Nucleoprotein

File:3pto.png

Crystal Structure of 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). For homology model and multiple sequence alignment see User:Michael Strong/H1N1/NP and User:Michael Strong/H1N1/NP/MSA.

3D Structures of Nucleoprotein

Updated on 07-May-2015

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• Nucleoprotein
  • 3ouo, 3ov9 – NP – Rift valley fever virus
    
  • 3q7b, 3q7c – LvNP exonuclease domain – Lassa virus
    
  • 3mwp, 3mwt, 3r3l – LvNP
    
  • 3pto - VvNP – Vesicular stomatitis Indiana virus
    
  • 2qvj – VvNP (mutant)
    
  • 2k48 – NP N terminal – Andes virus - NMR
    
  • 1ssk - ScvNP N terminal – SARS coronavirus – NMR
    
  • 4j3k – ScvNP N terminal
    
  • 2gib – ScvNP dimerization domain
    
  • 2jw8 - ScvNP dimerization domain – NMR
    
  • 2ofz, 2og3 - ScvNP RNA-binding domain
    
  • 3hd4 – NP N terminal – Murine hepatitis virus
    
  • 2wfs, 2ymn – IvNP – Cryo EM – Influenza virus
    
  • 4dys, 4iry – IvNP
    
  • 3zdp, 4dyt – IvNP (mutant)
    
  • 2q06, 2iqh, 3tj0 – IvNP
    
  • 2i8b – EvNP C terminal – Ebola virus – NMR
    
  • 3v7o, 4qaz, 4qb0 - EvNP C terminal
    
  • 1yvr – XlNP Ro – Xenopus laevis
    
  • 1wwf – MvNP P10 – Moloney murine leukemia virus – NMR
    
  • 2c86, 2gec – BvNP N terminal – Avian infectious bronchitis virus
    
  • 2ca1, 2ge7, 2ge8 – BvNP dimerization domain
    
  • 2btl, 2bxx – BvNP RRM (mutant)
    
  • 1n93, 1pp1 – NP P40 – Borna disease virus
    
  • 4aqf, 4aqg – NP N – Crimean-Congo hemorrhagic fever virus
    
  • 4fi5 – NP N terminal – Hantaan virus
    
  • 4bgp – LcvNP – La crosse virus
    
  • 4gve – NP C terminal – Tacaribe virus
    
  • 4idu, 4idx – SvNP – Schmallenberg virus
    
  • 4k7e – NP C terminal – Junin virus
    
  • 4o6h – NP C terminal – Lymphocytic choriomeningitis virus
    
• Nucleoprotein binary complex
  • 3mx2, 3mx5 – LvNP + nucleotide
    
  • 3t5n, 3t5q, 4fvu, 4g9z, 4gv3, 4gv6, 4gv9 – LvNP + RNA
    
  • 3ptx, 3pu0, 3pu1, 3pu4, 2gic – VvNP + RNA
    
  • 2wyy – VvNP + poly U – Cryo EM
    
  • 3hhw, 3pmk – VvNP + phosphoprotein
    
  • 3hhz - VvNP + phosphoprotein + RNA
    
  • 4co6 - NP + phosphoprotein – Nipah virus
    
  • 2wj8, 2yhm, 4bkk – NP + RNA – Human respiratory syncytial virus
    
  • 2i91, 1yvp – XlNP Ro + RNA
    
  • 2gtt – NP + RNA – Rabies virus
    
  • 1wwg, 1wwd, 1wwe, 1u6p - MvNP P10 + RNA – NMR
    
  • 3ro5, 4dya, 4dyb, 4dyn, 4dyp, 3tg6 – IvNP + ligand
    
  • 4bbl – IvNP + RNA – Cryo EM
    
  • 3zla – BvNP + RNA – Bunyamwera virus
    
  • 4ijs – BvNP (mutant) + RNA
    
  • 4bhh – LcvNP + poly-U
    
  • 4jng – SvNP + RNA
    
  • 4j1g, 4j1j – NP + RNA – Leanye virus
    
  • 4kxj – ScvNP N terminal + PJ34
    
  • 4li4, 4lm7, 4lm9, 4lmc – ScvNP N terminal + nucleotide
    
  • 4lmt – ScvNP N terminal + quinoline derivative
    
  • 4ypi - EvNP + peptide – Cryo EM
    
• Ribonucleoprotein
  • 2lbw – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR
    
  • 2lbx - yRNP subunit 2 residues 36-156 – NMR
    

4h5l, 4csg – TvRNP – Toscana virus

• • 4csf – TvRNP + RNA
    
  • 4uft – RNP + RNA – Measles virus
    
• Small nuclear ribonucleoprotein
  • 2a3j, 1fht - h-snRNP U1 A RRM – human - NMR
    
  • 2u1a - h-snRNP U1 A RRM (mutant) – NMR
    
  • 1dz5 - h-snRNP U1 A (mutant) – NMR
    
  • 1oia - h-snRNP U1 A RRM
    
  • 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
    
  • 1b34 - h-snRNP D1 + h-snRNP D2
    
  • 1d3b - h-snRNP SM D3 SM motif + h-snRNP-associated protein
    
  • 1khm - h-snRNP K C terminal (mutant) – NMR
    
  • 2k3k – Dm-snRNP U1 A RRM1 – Drosophila melanogaster – NMR
    
  • 2aym - Dm-snRNP U1 A
    
  • 2b0g - Dm-snRNP U1 A RBD2 – NMR
    
  • 1n9r, 1n9s – y-snRNP F
• 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
    
  • 3iwn - h-snRNP U1 A RRM (mutant) + riboswitch RNA
    
  • 3pgw, 3mum, 3mur, 3mut, 3muv, 3egz - h-snRNP U1 A + DNA riboswitch
    
  • 3mxh, 3irw - h-snRNP U1 A (mutant) + DNA riboswitch
    
  • 3k0j, 1drz, 1m5k, 1m5o, 1m5p, 1m5v, 1u6b, 3ucu, 3ucz, 3ud3, 3ud4 - h-snRNP U1 A (mutant) + RNA
    
  • 3bo2, 3bo3, 3bo4 - h-snRNP U1 A RRM + RNA
    
  • 1sj3, 1sj4, 1sjf, 1vbx, 1vby, 1vbz, 1vc0, 1vc5, 1vc6, 1vc7 - h-snRNP U1 A (mutant) + Hepatitis ribozyme
    
  • 3r1h, 3r1l - h-snRNP U1 A (mutant) + ribozyme
    
  • 1aud - h-snRNP U1 A (mutant) + RNA - NMR
    
  • 3iin - h-snRNP U1 A (mutant) + group I intron + DNA
    
  • 4c4w - h-snRNP A RRM 1 + TSKT K-turn motif + ribosomal protein L7AE
    
  • 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, 3siu, 3siv - h-snRNP U4/U6 + NHP2-like protein + RNA
    
  • 3s6n, 1vu2, 1vu3, 4f77, 4f7u - h-snRNP 8S assembly
    
  • 4m77, 4m78, 4m7a, 4m7d - h-snRNP LSM8 assembly
    
  • 2bn5 - Dm-snRNP U1 70kDa + PSI B box – NMR
    
• Heterogenous nuclear ribonucleoprotein
  • 3s01 – m-hnRNP L RRM3 domain – mouse
    
  • 3tyt - m-hnRNP L
    
  • 2e5i - m-hnRNP L RRM – NMR
    
  • 2db1 - m-hnRNP F RRM – NMR
    
  • 1ha1, 1l3k, 1up1 - h-hnRNP A1 RRM
    
  • 2lyv - h-hnRNP A1 RRM 1-2 – NMR
    
  • 2up1 - h-hnRNP A1 RRM 1-2 + DNA
    
  • 3s7r - h-hnRNP A/B
    
  • 1x4b - h-hnRNP A2/B1 RRM – NMR
    
  • 1txp - h-hnRNP C oligomerization domain – NMR
    
  • 1wf2 - h-hnRNP C1/C2 RRM – NMR
    
  • 1hd0, 1hd1, 1iqt - h-hnRNP D0 RRM – NMR
    
  • 2hgl, 2hgm, 2hgn - h-hnRNP F QRRM – NMR
    
  • 1wg5, 1wez, 2lxu - h-hnRNP H RRM – NMR
    
  • 2ad9, 2adb, 2adc - h-hnRNP I – NMR
    
  • 1zzk - h-hnRNP K KH domain
    
  • 3r27, 3t08 - h-hnRNP L RRM
    
  • 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
  • 2kfy, 2kg0, 2kg1 - h-hnRNP F QRRM + DNA – NMR
    
  • 2z5n, 2z5o, 2ot8 - h-hnRNP D0 CTD + transportin-1
    
  • 1u1k, 1u1l, 1u1m, 1u1n, 1u1o, 1u1p, 1u1q, 1u1r, 1up1 - h-hnRNP A1 RRM + DNA
    
  • 1pgz, 1po6 - h-hnRNP A1 + DNA + inhibitor
    
  • 1wtb, 1x0f - h-hnRNP D0 RRM + DNA – NMR
    
  • 1zzi, 1zzj - h-hnRNP K KH domain + DNA
    
  • 1j5k - h-hnRNP K KH domain + DNA – NMR

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