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 Nucleoprotein3D Structures of Nucleoprotein

Updated on 19-August-2014

NucleoproteinNucleoprotein

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 - 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
4h5l – NP – Toscana virus
4bgp – LcvNP – La crosse virus
4gve – NP C terminal – Tacaribe virus
4idu, 4idx – SvNP – Schmallenberg virus
4k7e – NP C terminal – Junin 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
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

RibonucleoproteinRibonucleoprotein

2lbw – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR
2lbx - yRNP subunit 2 residues 36-156 – NMR

Small nuclear ribonucleoproteinSmall 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 ribonucleoproteinHeterogenous 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