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)
Jump to: navigation, search
Current revision (11:15, 9 January 2020) (edit) (undo)
 
(40 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3pto.png|left|200px|thumb|Crystal Structure of Nucleoprotein [[3pto]]]]
+
<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'>
-
{{STRUCTURE_3pto| PDB=3pto | SIZE=300| SCENE= |right|CAPTION=Nucleoprotein [[3pto]] }}
+
-
'''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]]).
+
__TOC__
 +
== Function ==
-
{{TOC limit|limit=2}}
+
'''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 />
-
<br />
+
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 />
-
<br />
+
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 />
-
<br />
+
For details on '''heterogenous nuclear ribonucleoproteins''' see [[HnRNP A1]].<br />
-
<br />
+
For homology model and multiple sequence alignment see [[User:Michael Strong/H1N1/NP]] and [[User:Michael Strong/H1N1/NP/MSA]].<br />
-
<br />
+
For details on HIV-1 nucleoprotein see [[HIV-1 Nucleocapsid Protein (NC)]].
-
== 3D Structures of Nucleoprotein ==
+
-
[[3ouo]], [[3ov9]] – NP – Rift valley fever virus
+
== Structural highlights ==
-
[[3q7b]], [[3q7c]], [[3mwp]], [[3mwt]] – LvNP exonuclease domain – Lassa virus
+
*<scene name='46/461363/Cv/6'>TTP binding site</scene> in Nucleoprotein from Lassa virus ([[3mx2]]). Water molecules are shown as red spheres.
-
[[3pto]] - VvNP – Vesicular stomatitis Indiana virus
+
*<scene name='46/461363/Cv/7'>Zn coordination site</scene>.
-
[[2qvj]] – VvNP (mutant)
+
-
[[2k48]] – NP N terminal – Andes virus - NMR
+
-
[[3hd4]] – NP N terminal – Murine hepatitis virus
+
-
[[2wfs]] – IvNP – Cryo EM – Influenza virus
+
-
[[2q06]], [[2iqh]] – IvNP
+
-
[[2i8b]] – NP C terminal – Ebola virus – NMR
+
-
[[1yvr]] – XlNP Ro – Xenopus laevis
+
-
[[1wwf]] – MvNP P10 – Moloney murine leukemia virus – NMR
+
-
[[2c86]] – BvNP N terminal – Avian infectious bronchitis virus
+
-
[[2ca1]] – BvNP dimerization domain
+
-
[[2btl]], [[2bxx]] – BvNP RRM (mutant)
+
-
1n93, 1pp1 – NP P40 – Borna disease virus
+
-
Nucleoprotein binary complex
+
== 3D Structures of Nucleoprotein ==
-
 
+
[[Nucleoprotein 3D structures]]
-
3mx2, 3mx5 – LvNP + nucleotide
+
-
3ptx, 3pu0, 3pu1, 3pu4, 2gic – VvNP + RNA
+
-
2wyy – VvNP + poly U – Cryo EM
+
-
3hhw – VvNP + phosphoprotein
+
-
3hhz - VvNP + phosphoprotein + RNA
+
-
2wj8 – NP + RNA – Human respiratory syncytial virus
+
-
2i91, 1yvp – XlNP Ro + RNA
+
-
2gtt – NP + RNA – Rabies virus
+
-
1wwg, 1wwd, 1wwe , 1u6p- MvNP P10 + RNA – NMR
+
-
 
+
-
Ribonucleoprotein
+
-
 
+
-
2lbw – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR
+
-
2lbx - yRNP subunit 2 residues 36-156 – NMR
+
-
 
+
-
Small nuclear ribonucleoprotein
+
-
 
+
-
2a3j - h-snRNP U1 A RRM – human - NMR
+
-
2l5i, 2l5j - h-snRNP U1 70kDa residues 131-151 – NMR
+
-
2vy4, 2vy5 - h-snRNP U11/U12 – NMR
+
-
2cqj - h-snRNP U3 S4 domain – NMR
+
-
1x4q - h-snRNP U4/U6 PWI domain - NMR
+
-
2vrd - h-snRNP U1 C zinc finger domain - NMR
+
-
2k3k – Dm-snRNP U1 A RRM1 – Drosophila melanogaster – NMR
+
-
2aym - Dm-snRNP U1 A
+
-
2b0g - Dm-snRNP U1 A RBD2 – NMR
+
-
 
+
-
Small nuclear ribonucleoprotein binary complex
+
-
 
+
-
3plu, 3plv – y-snRNP HINDI domain + ubiquitin-like modifier HUB1
+
-
2y9a, 2y9b, 2y9c, 2y9d – h-snRNP U4 core domain
+
-
3p49 - h-snRNP A RRM + glycine riboswitch RNA
+
-
3pgw, 3mum, 3mur, 3mut, 3muv, 3egz - h-snRNP U1 A + DNA riboswitch
+
-
3mxh, 3irw - h-snRNP U1 A (mutant) + DNA riboswitch
+
-
3k0j - h-snRNP U1 A (mutant) + RNA
+
-
3iin - h-snRNP U1 A (mutant) + group I intron + DNA
+
-
3b02, 3b03, 3b04 - h-snRNP U1 A RRM1 + group I intron + RNA
+
-
1zzn - h-snRNP U1 A RRM1 (mutant) + group I intron + RNA
+
-
3l3c, 3g8s, 3g8t, 3g96, 3g9c, 2nz4 - h-snRNP U1 A (mutant) + GLMS ribozyme + RNA
+
-
3hhn - h-snRNP U1 A (mutant) + class I ligase ribozyme
+
-
2oih, 2oj3 - h-snRNP U1 A + HDV ribozyme
+
-
3cul, 3cun - h-snRNP U1 A (mutant) + aminoacyl-tRNA synthetase ribozyme
+
-
3cw1 - h-snRNP U1 in spliceosome
+
-
2ozb - h-snRNP U4/U6 + NHP2-like protein + RNA
+
-
2bn5 - Dm-snRNP U1 70kDa + PSI B box – NMR
+
-
 
+
-
Heterogenous nuclear ribonucleoprotein
+
-
 
+
-
3s01 – m-hnRNP L RRM3 domain – mouse
+
-
2e5i - m-hnRNP L RRM – NMR
+
-
2db1 - m-hnRNP F RRM – NMR
+
-
1x4b - h-hnRNP A2/B1 RRM – NMR
+
-
1txp - h-hnRNP C oligomerization domain – NMR
+
-
1wf2 - h-hnRNP C1/C2 RRM – NMR
+
-
2hgl, 2hgm, 2hgn - h-hnRNP F QRRM – NMR
+
-
1wg5, 1wez - h-hnRNP H RRM – NMR
+
-
2ad9, 2adb, 2adc - h-hnRNP I – NMR
+
-
1zzi, 1zzj - h-hnRNP K KH domain + DNA
+
-
1zzk - h-hnRNP K KH domain
+
-
2do0, 2dh9, 2dgv - h-hnRNP M RRM – NMR
+
-
2dgu - h-hnRNP Q RRM – NMR
+
-
2dk2 - h-hnRNP R RRM – NMR
+
-
Heterogenous nuclear ribonucleoprotein binary complex
+
</StructureSection>
-
2kfy, 2kg0, 2kg1 - h-hnRNP F QRRM + DNA – NMR
+
== References ==
-
2z5n, 2z5o, 2ot8 - h-hnRNP D0 C terminal + transportin-1
+
<references/>
-
1u1k, 1u1l, 1u1m, 1u1n, 1u1o, 1u1p, 1u1q, 1u1r - h-hnRNP A1 + DNA
+
[[Category:Topic Page]]
-
1wtb, 1x0f - h-hnRNP D0 RRM + DNA – NMR
+

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

Retrieved from "http://52.214.119.220/wiki/index.php/Nucleoprotein"
Personal tools