coat protein by fiber diffraction
  • 1cgm – VCP – cucumber green mottle virus
    
  • 1rmv - VCP + RNA – fibgrass mosaic virus
    
  • 1pfi, 2ifm – VCP – Pf1 virus
    
  • 1vtm - stmvVCP
    
• Virus coat protein of other viruses
  • 1qrj – htlvVCP – Human T-cell lymphotrophic virus – NMR
    
  • 1g03 - htlvVCP N terminal - NMR
    
  • 1dzl – hpvVCP L1 (mutant) – Human papillomavirus
    
  • 2r5h, 2r5i, 2r5j, 2r5k - hpvVCP L1
    
  • 1pov – VCP – poliovirus
    
  • 1no7 – VCP Vp5 – Human herpes simplex virus
    
  • 2mev, 1mec – VCP – mengo virus
    
  • 1bvp – VCP – bluetongue virus VP7
    
  • 1nov – VCP – Nodamura virus
    
  • 1mvm, 1z1c – mvVCP + DNA – minute virus
    
  • 2xgk – mvVCP Vp2 (mutant)
    
  • 1bbt, 1fod, 1fmd, 1qgc – fmdvVCP – foot and mouth disease virus
    
  • 2wv4, 2wv5 – fmdvVCP Vp1 + picornain
    
  • 1c8d, 1c8h - VCP – canine panleukopenia virus
    
  • 2bbv – VCP + RNA – black beetle virus
    
  • 1sva – svVCP – simian virus 40
    
  • 3bwq, 3bwr – svVCP Vp1
    
  • 2kgf – mpmvVCP N-terminal – Mason-Pfizer monkey virus
    
  • 4ard – mpmvVCP P27 – Cryo EM
    
  • 1sid, 1sie, 1vpn, 1vps, 1cn3 – VCP – murine polyomavirus
    
  • 3s7v - pvVCP Vp1 – polyomavirus
    
  • 3s7x - pvVCP Vp1 (mutant)
    
  • 1vcp, 1vcq – sfvVCP – semliki forest virus
    
  • 1dyl – sfvVCP – Cryo EM
    
  • 2yew - VCP + envelope glycoprotein – Barmah forest virus - Cryo EM
    
  • 1dnv – VCP – Galleria mellonella densovirus
    
  • 2eia, 1eia – VCP – equine infectious anemia virus
    
  • 1ep5, 1ep6 – eevVCP C terminal – equine encephalitis virus
    
  • 3j0c, 3j0g - eevVCP C terminal + envelope glycoprotein – Cryo EM
    
  • 3ve6 – eevVCP NLS + importin
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  • 3iyj - VCP L1 – bovine papillomavirus – Cryo EM
    
  • 1f8v – VCP + RNA – pariacoto virus
    
  • 2r18, 2z7j – VCP Vp3 – birnavirus
    
  • 2vf1 – VCP – rabbit picobirnavirus
    
  • 4agj, 4agk, 4uon – VCP – aura virus
    
  • 3j2w – VCP + E1 + E2 – chikungunya virus – Cryo EM
    
  • 1jew – VCP + receptor – coxsackievvirus – Cryo EM
    
  • 1fn9 – VCP sigma 3 – reovirus
    
  • 3iyl – VCP Vp4+Vp1+Vp3 – grass carp virus – Cryo EM
    
  • 1lp3, 2g8g, 2qa0, 3ra2, 3ra4, 3ra8, 3ra9, 3raa, 3ng9 – aavVCP – adeno-associated virus
    
  • 3kic, 3kie, 4v86, 3shm, 3ux1 – aavVCP Vp1
    
  • 3j1s - aavVCP Vp1 + antibody
    
  • 2gh8 – VCP – San Miguel sea lion virus
    
  • 5tiq, 5tip – PbcvVCP – Parmecium bursaria chlorella virus
    
  • 1m4x – PbcvVCP – Cryo EM
    
  • 1ohf – VCP – Nudaurelia capensis omega virus
    
  • 2p5p – VCP domain III – West Nile virus
    
  • 3cnf – VCP Vp1+Vp3 – polyhedrosis virus – Cryo EM
    
  • 2v4x – VCP N terminal – sheep retrovirus
    
  • 3fbm – VCP Vp2 – avian infectious bursal disease virus
    
  • 2qqp – VCP + RNA – Providence virus
    
  • 3ide – VCP Vp2 – infectious pancreatic necrosis virus
    
  • 4rft, 4rfu, 4wiz - VCP – grouper nervous necrosis virus
    
  • 3lob, 4fte, 4fts – fhvVCP (mutant) + RNA – flock house virus
    
  • 4fsj, 4ftb - fhvVCP + RNA
    
  • 3nap – VCP – triatoma virus
    
  • 2xgu, 2xgv – relvVCP N terminal – rabbit endogenous lentivirus
    
  • 3zue – VCP Vp60 - rabbit hemorrhagic disease virus – Cryo EM
    
  • 2xgy – relvVCP N terminal + cyclophilin
    
  • 3r0r – VCP – pig circovirus
    
  • 1mqt – VCP – swine vesicular disease virus
    
  • 3izx – bmcvVCP Vp3 + structural protein 5 – Bombyx mori cypovirus – Cryo EM
    
  • 3j17 - bmcvVCP Vp3 Vp5
    
  • 3vbf, 3vbh, 3vbo, 3vbr, 3vbs, 3vbu – VCP – human enterovirus
    
  • 3s6p – VCP – Helicoverpa armigera stunt virus
    
  • 3m8l – FcVCP – feline calcivirus
    
  • 6gsi – FcVCP + Vp2 + junctional adhesion molecule– Cryo EM
    
  • 1fpv, 1c8e, 1c8f, 1c8g – VCP – feline panleukopenia virus
    
  • 6ojn – VCP - singapore grouper iridovirus - Cryo EM
    
  • 6rj0 – VCP – Atlantic cod nervous necrosis virus – Cryo EM
    
  • 5tc1 – Epms2VCP + maturation protein + phage MS2 genome – Enterobacteria phage MS2
    
  • 4zor – Epms2VCP
    
  • 6msf, 7msf – Epms2VCP + RNA
    
  • 5kip – VCP – phage Qbeta
    
  • 3j9x – VCP – Sulfolobus iselandicus virus
    
  • 6tuq – PvVCP - Peudomonas virus PF1 - Cryo EM
    
  • 6tup – PvVCP + DNA - Cryo EM
    
  • 6itb, 6itf – VCP β - flock house virus - Cryo EM