Nucleoprotein

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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_3mx2| PDB=3mx2 | SIZE=400| SCENE= |right|CAPTION=Nucleoprotein from Lassa virus trimer complex with TTP (stick model) and Zn+2 ions (grey) [[3mx2]] }}
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__TOC__
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== Function ==
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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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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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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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== Structural highlights ==
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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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*<scene name='46/461363/Cv/7'>Zn coordination site</scene>.
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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]]). For homology model and multiple sequence alignment see [[User:Michael Strong/H1N1/NP]] and [[User:Michael Strong/H1N1/NP/MSA]].
 
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== 3D Structures of Nucleoprotein ==
== 3D Structures of Nucleoprotein ==
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[[Nucleoprotein 3D structures]]
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
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</StructureSection>
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===Nucleoprotein===
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[[3ouo]], [[3ov9]] – NP – Rift valley fever virus<br />
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[[3q7b]], [[3q7c]] – LvNP exonuclease domain – Lassa virus<br />
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[[3mwp]], [[3mwt]], [[3r3l]] – LvNP<br />
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[[3pto]] - VvNP – Vesicular stomatitis Indiana virus<br />
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[[2qvj]] – VvNP (mutant)<br />
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[[2k48]] – NP N terminal – Andes virus - NMR<br />
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[[1ssk]] - ScvNP N terminal – SARS coronavirus – NMR<br />
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[[4j3k]] – ScvNP N terminal<br />
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[[2gib]] – ScvNP dimerization domain<br />
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[[2jw8]] - ScvNP dimerization domain – NMR<br />
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[[2ofz]], [[2og3]] - ScvNP RNA-binding domain<br />
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[[3hd4]] – NP N terminal – Murine hepatitis virus<br />
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[[2wfs]], [[2ymn]] – IvNP – Cryo EM – Influenza virus<br />
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[[4dys]], [[4iry]] – IvNP <br />
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[[3zdp]], [[4dyt]] – IvNP (mutant)<br />
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[[2q06]], [[2iqh]], [[3tj0]] – IvNP<br />
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[[2i8b]] – EvNP C terminal – Ebola virus – NMR<br />
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[[3v7o]] - EvNP C terminal<br />
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[[1yvr]] – XlNP Ro – ''Xenopus laevis''<br />
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[[1wwf]] – MvNP P10 – Moloney murine leukemia virus – NMR<br />
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[[2c86]], [[2gec]] – BvNP N terminal – Avian infectious bronchitis virus<br />
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[[2ca1]], [[2ge7]], [[2ge8]] – BvNP dimerization domain<br />
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[[2btl]], [[2bxx]] – BvNP RRM (mutant)<br />
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[[1n93]], [[1pp1]] – NP P40 – Borna disease virus<br />
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[[4aqf]], [[4aqg]] – NP N – Crimean-Congo hemorrhagic fever virus<br />
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[[4fi5]] – NP N terminal – Hantaan virus<br />
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[[4h5l]] – NP – Toscana virus<br />
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[[4bgp]] – LcvNP – La crosse virus<br />
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[[4gve]] – NP C terminal – Tacaribe virus<br />
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[[4idu]], [[4idx]] – SvNP – Schmallenberg virus<br />
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[[4k7e]] – NP C terminal – Junin virus<br />
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===Nucleoprotein binary complex===
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[[3mx2]], [[3mx5]] – LvNP + nucleotide<br />
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[[3t5n]], [[3t5q]], [[4fvu]], [[4g9z]], [[4gv3]], [[4gv6]], [[4gv9]] – LvNP + RNA<br />
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[[3ptx]], [[3pu0]], [[3pu1]], [[3pu4]], [[2gic]] – VvNP + RNA<br />
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[[2wyy]] – VvNP + poly U – Cryo EM<br />
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[[3hhw]], [[3pmk]] – VvNP + phosphoprotein<br />
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[[3hhz]] - VvNP + phosphoprotein + RNA<br />
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[[2wj8]], [[2yhm]], [[4bkk]] – NP + RNA – Human respiratory syncytial virus<br />
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[[2i91]], [[1yvp]] – XlNP Ro + RNA <br />
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[[2gtt]] – NP + RNA – Rabies virus<br />
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[[1wwg]], [[1wwd]], [[1wwe]], [[1u6p]] - MvNP P10 + RNA – NMR<br />
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[[3ro5]], [[4dya]], [[4dyb]], [[4dyn]], [[4dyp]], [[3tg6]] – IvNP + ligand<br />
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[[4bbl]] – IvNP + RNA – Cryo EM<br />
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[[3zla]] – BvNP + RNA – Bunyamwera virus<br />
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[[4ijs]] – BvNP (mutant) + RNA <br />
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[[4bhh]] – LcvNP + poly-U<br />
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[[4jng]] – SvNP + RNA <br />
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[[4j1g]], [[4j1j]] – NP + RNA – Leanye virus<br />
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===Ribonucleoprotein===
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[[2lbw]] – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR<br />
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[[2lbx]] - yRNP subunit 2 residues 36-156 – NMR<br />
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===Small nuclear ribonucleoprotein===
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[[2a3j]], [[1fht]] - h-snRNP U1 A RRM – human - NMR<br />
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[[2u1a]] - h-snRNP U1 A RRM (mutant) – NMR<br />
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[[1dz5]] - h-snRNP U1 A (mutant) – NMR<br />
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[[1oia]] - h-snRNP U1 A RRM<br />
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[[2l5i]], [[2l5j]] - h-snRNP U1 70kDa residues 131-151 – NMR<br />
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[[2vy4]], [[2vy5]] - h-snRNP U11/U12 – NMR<br />
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[[2cqj]] - h-snRNP U3 S4 domain – NMR<br />
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[[1x4q]] - h-snRNP U4/U6 PWI domain - NMR<br />
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[[2vrd]] - h-snRNP U1 C zinc finger domain - NMR<br />
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[[1b34]] - h-snRNP D1 + h-snRNP D2<br />
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[[1d3b]] - h-snRNP SM D3 SM motif + h-snRNP-associated protein<br />
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[[1khm]] - h-snRNP K C terminal (mutant) – NMR<br />
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[[2k3k]] – Dm-snRNP U1 A RRM1 – ''Drosophila melanogaster'' – NMR<br />
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[[2aym]] - Dm-snRNP U1 A<br />
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[[2b0g]] - Dm-snRNP U1 A RBD2 – NMR<br />
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[[1n9r]], [[1n9s]] – y-snRNP F
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===Small nuclear ribonucleoprotein binary complex===
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[[3plu]], [[3plv]] – y-snRNP HINDI domain + ubiquitin-like modifier HUB1<br />
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[[2y9a]], [[2y9b]], [[2y9c]], [[2y9d]] – h-snRNP U4 core domain<br />
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[[3p49]] - h-snRNP A RRM + glycine riboswitch RNA<br />
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[[3iwn]] - h-snRNP U1 A RRM (mutant) + riboswitch RNA<br />
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[[3pgw]], [[3mum]], [[3mur]], [[3mut]], [[3muv]], [[3egz]] - h-snRNP U1 A + DNA riboswitch<br />
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[[3mxh]], [[3irw]] - h-snRNP U1 A (mutant) + DNA riboswitch<br />
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[[3k0j]], [[1drz]], [[1m5k]], [[1m5o]], [[1m5p]], [[1m5v]], [[1u6b]], [[3ucu]], [[3ucz]], [[3ud3]], [[3ud4]] - h-snRNP U1 A (mutant) + RNA<br />
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[[3bo2]], [[3bo3]], [[3bo4]] - h-snRNP U1 A RRM + RNA<br />
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[[1sj3]], [[1sj4]], [[1sjf]], [[1vbx]], [[1vby]], [[1vbz]], [[1vc0]], [[1vc5]], [[1vc6]], [[1vc7]] - h-snRNP U1 A (mutant) + Hepatitis ribozyme<br />
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[[3r1h]], [[3r1l]] - h-snRNP U1 A (mutant) + ribozyme<br />
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[[1aud]] - h-snRNP U1 A (mutant) + RNA - NMR<br />
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[[3iin]] - h-snRNP U1 A (mutant) + group I intron + DNA<br />
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[[4c4w]] - h-snRNP A RRM 1 + TSKT K-turn motif + ribosomal protein L7AE<br />
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[[3b02]], [[3b03]], [[3b04]] - h-snRNP U1 A RRM1 + group I intron + RNA<br />
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[[1zzn]] - h-snRNP U1 A RRM1 (mutant) + group I intron + RNA<br />
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[[3l3c]], [[3g8s]], [[3g8t]], [[3g96]], [[3g9c]], [[2nz4]] - h-snRNP U1 A (mutant) + GLMS ribozyme + RNA<br />
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[[3hhn]] - h-snRNP U1 A (mutant) + class I ligase ribozyme<br />
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[[2oih]], [[2oj3]] - h-snRNP U1 A + HDV ribozyme<br />
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[[3cul]], [[3cun]] - h-snRNP U1 A (mutant) + aminoacyl-tRNA synthetase ribozyme<br />
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[[3cw1]] - h-snRNP U1 in spliceosome<br />
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[[2ozb]], [[3siu]], [[3siv]] - h-snRNP U4/U6 + NHP2-like protein + RNA<br />
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[[3s6n]], [[1vu2]], [[1vu3]], [[4f77]], [[4f7u]] - h-snRNP 8S assembly<br />
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[[4m77]], [[4m78]], [[4m7a]], [[4m7d]] - h-snRNP LSM8 assembly<br />
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[[2bn5]] - Dm-snRNP U1 70kDa + PSI B box – NMR<br />
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===Heterogenous nuclear ribonucleoprotein===
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[[3s01]] – m-hnRNP L RRM3 domain – mouse<br />
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[[3tyt]] - m-hnRNP L<br />
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[[2e5i]] - m-hnRNP L RRM – NMR<br />
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[[2db1]] - m-hnRNP F RRM – NMR<br />
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[[1ha1]], [[1l3k]], [[1up1]] - h-hnRNP A1 RRM<br />
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[[2lyv]] - h-hnRNP A1 RRM 1-2 – NMR<br />
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[[2up1]] - h-hnRNP A1 RRM 1-2 + DNA<br />
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[[3s7r]] - h-hnRNP A/B<br />
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[[1x4b]] - h-hnRNP A2/B1 RRM – NMR<br />
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[[1txp]] - h-hnRNP C oligomerization domain – NMR<br />
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[[1wf2]] - h-hnRNP C1/C2 RRM – NMR<br />
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[[1hd0]], [[1hd1]], [[1iqt]] - h-hnRNP D0 RRM – NMR<br />
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[[2hgl]], [[2hgm]], [[2hgn]] - h-hnRNP F QRRM – NMR<br />
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[[1wg5]], [[1wez]], [[2lxu]] - h-hnRNP H RRM – NMR<br />
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[[2ad9]], [[2adb]], [[2adc]] - h-hnRNP I – NMR<br />
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[[1zzk]] - h-hnRNP K KH domain<br />
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[[3r27]], [[3t08]] - h-hnRNP L RRM<br />
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[[2do0]], [[2dh9]], [[2dgv]] - h-hnRNP M RRM – NMR<br />
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[[2dgu]] - h-hnRNP Q RRM – NMR<br />
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[[2dk2]] - h-hnRNP R RRM – NMR<br />
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===Heterogenous nuclear ribonucleoprotein binary complex===
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[[2kfy]], [[2kg0]], [[2kg1]] - h-hnRNP F QRRM + DNA – NMR<br />
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[[2z5n]], [[2z5o]], [[2ot8]] - h-hnRNP D0 CTD + transportin-1<br />
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[[1u1k]], [[1u1l]], [[1u1m]], [[1u1n]], [[1u1o]], [[1u1p]], [[1u1q]], [[1u1r]], [[1up1]] - h-hnRNP A1 RRM + DNA<br />
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[[1pgz]], [[1po6]] - h-hnRNP A1 + DNA + inhibitor<br />
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[[1wtb]], [[1x0f]] - h-hnRNP D0 RRM + DNA – NMR<br />
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[[1zzi]], [[1zzj]] - h-hnRNP K KH domain + DNA<br />
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[[1j5k]] - h-hnRNP K KH domain + DNA – NMR
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== References ==
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<references/>
[[Category:Topic Page]]
[[Category:Topic Page]]

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

Proteopedia Page Contributors and Editors (what is this?)

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

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