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3D Structures of Nucleoprotein

Updated on 16-August-2023 {{#tree:id=OrganizedByTopic|openlevels=0|

• Nucleoprotein

• • 5to5, 5to6, 5to7, 5tvb - hNP TPR oligomerization domain residues 2-142 - human
    
  • 1yvr – XlNP Ro – Xenopus laevis
    
  • 3ouo, 3ov9 – NP – Rift valley fever virus
    
  • 3q7b, 3q7c, 7v37 – LvNP exonuclease domain 342-569 – Lassa virus
    
  • 3mwp, 3mwt, 3r3l – LvNP
    
  • 7v3a – LvNP (mutant)
    
  • 3pto - VvNP – Vesicular stomatitis Indiana virus
    
  • 2qvj – VvNP (mutant)
    
  • 7umk, 7uml, 7uws - VvNP – Cryo EM
    
  • 5e04 - AvNP – Andes virus
    
  • 2k48 – AvNP N terminal - NMR
    
  • 6g13 - McvNP C terminal – MERS coronavirus
    
  • 6kl2 - McvNP N terminal
    
  • 7n45 - NP C terminal – HKU1 coronavirus
    
  • 3hd4 – NP N terminal – Murine hepatitis virus
    
  • 2wfs, 2ymn, 6i54, 6i7b, 6i7m, 6i85 – IvNP – Cryo EM – Influenza virus
    
  • 3zdp, 4dyt, 7nt8 – IvNP (mutant)
    
  • 2q06, 2iqh, 3tj0, 4dys, 4iry, 5b7b, 5n2u – IvNP
    
  • 6ehl - EvNP – Zaire Ebola virus – Cryo EM
    
  • 6c54 - EvNP residues 25-457- Cryo EM
    
  • 2i8b – EvNP C terminal – Ebola virus – NMR
    
  • 3v7o, 4qaz, 4qb0, 5dsd, 5e2x - EvNP C terminal
    
  • 4z9p - EvNP core domain residues 36-351
    
  • 5dvw - EvNP V30 residues 142-272
    
  • 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 – HavNP 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, 4o6i – NP C terminal – Lymphocytic choriomeningitis virus
    
  • 5ls4, 5lrp, 6sx8, 6sy8, 6t2a, 6t6l – NP exonuclease domain – Mopeia virus
    
  • 5ip1 - TsvNP - Tomato spotted virus
    
  • 5y6j - TsvNP (mutant)
    
  • 5f5m - LvmvNP – Lake Victoria Marburgvirus
    
  • 4xze - NP - Hazara virus
    
  • 4xzc - NP - Hupe virus
    
  • 4xza, 4xz8 - NP - Erve virus
    
  • 4uce, 4ucd, 4uc7, 4uc6 – RsvNP N terminal – Human respiratory syncytial virus
    
  • 6yjl – RsvNP C terminal - NMR
    
  • 6ydr - NP C terminal - Mengla dianlovirus
    
  • 8fwl - NP – Lyssavirus australis
    
  • 7xpn - SvcNP – Sprivirus cyprinus
    
  • 7aoy – BvNP – Bunyamwera virus – Cryo EM
    
  • 7xiv - LcvNP – Lloviu cuevavirus
    

• Nucleoprotein complex with RNA

• • 2i91, 1yvp – XlNP Ro + RNA
    
  • 3t5n, 3t5q, 4fvu, 4g9z, 4gv3, 4gv6, 4gv9 – LvNP + RNA
    
  • 3ptx, 3pu0, 3pu1, 3pu4, 2gic – VvNP + RNA
    
  • 6bjy - VvNP + inhibitor + RNA
    
  • 3hhz - VvNP + phosphoprotein + RNA
    
  • 2wj8, 2yhm, 4bkk – RsvNP + RNA
    
  • 2gtt, 8ffr – RvNP + RNA – Rabies virus
    
  • 1wwg, 1wwd, 1wwe, 1u6p - MvNP P10 + RNA – NMR
    
  • 7dkg, 7dxp - IvNP + RNA
    
  • 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
    
  • 5ip2 - TsvNP + RNA
    
  • 5fvc - HmpvNP + RNA – Human metapneumovirus
    
  • 4xjn - PivNP + RNA – Parainfluenza virus
    
  • 6i2n - HavNP + RNA – Cryo EM
    
  • 6h5s - MevNP + RNA – Measles virus - Cryo EM
    
  • 6nut, 5z9w - EvNP + RNA – Cryo EM
    
  • 7nt5, 7nt6 - NvNP + RNA – Nipah virus – Cryo EM
    
  • 7oi3 - NP + RNA – Morbillivirus – Cryo EM
    
  • 7ewq - NP + RNA – Mumps virus – Cryo EM
    
  • 6m7d - NP + RNA – Sendai virus – Cryo EM
    
  • 6jc3 - NP + RNA – Avian orthoavulavirus – Cryo EM
    
  • 7ypw, 7yr8 - LcvNP + RNA – Cryo EM
    
  • 7f1m - LvmvNP + RNA – Cryo EM
    
  • 7yg7 - SvcNP + RNA – Cryo EM
    

• Nucleoprotein complex with antibody

• • 5uk4 - VvNP + nanobody + RNA
    
  • 5tjw - IvNP + nanobody
    
  • 6app, 4w2q, 4w2o - LvmvNP C-terminal + nanobody
    
  • 5w2b - NP + antibody – Reston Ebolavirus
    
  • 5vkd - NP C-terminal + antibody – Bundibugyo Ebolavirus
    
  • 6u55, 6u54, 6u52, 6u51 - NP C-terminal + antibody – Sudan Ebolavirus
    
  • 5uk4 - VvNP + nanobody + RNA
    

• Nucleoprotein other complexes

• • 3mx2, 3mx5 – LvNP + nucleotide
    
  • 7v38, 7v39 - LvNP + inhibitor
    
  • 7v3b, 7v3c - LvNP (mutant) + inhibitor
    
  • 2wyy – VvNP + poly U – Cryo EM
    
  • 3hhw, 3pmk – VvNP + phosphoprotein
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  • 4co6 - NvNP + phosphoprotein – Nipah virus
    
  • 8b8v - RvNP + phosphoprotein
    
  • 7ev8 - NP + phosphoprotein – Human respirovirus
    
  • 4ucc – RsvNP N terminal + inhibitor
    
  • 4ucb, 4uca – RsvNP N terminal + phosphoprotein
    
  • 4uc9, 4uc8 – RsvNP N terminal + phosphoprotein peptide
    
  • 3ro5, 4dya, 4dyb, 4dyn, 4dyp, 3tg6, 6j1u – IvNP + ligand
    
  • 6h9g - IvNP + peptide – Cryo EM
    
  • 4ypi - EvNP + peptide – Cryo EM
    
  • 6ehm - EvNP + VP24 – Cryo EM
    
  • 5vao, 5vap - EvNP VP30 C-terminal 139-267 + NP peptide
    
  • 6e5x - EvNP VP30 C-terminal + RBBP6 peptide
    
  • 5sxq, 5f5o - LvmvNP + VP35 peptide
    
  • 5ip3 - TsvNP + DNA
    
  • 5fvd - HmpvNP + phosphoprotein
    
  • 5wkn - PivNP + phosphoprotein
    
  • 6kl5, 6kl6, 6lnn, 6lz6, 6lz8, 7dyd – McvNP N terminal + inhibitor
    

• Nucleoprotein from SARS-Covid 2

• • 8fd5, 8fg2 - ScvNP 1-419 – SARS coronavirus 2 – Cryo EM
    
  • 6vyo, 6wkp, 6yi3, 7cdz, 4j3k, 5n4k, 2ofz, 2og3, 6m3m, 7cdz, 7uw3, 7vbd, 7vbf, 7vnu, 7xx1 - ScvNP N terminal 45-181
    
  • 1ssk, 7sd4 - ScvNP N terminal – NMR
    
  • 7acs, 7act - ScvNP N terminal + RNA - NMR
    
  • 7cr5, 7n3c, 7n3d, 7str, 7sts, 7sue - ScvNP N-terminal + antibody
    
  • 7n0r, 7r98 – ScvNP N-terminal + nanobody
    
  • 4kxj – ScvNP N terminal + PJ34
    
  • 4li4, 4lm7, 4lm9, 4lmc, 7o35, 7o36, 7xxk – ScvNP N terminal + nucleotide
    
  • 4lmt – ScvNP N terminal + quinoline derivative
    
  • 6wji, 6wzo, 6wzq, 6yun, 6zco, 7c22, 7ce0, 5epw, 2gib, 7c22, 7de1, 7f2b, 7f2e, 7o05, 7uxx, 7vbe, 7xwx - ScvNP C terminal dimerization domain 257-364
    
  • 2jw8 - ScvNP C terminal dimerization domain - NMR
    
  • 7n0i – ScvNP C-terminal + nanobody
    
  • 7uxz – ScvNP C-terminal + chicoric acid
    

• Ribonucleoprotein

• • 2lbw – yRNP subunit 2 residues 36-156 (mutant) – yeast – NMR
    
  • 2lbx - yRNP subunit 2 residues 36-156 – NMR
    
  • 4h5l, 4csg, 5fva – TvRNP – Toscana virus
    
  • 4csf – TvRNP + RNA
    
  • 8bpk – TvRNP + nanobody
    
  • 4uft – MevRNP + RNA
    

• Small nuclear ribonucleoprotein

• • 2a3j, 1fht - h-snRNP U1 A RRM – human - NMR
    
  • 7lhx - h-snRNP U1 A (mutant)
    
  • 2u1a - h-snRNP U1 A RRM (mutant) – NMR
    
  • 1dz5 - h-snRNP U1 A (mutant) – NMR
    
  • 1oia - h-snRNP U1 A RRM
    
  • 7aep - h-snRNP U1 A RRM2 190-282 – 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
    
  • 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, 6f4i - Dm-snRNP U1 A
    
  • 2b0g - Dm-snRNP U1 A RBD2 – NMR
    
  • 1n9r, 1n9s – y-snRNP F

• Small nuclear ribonucleoprotein binary complex

• • 4wzj – h-snRNP U4 core domain
    
  • 3p49 - h-snRNP A RRM + glycine riboswitch RNA
    
  • 3iwn, 7d7v - 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
    
  • 3bo2, 3bo3, 3bo4, 6sqn - h-snRNP U1 A RRM + RNA
    
  • 3k0j, 1drz, 1m5k, 1m5o, 1m5p, 1m5v, 1u6b, 3ucu, 3ucz, 3ud3, 3ud4 - h-snRNP U1 A (mutant) + RNA
    
  • 1aud - h-snRNP U1 A (mutant) + RNA - NMR
    
  • 6lau - h-snRNP U1 A (mutant) + RNA + SAH
    
  • 6lax, 6las, 6laz - h-snRNP U1 A (mutant) + RNA + SAM
    
  • 1sj3, 1sj4, 1sjf, 1vbx, 1vby, 1vbz, 1vc0, 1vc5, 1vc6, 4prf - h-snRNP U1 A (mutant) + Hepatitis ribozyme
    
  • 3r1h, 3r1l - h-snRNP U1 A (mutant) + ribozyme
    
  • 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
    
  • 2ozb, 3siu, 3siv - h-snRNP U4/U6 + NHP2-like protein + RNA
    
  • 7px3 - h-snRNP U5 + PRP8 + TSSC4 = Cryo EM
    
  • 2bn5 - Dm-snRNP U1 70kDa + PSI B box – NMR
    
  • 6f4h - Dm-snRNP U1 A + U1-SL2
    
  • 6f4j - Dm-snRNP U1 A RRM1 + Dm-snRNP U2 A’
    
  • 3plu, 3plv – y-snRNP HINDI domain + ubiquitin-like modifier HUB1
    
  • 5wxm - y-snRNP U3 IMP3 + y-snRNP-associated protein
    

• Small nuclear ribonucleoprotein in large complexes

• • 3cw1 - h-snRNP U1 in spliceosome
    
  • 5o9z, 5z58, 6ah0, 6ff7, 6icz, 6id0, 6id1, 7a5p, 7aav, 7abf, 7abg, 7abi, 7dvq, 7qtt, 7vpx, 7w5b, 8c6j, 8ch6, 8hk1 - h-snRNP in spliceosome – Cryo EM
    
  • 5xjq, 5xjr, 5xjs, 5xjt, 5xju, 5xjl - h-snRNP in SMN
    
  • 4m77, 4m78, 4m7a, 4m7d - h-snRNP in LSM8 assembly
    
  • 6v4x - h-snRNP in pre-mRNA 3’-end processing – Cryo EM
    
  • 7w59 - h-snRNP in pre-C*-I complex – Cryo EM
    
  • 7w5a - h-snRNP in pre-C*-II complex – Cryo EM
    
  • 7b0y - h-snRNP in RNA polymerase II-U1 complex – Cryo EM
    
  • 6y53, 6y5q, 7evo - h-snRNP in 17S U2 snRNP – Cryo EM
    
  • 4f7u - m-snRNP in 8S assembly
    
  • 5wsg, 5y88, 5ylz, 5zwn, 5zwo, 6bk8, 6exn, 6g90, 6j6g, 6j6h, 6j6n, 6j6q, 6n7p, 6n7r, 6n7x, 7b9v, 7dco, 7oqc, [[7oqe] - y-snRNP in spliceosome – Cryo EM
    

• Heterogenous nuclear ribonucleoprotein; Human domains – RRM1 10-93; RRM2 94-194; KH3 385-463; RRM3 654-729

• • 1ha1, 1l3k, 1up1 - h-hnRNP A1 RRM1-2
    
  • 7zj2 - h-hnRNP A1 1-320 – Cryo EM
    
  • 7bx7 - h-hnRNP A1 188-320 – Cryo EM
    
  • 2lyv - h-hnRNP A1 RRM 1-2 – NMR
    
  • 2up1 - h-hnRNP A1 RRM 1-2 + DNA
    
  • 3s7r - h-hnRNP A/B RRM2
    
  • 1x4b - h-hnRNP A2/B1 RRM1 – NMR
    
  • 1txp - h-hnRNP C oligomerization domain 180-207 (mutant) – NMR
    
  • 1wf2 - h-hnRNP C1/C2 RRM1 – NMR
    
  • 1hd0, 1hd1, 1iqt - h-hnRNP D0 RRM2 – NMR
    
  • 7zir - h-hnRNP DL – Cryo EM
    
  • 2hgl, 2hgm, 2hgn - h-hnRNP F QRRM1 – NMR
    
  • 1wg5, 1wez, 2lxu - h-hnRNP H RRM1 – NMR
    
  • 7zug - h-hnRNP H1 RRM2
    
  • 6dg1 - h-hnRNP H2 RRM2 – NMR
    
  • 6dhs - h-hnRNP H2 RRM1-2
    
  • 2ad9, 2adb, 2adc - h-hnRNP I – NMR
    
  • 1zzk - h-hnRNP K KH3 domain
    
  • 6kor - h-hnRNP Q RRM 242-428
    
  • 3r27, 3t08 - h-hnRNP L RRM
    
  • 2do0, 2dh9, 2dgv - h-hnRNP M RRM3 – NMR
    
  • 2dgu - h-hnRNP Q RRM3 – NMR
    
  • 2dk2 - h-hnRNP R RRM3 – NMR
    
  • 3s01 – m-hnRNP L RRM3 domain 376-428 – mouse
    
  • 3tyt - m-hnRNP L< RRM3br />
  • 2e5i - m-hnRNP L RRM2 200-316 – NMR
    
  • 2db1 - m-hnRNP F RRM1 1-105 – NMR
    

• Heterogenous nuclear ribonucleoprotein binary complex

• • 2kfy, 2kg0, 2kg1 - h-hnRNP F QRRM2 + DNA – NMR
    
  • 2z5n, 2z5o, 2ot8 - h-hnRNP D0 CTD 332-355 + transportin-1
    
  • 1u1k, 1u1l, 1u1m, 1u1n, 1u1o, 1u1p, 1u1q, 1u1r, 1up1 - h-hnRNP A1 RRM1-2 + DNA
    
  • 6dcl - h-hnRNP A1 RRM1-2+ RNA
    
  • 1pgz, 1po6 - h-hnRNP A1 RRM1-2+ DNA + inhibitor
    
  • 1wtb, 1x0f - h-hnRNP D0 CTD 181-259 + DNA – NMR
    
  • 8sgh - h-hnRNP H2 103-225 + transportin
    
  • 1zzi, 1zzj, 7cre, 7oqb - h-hnRNP K KH3 domain + DNA
    
  • 1j5k - h-hnRNP K KH3 domain + DNA – NMR
    
  • 7cru - h-hnRNP K + importin
    
  • 7evr, 7evs - h-hnRNP L RRM2+ SETD2
    

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