Nucleoprotein

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(New page: Crystal Structure of Nucleoprotein 3pto {{STRUCTURE_3pto| PDB=3pto | SIZE=300| SCENE= |right|CAPTION=Nucleoprotein 3pto }} '''Nucleoproteins'...)
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[[Image:3pto.png|left|200px|thumb|Crystal Structure of Nucleoprotein [[3pto]]]]
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<StructureSection load='' size='350' side='right' caption='Nucleoprotein from Lassa virus trimer complex with TTP and Zn+2 ions (grey) [[3mx2]]' scene='46/461363/Cv/2' pspeed='8'>
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{{STRUCTURE_3pto| PDB=3pto | SIZE=300| SCENE= |right|CAPTION=Nucleoprotein [[3pto]] }}
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'''Nucleoproteins''' (NP) are associated with DNA or RNA. NPs which contain RNA are called ribonucleoproteins (RNPs). The NP RNA-recognition motif is named RRM. The small nuclear ribonucleoproteins (snRNPs) are RNA-protein complexes which form part of the spliceosome. The heterogenous nuclear ribonucleoproteins (hnRNP) are RNA-protein complexes which associates with the splicing apparatus and prevent the folding of pre-mRNA. The images at the left and at the right correspond to one representative NP, ''i.e.'' the crystal structure of Nucleoprotein from Vesicular stomatitis Indiana virus ([[3pto]]).
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__TOC__
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== Function ==
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{{TOC limit|limit=2}}
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'''Nucleoproteins''' (NP) are proteins associated with DNA or RNA<ref>PMID:2203758</ref>. NPs which contain RNA are called '''ribonucleoproteins''' (RNPs). The NP RNA-recognition motif is named RRM.<br />
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<br />
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The '''small nuclear ribonucleoproteins''' (snRNPs) are RNA-protein complexes which form part of the spliceosome<ref>PMID:15130578</ref>. For details on SnRNP see [[Azoarcus group I intron]].<br />
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<br />
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The '''heterogenous nuclear ribonucleoproteins''' (hnRNP) are RNA-protein complexes which associates with the splicing apparatus and prevent the folding of pre-mRNA<ref>PMID:19099192</ref>. <br />
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For details on '''heterogenous nuclear ribonucleoproteins''' see [[HnRNP A1]].<br />
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For homology model and multiple sequence alignment see [[User:Michael Strong/H1N1/NP]] and [[User:Michael Strong/H1N1/NP/MSA]].<br />
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For details on HIV-1 nucleoprotein see [[HIV-1 Nucleocapsid Protein (NC)]].
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== 3D Structures of Nucleoprotein ==
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3ouo, 3ov9 – NP – Rift valley fever virus
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== Structural highlights ==
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3q7b, 3q7c, 3mwp, 3mwt – LvNP exonuclease domain – Lassa virus
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*<scene name='46/461363/Cv/6'>TTP binding site</scene> in Nucleoprotein from Lassa virus ([[3mx2]]). Water molecules are shown as red spheres.
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3pto - VvNP – Vesicular stomatitis Indiana virus
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*<scene name='46/461363/Cv/7'>Zn coordination site</scene>.
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2qvj – VvNP (mutant)
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2k48 – NP N terminal – Andes virus - NMR
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3hd4 – NP N terminal – Murine hepatitis virus
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2wfs – IvNP – Cryo EM – Influenza virus
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2q06, 2iqh – IvNP
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2i8b – NP C terminal – Ebola virus – NMR
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1yvr – XlNP Ro – Xenopus laevis
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1wwf – MvNP P10 – Moloney murine leukemia virus – NMR
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2c86 – BvNP N terminal – Avian infectious bronchitis virus
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2ca1 – BvNP dimerization domain
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2btl, 2bxx – BvNP RRM (mutant)
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1n93, 1pp1 – NP P40 – Borna disease virus
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Nucleoprotein binary complex
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== 3D Structures of Nucleoprotein ==
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[[Nucleoprotein 3D structures]]
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3mx2, 3mx5 – LvNP + nucleotide
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3ptx, 3pu0, 3pu1, 3pu4, 2gic – VvNP + RNA
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2wyy – VvNP + poly U – Cryo EM
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3hhw – VvNP + phosphoprotein
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3hhz - VvNP + phosphoprotein + RNA
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2wj8 – NP + RNA – Human respiratory syncytial virus
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2i91, 1yvp – XlNP Ro + RNA
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2gtt – NP + RNA – Rabies virus
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1wwg, 1wwd, 1wwe , 1u6p- MvNP P10 + RNA – NMR
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Ribonucleoprotein
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2lbw – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR
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2lbx - yRNP subunit 2 residues 36-156 – NMR
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Small nuclear ribonucleoprotein
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2a3j - h-snRNP U1 A RRM – human - NMR
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2l5i, 2l5j - h-snRNP U1 70kDa residues 131-151 – NMR
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2vy4, 2vy5 - h-snRNP U11/U12 – NMR
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2cqj - h-snRNP U3 S4 domain – NMR
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1x4q - h-snRNP U4/U6 PWI domain - NMR
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2vrd - h-snRNP U1 C zinc finger domain - NMR
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2k3k – Dm-snRNP U1 A RRM1 – Drosophila melanogaster – NMR
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2aym - Dm-snRNP U1 A
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2b0g - Dm-snRNP U1 A RBD2 – NMR
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Small nuclear ribonucleoprotein binary complex
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3plu, 3plv – y-snRNP HINDI domain + ubiquitin-like modifier HUB1
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2y9a, 2y9b, 2y9c, 2y9d – h-snRNP U4 core domain
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3p49 - h-snRNP A RRM + glycine riboswitch RNA
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3pgw, 3mum, 3mur, 3mut, 3muv, 3egz - h-snRNP U1 A + DNA riboswitch
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3mxh, 3irw - h-snRNP U1 A (mutant) + DNA riboswitch
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3k0j - h-snRNP U1 A (mutant) + RNA
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3iin - h-snRNP U1 A (mutant) + group I intron + DNA
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3b02, 3b03, 3b04 - h-snRNP U1 A RRM1 + group I intron + RNA
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1zzn - h-snRNP U1 A RRM1 (mutant) + group I intron + RNA
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3l3c, 3g8s, 3g8t, 3g96, 3g9c, 2nz4 - h-snRNP U1 A (mutant) + GLMS ribozyme + RNA
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3hhn - h-snRNP U1 A (mutant) + class I ligase ribozyme
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2oih, 2oj3 - h-snRNP U1 A + HDV ribozyme
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3cul, 3cun - h-snRNP U1 A (mutant) + aminoacyl-tRNA synthetase ribozyme
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3cw1 - h-snRNP U1 in spliceosome
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2ozb - h-snRNP U4/U6 + NHP2-like protein + RNA
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2bn5 - Dm-snRNP U1 70kDa + PSI B box – NMR
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Heterogenous nuclear ribonucleoprotein
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3s01 – m-hnRNP L RRM3 domain – mouse
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2e5i - m-hnRNP L RRM – NMR
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2db1 - m-hnRNP F RRM – NMR
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1x4b - h-hnRNP A2/B1 RRM – NMR
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1txp - h-hnRNP C oligomerization domain – NMR
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1wf2 - h-hnRNP C1/C2 RRM – NMR
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2hgl, 2hgm, 2hgn - h-hnRNP F QRRM – NMR
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1wg5, 1wez - h-hnRNP H RRM – NMR
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2ad9, 2adb, 2adc - h-hnRNP I – NMR
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1zzi, 1zzj - h-hnRNP K KH domain + DNA
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1zzk - h-hnRNP K KH domain
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2do0, 2dh9, 2dgv - h-hnRNP M RRM – NMR
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2dgu - h-hnRNP Q RRM – NMR
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2dk2 - h-hnRNP R RRM – NMR
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Heterogenous nuclear ribonucleoprotein binary complex
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</StructureSection>
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2kfy, 2kg0, 2kg1 - h-hnRNP F QRRM + DNA – NMR
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== References ==
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2z5n, 2z5o, 2ot8 - h-hnRNP D0 C terminal + transportin-1
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<references/>
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1u1k, 1u1l, 1u1m, 1u1n, 1u1o, 1u1p, 1u1q, 1u1r - h-hnRNP A1 + DNA
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[[Category:Topic Page]]
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1wtb, 1x0f - h-hnRNP D0 RRM + DNA – NMR
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Current revision

Nucleoprotein from Lassa virus trimer complex with TTP and Zn+2 ions (grey) 3mx2

Drag the structure with the mouse to rotate

References

  1. ↑ Echols H. Nucleoprotein structures initiating DNA replication, transcription, and site-specific recombination. J Biol Chem. 1990 Sep 5;265(25):14697-700. PMID:2203758
  2. ↑ Yong J, Wan L, Dreyfuss G. Why do cells need an assembly machine for RNA-protein complexes? Trends Cell Biol. 2004 May;14(5):226-32. PMID:15130578 doi:http://dx.doi.org/10.1016/j.tcb.2004.03.010
  3. ↑ He Y, Smith R. Nuclear functions of heterogeneous nuclear ribonucleoproteins A/B. Cell Mol Life Sci. 2009 Apr;66(7):1239-56. doi: 10.1007/s00018-008-8532-1. PMID:19099192 doi:http://dx.doi.org/10.1007/s00018-008-8532-1

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Michal Harel, Alexander Berchansky, Jaime Prilusky, Joel L. Sussman

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