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Structure of the dimerization domain of the human polyoma, JC virus agnoprotein is an amphipathic alpha-helix.
Authors
Coric, P., Saribas, S.A., Abou-Gharbia, M., Childers, W., White, M., Bouaziz, S., Safak, M.
Assembly
dimerization domain of the human polyoma, JC virus agnoprotein
Entity
1. dimerization domain of the human polyoma, JC virus agnoprotein (polymer, Thiol state: all free), 36 monomers, 4200.816 Da Detail

TWSGTKKRAQ RILIFLLEFL LDFCTGEDSV DGKKRQ


Formula weight
4200.816 Da
Source organism
JC polyomavirus
Exptl. method
solution NMR
Refine. method
DGSA-distance geometry simulated annealing
Data set
assigned_chemical_shifts
Chem. Shift Complete
Sequence coverage: 97.2 %, Completeness: 93.6 %, Completeness (bb): 97.3 % Detail

Polymer type: polypeptide(L)

Total1H
All93.6 % (219 of 234)93.6 % (219 of 234)
Backbone97.3 % (73 of 75)97.3 % (73 of 75)
Sidechain91.8 % (146 of 159)91.8 % (146 of 159)
Aromatic81.0 % (17 of 21)81.0 % (17 of 21)
Methyl95.0 % (19 of 20)95.0 % (19 of 20)

1. AGNO

TWSGTKKRAQ RILIFLLEFL LDFCTGEDSV DGKKRQ

Sample

Solvent system water with 30% (v/v) TFE (Trifluoroethanol, CF3CH2OH), Pressure 1 atm, Temperature 293 K, pH 3.0, Details NMR experiments were recorded on a sample at a concentration of 0.5 mM in water with 30% (v/v) TFE, pH 3.0, at 293K, 303K and 313K


#NameIsotope labelingTypeConcentration
1AGNOnatural abundance0.5 mM
2H2Onatural abundance70 v/v
3TFE[U-100% 2H]30 v/v

Protein Blocks Logo
Calculated from 17 models in PDB: 2MJ2, Strand ID: A Detail


Release date
2014-04-10
Citation 1
Nuclear magnetic resonance structure revealed that the human polyomavirus JC virus agnoprotein contains an α-helix encompassing the Leu/Ile/Phe-rich domain
Coric, P., Sami Saribas, A., Abou-Gharbia, M., Childers, W., White, M.K., Bouaziz, S., Safak, M.
J. Virol. (2014), 88, 6556-6575, PubMed 24672035 , DOI 10.1128/JVI.00146-14 ,
Citation 2
Human polyomavirus JC small regulatory agnoprotein forms highly stable dimers and oligomers: implications for their roles in agnoprotein function
Saribas, S.A., Arachea, T.B., White, M.K., Viola, E.R., Safak, M.
Virology (2011), 420, 51-65, PubMed 21920573 , DOI 10.1016/j.virol.2011.08.015 ,
Related entities 1. dimerization domain of the human polyoma, JC virus agnoprotein, : 1 : 2 : 4 entities Detail
Experiments performed 3 experiments Detail
NMR combined restraints 3 contents Detail
Keywords Agnoprotein, DNA replication, NMR, polyomavirus JCV, progressive multifocal leukoencephalopathy