This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
Nucleoprotein
From Proteopedia
(Difference between revisions)
| Line 1: | Line 1: | ||
<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'> | <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'> | ||
| + | |||
| + | __TOC__ | ||
| + | == Function == | ||
'''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 /> | '''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 /> | ||
| Line 15: | Line 18: | ||
</StructureSection> | </StructureSection> | ||
| - | == 3D Structures of Nucleoprotein == | ||
| - | |||
| - | Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} | ||
| - | {{#tree:id=OrganizedByTopic|openlevels=0| | ||
| - | |||
| - | *'''Nucleoprotein''' | ||
| - | |||
| - | **[[3ouo]], [[3ov9]] – NP – Rift valley fever virus<br /> | ||
| - | **[[3q7b]], [[3q7c]] – LvNP exonuclease domain – Lassa virus<br /> | ||
| - | **[[3mwp]], [[3mwt]], [[3r3l]] – LvNP<br /> | ||
| - | **[[3pto]] - VvNP – Vesicular stomatitis Indiana virus<br /> | ||
| - | **[[2qvj]] – VvNP (mutant)<br /> | ||
| - | **[[5e04]] - AvNP – Andes virus<br /> | ||
| - | **[[2k48]] – AvNP N terminal - NMR<br /> | ||
| - | **[[1ssk]] - ScvNP N terminal – SARS coronavirus – NMR<br /> | ||
| - | **[[6g13]] - NP C terminal – MERS coronavirus<br /> | ||
| - | **[[4j3k]], [[5n4k]] – ScvNP N terminal<br /> | ||
| - | **[[5epw]] – ScvNP C terminal<br /> | ||
| - | **[[2gib]] – ScvNP dimerization domain<br /> | ||
| - | **[[2jw8]] - ScvNP dimerization domain – NMR<br /> | ||
| - | **[[2ofz]], [[2og3]] - ScvNP RNA-binding domain<br /> | ||
| - | **[[3hd4]] – NP N terminal – Murine hepatitis virus<br /> | ||
| - | **[[2wfs]], [[2ymn]] – IvNP – Cryo EM – Influenza virus<br /> | ||
| - | **[[3zdp]], [[4dyt]] – IvNP (mutant)<br /> | ||
| - | **[[2q06]], [[2iqh]], [[3tj0]], [[4dys]], [[4iry]], [[5b7b]], [[5n2u]] – IvNP<br /> | ||
| - | **[[6ehl]] - EvNP – Zaire Ebola virus – Cryo EM<br /> | ||
| - | **[[6c54]] - EvNP residues 25-457- Cryo EM<br /> | ||
| - | **[[2i8b]] – EvNP C terminal – Ebola virus – NMR<br /> | ||
| - | **[[3v7o]], [[4qaz]], [[4qb0]], [[5dsd]], [[5e2x]] - EvNP C terminal<br /> | ||
| - | **[[4z9p]] - EvNP core domain residues 36-351<br /> | ||
| - | **[[5dvw]] - EvNP V30 residues 142-272<br /> | ||
| - | **[[1yvr]] – XlNP Ro – ''Xenopus laevis''<br /> | ||
| - | **[[1wwf]] – MvNP P10 – Moloney murine leukemia virus – NMR<br /> | ||
| - | **[[2c86]], [[2gec]] – BvNP N terminal – Avian infectious bronchitis virus<br /> | ||
| - | **[[2ca1]], [[2ge7]], [[2ge8]] – BvNP dimerization domain<br /> | ||
| - | **[[2btl]], [[2bxx]] – BvNP RRM (mutant)<br /> | ||
| - | **[[1n93]], [[1pp1]] – NP P40 – Borna disease virus<br /> | ||
| - | **[[4aqf]], [[4aqg]] – NP N – Crimean-Congo hemorrhagic fever virus<br /> | ||
| - | **[[4fi5]] – HavNP N terminal – Hantaan virus<br /> | ||
| - | **[[4bgp]] – LcvNP – La crosse virus<br /> | ||
| - | **[[4gve]] – NP C terminal – Tacaribe virus<br /> | ||
| - | **[[4idu]], [[4idx]] – SvNP – Schmallenberg virus<br /> | ||
| - | **[[4k7e]] – NP C terminal – Junin virus<br /> | ||
| - | **[[4o6h]], [[4o6i]] – NP C terminal – Lymphocytic choriomeningitis virus<br /> | ||
| - | **[[5ls4]], [[5lrp]] – NP exonuclease domain – Mopeia virus<br /> | ||
| - | **[[5ip1]] - TsvNP - Tomato spotted virus<br /> | ||
| - | **[[5y6j]] - TsvNP (mutant)<br /> | ||
| - | **[[5f5m]] - LvmvNP – Lake Victoria Marburgvirus<br /> | ||
| - | **[[4xze]] - NP - Hazara virus<br /> | ||
| - | **[[4xzc]] - NP - Hupe virus<br /> | ||
| - | **[[4xza]], [[4xz8]] - NP - Erve virus<br /> | ||
| - | **[[4uce]], [[4ucd]], [[4uc7]], [[4uc6]] – RsvNP N terminal – Human respiratory syncytial virus<br /> | ||
| - | |||
| - | *Nucleoprotein complex with RNA | ||
| - | |||
| - | **[[3t5n]], [[3t5q]], [[4fvu]], [[4g9z]], [[4gv3]], [[4gv6]], [[4gv9]] – LvNP + RNA<br /> | ||
| - | **[[3ptx]], [[3pu0]], [[3pu1]], [[3pu4]], [[2gic]] – VvNP + RNA<br /> | ||
| - | **[[6bjy]] - VvNP + inhibitor + RNA<br /> | ||
| - | **[[3hhz]] - VvNP + phosphoprotein + RNA<br /> | ||
| - | **[[5uk4]] - VvNP + nanobody + RNA<br /> | ||
| - | **[[2wj8]], [[2yhm]], [[4bkk]] – RsvNP + RNA <br /> | ||
| - | **[[2i91]], [[1yvp]] – XlNP Ro + RNA <br /> | ||
| - | **[[2gtt]] – NP + RNA – Rabies virus<br /> | ||
| - | **[[1wwg]], [[1wwd]], [[1wwe]], [[1u6p]] - MvNP P10 + RNA – NMR<br /> | ||
| - | **[[4bbl]] – IvNP + RNA – Cryo EM<br /> | ||
| - | **[[3zla]] – BvNP + RNA – Bunyamwera virus<br /> | ||
| - | **[[4ijs]] – BvNP (mutant) + RNA <br /> | ||
| - | **[[4bhh]] – LcvNP + poly-U<br /> | ||
| - | **[[4jng]] – SvNP + RNA <br /> | ||
| - | **[[4j1g]], [[4j1j]] – NP + RNA – Leanye virus<br /> | ||
| - | **[[5ip2]] - TsvNP + RNA <br /> | ||
| - | **[[5fvc]] - HmpvNP + RNA – Human metapneumovirus<br /> | ||
| - | **[[4xjn]] - PivNP + RNA – Parainfluenza virus<br /> | ||
| - | **[[6i2n]] - HavNP + RNA – Cryo EM<br /> | ||
| - | **[[6h5s]] - MevNP + RNA – Measles virus - Cryo EM<br /> | ||
| - | **[[6nut]], [[5z9w]] - EvNP + RNA – Cryo EM<br /> | ||
| - | |||
| - | *Nucleoprotein complex with antibody | ||
| - | |||
| - | **[[5uk4]] - VvNP + nanobody + RNA<br /> | ||
| - | **[[5tjw]] - IvNP + nanobody <br /> | ||
| - | **[[6app]], [[4w2q]], [[4w2o]] - LvmvNP C-terminal + nanobody <br /> | ||
| - | **[[5w2b]] - NP + antibody – Reston Ebolavirus<br /> | ||
| - | **[[5vkd]] - NP C-terminal + antibody – Bundibugyo Ebolavirus<br /> | ||
| - | **[[6u55]], [[6u54]], [[6u52]], [[6u51]] - NP C-terminal + antibody – Sudan Ebolavirus<br /> | ||
| - | |||
| - | *Nucleoprotein other complexes | ||
| - | |||
| - | **[[3mx2]], [[3mx5]] – LvNP + nucleotide<br /> | ||
| - | **[[2wyy]] – VvNP + poly U – Cryo EM<br /> | ||
| - | **[[3hhw]], [[3pmk]] – VvNP + phosphoprotein<br />r /> | ||
| - | **[[4co6]] - NP + phosphoprotein – Nipah virus<br /> | ||
| - | **[[4ucc]] – RsvNP N terminal + inhibitor<br /> | ||
| - | **[[4ucb]], [[4uca]] – RsvNP N terminal + phosphoprotein<br /> | ||
| - | **[[4uc9]], [[4uc8]] – RsvNP N terminal + phosphoprotein peptide<br /> | ||
| - | **[[3ro5]], [[4dya]], [[4dyb]], [[4dyn]], [[4dyp]], [[3tg6]] – IvNP + ligand<br /> | ||
| - | **[[4kxj]] – ScvNP N terminal + PJ34 <br /> | ||
| - | **[[4li4]], [[4lm7]], [[4lm9]], [[4lmc]] – ScvNP N terminal + nucleotide <br /> | ||
| - | **[[4lmt]] – ScvNP N terminal + quinoline derivative <br /> | ||
| - | **[[4ypi]] - EvNP + peptide – Cryo EM<br /> | ||
| - | **[[6ehm]] - EvNP + VP24 – Cryo EM<br /> | ||
| - | **[[5vao]], [[5vap]] - EvNP VP30 + NP peptide <br /> | ||
| - | **[[5sxq]], [[5f5o]] - LvmvNP + VP35 peptide <br /> | ||
| - | **[[5ip3]] - TsvNP + DNA <br /> | ||
| - | **[[5fvd]] - HmpvNP + phosphoprotein<br /> | ||
| - | **[[5wkn]] - PivNP + phosphoprotein<br /> | ||
| - | |||
| - | *'''Ribonucleoprotein''' | ||
| - | |||
| - | **[[2lbw]] – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR<br /> | ||
| - | **[[2lbx]] - yRNP subunit 2 residues 36-156 – NMR<br /> | ||
| - | **[[4h5l]], [[4csg]], [[5fva]] – TvRNP – Toscana virus<br /> | ||
| - | **[[4csf]] – TvRNP + RNA<br /> | ||
| - | **[[4uft]] – MevRNP + RNA <br /> | ||
| - | |||
| - | *'''Small nuclear ribonucleoprotein''' | ||
| - | |||
| - | **[[2a3j]], [[1fht]] - h-snRNP U1 A RRM – human - NMR<br /> | ||
| - | **[[2u1a]] - h-snRNP U1 A RRM (mutant) – NMR<br /> | ||
| - | **[[1dz5]] - h-snRNP U1 A (mutant) – NMR<br /> | ||
| - | **[[1oia]] - h-snRNP U1 A RRM<br /> | ||
| - | **[[2l5i]], [[2l5j]] - h-snRNP U1 70kDa residues 131-151 – NMR<br /> | ||
| - | **[[2vy4]], [[2vy5]] - h-snRNP U11/U12 – NMR<br /> | ||
| - | **[[2cqj]] - h-snRNP U3 S4 domain – NMR<br /> | ||
| - | **[[1x4q]] - h-snRNP U4/U6 PWI domain - NMR<br /> | ||
| - | **[[2vrd]] - h-snRNP U1 C zinc finger domain - NMR<br /> | ||
| - | **[[1b34]] - h-snRNP D1 + h-snRNP D2<br /> | ||
| - | **[[1d3b]] - h-snRNP SM D3 SM motif + h-snRNP-associated protein<br /> | ||
| - | **[[1khm]] - h-snRNP K C terminal (mutant) – NMR<br /> | ||
| - | **[[2k3k]] – Dm-snRNP U1 A RRM1 – ''Drosophila melanogaster'' – NMR<br /> | ||
| - | **[[2aym]] - Dm-snRNP U1 A<br /> | ||
| - | **[[2b0g]] - Dm-snRNP U1 A RBD2 – NMR<br /> | ||
| - | **[[1n9r]], [[1n9s]] – y-snRNP F | ||
| - | |||
| - | *Small nuclear ribonucleoprotein binary complex | ||
| - | |||
| - | **[[3plu]], [[3plv]] – y-snRNP HINDI domain + ubiquitin-like modifier HUB1<br /> | ||
| - | **[[4wzj]] – h-snRNP U4 core domain<br /> | ||
| - | **[[3p49]] - h-snRNP A RRM + glycine riboswitch RNA<br /> | ||
| - | **[[3iwn]] - h-snRNP U1 A RRM (mutant) + riboswitch RNA<br /> | ||
| - | **[[3pgw]], [[3mum]], [[3mur]], [[3mut]], [[3muv]], [[3egz]] - h-snRNP U1 A + DNA riboswitch<br /> | ||
| - | **[[3mxh]], [[3irw]] - h-snRNP U1 A (mutant) + DNA riboswitch<br /> | ||
| - | **[[3k0j]], [[1drz]], [[1m5k]], [[1m5o]], [[1m5p]], [[1m5v]], [[1u6b]], [[3ucu]], [[3ucz]], [[3ud3]], [[3ud4]] - h-snRNP U1 A (mutant) + RNA<br /> | ||
| - | **[[3bo2]], [[3bo3]], [[3bo4]] - h-snRNP U1 A RRM + RNA<br /> | ||
| - | **[[1sj3]], [[1sj4]], [[1sjf]], [[1vbx]], [[1vby]], [[1vbz]], [[1vc0]], [[1vc5]], [[1vc6]], [[4prf]] - h-snRNP U1 A (mutant) + Hepatitis ribozyme<br /> | ||
| - | **[[3r1h]], [[3r1l]] - h-snRNP U1 A (mutant) + ribozyme<br /> | ||
| - | **[[1aud]] - h-snRNP U1 A (mutant) + RNA - NMR<br /> | ||
| - | **[[3iin]] - h-snRNP U1 A (mutant) + group I intron + DNA<br /> | ||
| - | **[[4c4w]] - h-snRNP A RRM 1 + TSKT K-turn motif + ribosomal protein L7AE<br /> | ||
| - | **[[3b02]], [[3b03]], [[3b04]] - h-snRNP U1 A RRM1 + group I intron + RNA<br /> | ||
| - | **[[1zzn]] - h-snRNP U1 A RRM1 (mutant) + group I intron + RNA<br /> | ||
| - | **[[3l3c]], [[3g8s]], [[3g8t]], [[3g96]], [[3g9c]], [[2nz4]] - h-snRNP U1 A (mutant) + GLMS ribozyme + RNA<br /> | ||
| - | **[[3hhn]] - h-snRNP U1 A (mutant) + class I ligase ribozyme<br /> | ||
| - | **[[2oih]], [[2oj3]] - h-snRNP U1 A + HDV ribozyme<br /> | ||
| - | **[[3cul]], [[3cun]] - h-snRNP U1 A (mutant) + aminoacyl-tRNA synthetase ribozyme<br /> | ||
| - | **[[3cw1]] - h-snRNP U1 in spliceosome<br /> | ||
| - | **[[2ozb]], [[3siu]], [[3siv]] - h-snRNP U4/U6 + NHP2-like protein + RNA<br /> | ||
| - | **[[5xjl]], [[4v98]], [[4f7u]] - h-snRNP 8S assembly<br /> | ||
| - | **[[4m77]], [[4m78]], [[4m7a]], [[4m7d]] - h-snRNP LSM8 assembly<br /> | ||
| - | **[[2bn5]] - Dm-snRNP U1 70kDa + PSI B box – NMR<br /> | ||
| - | |||
| - | *'''Heterogenous nuclear ribonucleoprotein''' | ||
| - | |||
| - | **[[3s01]] – m-hnRNP L RRM3 domain – mouse<br /> | ||
| - | **[[3tyt]] - m-hnRNP L<br /> | ||
| - | **[[2e5i]] - m-hnRNP L RRM – NMR<br /> | ||
| - | **[[2db1]] - m-hnRNP F RRM – NMR<br /> | ||
| - | **[[1ha1]], [[1l3k]], [[1up1]] - h-hnRNP A1 RRM<br /> | ||
| - | **[[2lyv]] - h-hnRNP A1 RRM 1-2 – NMR<br /> | ||
| - | **[[2up1]] - h-hnRNP A1 RRM 1-2 + DNA<br /> | ||
| - | **[[3s7r]] - h-hnRNP A/B<br /> | ||
| - | **[[1x4b]] - h-hnRNP A2/B1 RRM – NMR<br /> | ||
| - | **[[1txp]] - h-hnRNP C oligomerization domain – NMR<br /> | ||
| - | **[[1wf2]] - h-hnRNP C1/C2 RRM – NMR<br /> | ||
| - | **[[1hd0]], [[1hd1]], [[1iqt]] - h-hnRNP D0 RRM – NMR<br /> | ||
| - | **[[2hgl]], [[2hgm]], [[2hgn]] - h-hnRNP F QRRM – NMR<br /> | ||
| - | **[[1wg5]], [[1wez]], [[2lxu]] - h-hnRNP H RRM – NMR<br /> | ||
| - | **[[2ad9]], [[2adb]], [[2adc]] - h-hnRNP I – NMR<br /> | ||
| - | **[[1zzk]] - h-hnRNP K KH domain<br /> | ||
| - | **[[3r27]], [[3t08]] - h-hnRNP L RRM<br /> | ||
| - | **[[2do0]], [[2dh9]], [[2dgv]] - h-hnRNP M RRM – NMR<br /> | ||
| - | **[[2dgu]] - h-hnRNP Q RRM – NMR<br /> | ||
| - | **[[2dk2]] - h-hnRNP R RRM – NMR<br /> | ||
| - | |||
| - | *Heterogenous nuclear ribonucleoprotein binary complex | ||
| - | **[[2kfy]], [[2kg0]], [[2kg1]] - h-hnRNP F QRRM + DNA – NMR<br /> | ||
| - | **[[2z5n]], [[2z5o]], [[2ot8]] - h-hnRNP D0 CTD + transportin-1<br /> | ||
| - | **[[1u1k]], [[1u1l]], [[1u1m]], [[1u1n]], [[1u1o]], [[1u1p]], [[1u1q]], [[1u1r]], [[1up1]] - h-hnRNP A1 RRM + DNA<br /> | ||
| - | **[[1pgz]], [[1po6]] - h-hnRNP A1 + DNA + inhibitor<br /> | ||
| - | **[[1wtb]], [[1x0f]] - h-hnRNP D0 RRM + DNA – NMR<br /> | ||
| - | **[[1zzi]], [[1zzj]] - h-hnRNP K KH domain + DNA<br /> | ||
| - | **[[1j5k]] - h-hnRNP K KH domain + DNA – NMR | ||
| - | }} | ||
== References == | == References == | ||
<references/> | <references/> | ||
[[Category:Topic Page]] | [[Category:Topic Page]] | ||
Revision as of 11:29, 11 November 2019
| |||||||||||
References
- ↑ Echols H. Nucleoprotein structures initiating DNA replication, transcription, and site-specific recombination. J Biol Chem. 1990 Sep 5;265(25):14697-700. PMID:2203758
- ↑ 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
- ↑ 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
