Eukaryotic initiation factor 3D structures

3D structures of eukaryotic initiation factor

Updated on 26-February-2023

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• EIF1
  • 2if1, 1d7q – hEIF1 – human – NMR
    
  • 3zjy – hEIF1A + importin 13 + RanGTP
    
  • 6ybw – hEIF1A in 48S ribosome – Cryo EM
    
  • 4kzx, 4kzy, 4kzz – rEIF1A in 40S ribosome – rabbit – cryo EM
    
  • 6yal, 6yan – rEIF1A+rEIF2A+EIF2C in 48S ribosome – Cryo EM
    
  • 2ogh - yEIF1 – yeast - NMR
    
  • 3j80, 3j81, 4uer – EIF1A in 40S ribosome – Kluyveromyces lactis – cryo EM
    
• EIF2
  • 1kl9, 1q8k – hEIF2A subunit α
    
  • 3ecs – hEIF2B subunit α
    
  • 7d46, 7l70 – hEIF2B subunits α,β,γ,δ,ε – Cryo EM
    
  • 6ezo – hEIF2B subunits α,β,γ,δ,ε + drug
    
  • 6o9z, 6o85, 6o81, 6k72, 6k71, 6i7t, 6k71, 6k72, 6o81, 6o85, 6o9z, 7d43, 7d44, 7d45 – hEIF2B subunits α,β,γ,δ,ε + hEIF2 subunits α,β,γ – Cryo EM
    
  • 7kmf – hEIF2B subunits α,β,γ,δ,ε + fructofuranose – Cryo EM
    
  • 7l7g – hEIF2B subunits α,β,γ,δ,ε + inhibitor – Cryo EM
    
  • 5oa9 – hEIF2D
    
  • 5w2f – hEIF2D C-terminal
    
  • 5oa3 – hEIF2D in 40S ribosome – Cryo EM
    
  • 1q46 – yEIF2A – yeast
    
  • 3wj9 - EIF2A – fission yeast
    
  • 2a19, 2a1a – yEIF2A (mutant) + interferon-induced protein kinase
    
  • 1paq – yEIF2B e subunit catalytic domain 524-712
    
  • 6i3m, 6qg0, 6qg1, 6qg2, 6qg3, 6qg5, 6qg6 – yEIF2B + yEIF2 – Cryo EM
    
  • 4zgq, 4zgn – yEIF2G residues 410-527 + CDC123
    
  • 3wj9 - fyEIF2A – fission yeast
    
  • 6jlz, 6jly - fyEIF2A + EIF2B
    
  • 6i5m – SsEIF2 subunit γ + GDP – Sulfolobus solfataricus
    
  • 6h6k, 6r8s, 6r8t – SsEIF2 subunit γ (mutant) + GDP
    
  • 2a0u – EIF2B – Leihmania major
    
• EIF2C or argonaute
  • 5w6v – hEI2C1 + RNA + GW182
    
  • 3luk – hEI2C2 mid domain 439-575
    
  • 3lud, 3lug, 3luh, 3luj, 3qx8, 3qx9 - hEIF2C mid domain + nucleotide
    
  • 5t7b, 5ki6, 4f3t – hEI2C2 + RNA
    
  • 6ra4 – hEI2C2 PAZ domain 214-347+ RNA
    
  • 4z4i, 4z4h, 4z4g, 4z4f, 4z4e, 4z4d, 4z4c, 4w5t, 4w5r, 4w5q, 4w5o, 4w5n, 4ola, 6cbd, 5wea, 5js2, 5js1, 4olb, 6n4o, 6mdz, 6mfn, 6mfr, 6n4o, 6nit – hEI2C2 (mutant) + RNA
    
  • 5vm9 – hEI2C3 + RNA
    
  • 6oon – hEI2C4 + RNA
    
• EIF3
  • 6ybd, 6ybs, 6zvj - hEIF3 in 40S ribosome – cryo EM
    
  • 3j8b, 3j8c - hEIF3A + hEIF3C + hEIF3E + hEIF3F + hEIF3H + hEIF3K + hEIF3L + hEIF3M – cryo EM
    
  • 6ybt - hEIF3A + hEIF3B + hEIF3I – cryo EM
    
  • 6ybv - hEIF3A + hEIF3B + hEIF3C + mRNA + initiator Met tRNA – cryo EM
    
  • 5a5t - rEIF3A + rEIF3C + rEIF3E + rEIF3F + rEIF3H + rEIF3K + rEIF3M – Cryo EM - rat
    
  • 6zce, 6zu9, 7a1g - yEIF3 in 40S ribosome – cryo EM
    
  • 4kxt, 4krf, 4kre, 1si2, 1si3 – hEI2C1 + RNA
    
  • 4k51, 4u1d - yEIF3A PCI domain
    
  • 4u1c - yEIF3A PCI + yEIF3C PCI
    
  • 2nlw - hEIF3B RNA recognition domain – NMR
    
  • 2krb - hEIF3B RNA recognition domain + hEIF3J peptide
    
  • 5k1h – hEIF3B + EIF3A C-terminal
    
  • 5a5u - rEIF3B + rEIF3I – Cryo EM
    
  • 3ns5, 3ns6 - yEIF3B RNA recognition domain
    
  • 4u1f - yEIF3B middle domain
    
  • 4u1e - yEIF3B CTD + yEIF3I + yEIF3G NTD
    
  • 4nox – CtEIF3B – Chaetomium thermophilum
    
  • 4nox – CtEIF3B – Chaetomium thermophilum
    
  • 5h7u - yEIF3C residues 36-163
    
  • 5krb, 5krc, 5krd, 5k4d, 5k4c, 5k4b – EIF3D – wasp
    
  • 2cq0 – hEIF3G RNA recognition domain – NMR
    
  • 2mjc - hEIF3G residues 153-176 – NMR
    
  • 5k0y - rEIF3G in ribosome – cryo EM
    
  • 3zwl - yEIF3I + EIF3B CTD
    
  • 3bpj – hEIF3J
    
  • 1rz4 – hEIF3K
    
• EIF4
  • 2g9n, 3bor – hEIF4A DEAD domain
    
  • 2hxy – hEIF4A-III
    
  • 1fuk – yEIF4A CTD
    
  • 1fuu - yEIF4A mRNA helicase domain
    
  • 1wi8, 2j76 – hEIF4B RNA recognition domain - NMR
    
  • 2gpq, 3tf2 – hEIF4E
    
  • 5gw6 – hEIF4E (mutant)
    
  • 2wmc - EIF4E - pea
    
  • 5me7 - mmEIF4E - muskmelon
    
  • 2idr – wEIF4E – wheat
    
  • 1ug3 – hEIF4GI CTD (mutant)
    
  • 3l6a - hEIF4GII CTD
    
  • 1hu3, 3d3m, 4iul – hEIF4GII middle domain
    
  • 6ozu – EIF4G5 MIF4G domain – Trypanosoma cruzi
    
  • 2dng – hEIF4H RNA recognition domain – NMR
    
• EIF4 complexes with protein
  • 3ex7, 2xb2 – hEIF4A + MAGO homolog + RNA-binding protein 8A + CASC3 + RNA
    
  • 2zu6, 3eiq – hEIF4A + programmed cell death protein
    
  • 4c9b - hEIF4A + CWC22
    
  • 5zbz - hEIF4A-I DEAD domain + sanguinarine
    
  • 7ppz, 7pq0 - hEIF4A-I + Burkholderia lethal factor
    
  • 5xln - hEIF4A-II + ThrRS
    
  • 6yvh - hEIF4A-III + CWC22 + CWC27
    
  • 5mqf, 5xjc, 5yzg, 6icz, 7w59, 7w5a, 7w5b - hEIF4A in splicesome – Cryo EM
    
  • 5t46 - hEIF4E + EIF4GI
    
  • 5nvn - hEIF4E + EIF4E-binding protein
    
  • 5nvm, 5nvl, 5nvk - hEIF4E + GRB10-interacting GYF protein
    
  • 5ehc, 5ei3, 5eir - hEIF4E + EIF4GI + inhibitor
    
  • 7ddx - mEIF4A-I + KANK1 - mouse
    
  • 2vso, 2vsx - yEIF4E + yEIF4F
    
  • 6fc3 - yEIF4E + p20
    
  • 6fc2, 6fc1 - yEIF4E + EAP1
    
  • 4axg - DmEIF4E + protein CUP – Drosophila melanogaster
    
  • 4ue8, 4uea, 4ueb, 4ued, 5abu, 5abv - DmEIF4E + 4E-binding protein
    
  • 4ue9 - DmEIF4E + 4E transporter
    
  • 4uec, 5t47, 5t48 - DmEIF4E + DmEIF4G
    
  • 5me5 - mmEIF4E + EIF4GI
    
  • 6fc0, 6fbz - CtEIF4G + EIF4E-like
    
• EIF4 complexes with other molecules
  • 5zc9 - hEIF4A-I + RNA + ATP analog + drug
    
  • 6icz, 6qdv, 7a5p - hEIF4A-III in spliceosome – Cryo EM
    
  • 5ekv - hEIF4E + 4E-BP1 peptide + inhibitor
    
  • 2jgb - hEIF4E + nucleotide + 4E-BP1 peptide
    
  • 4tpw, 4tqb, 4tqc - hEIF4E + nucleotide + inhibitor
    
  • 4bea, 5zml, 5zk9, 5zk7, 5zk5, 5zjz, 5zjy - hEIF4E + stapled peptide
    
  • 1ej1, 1l8b, 4b6u, 4b6v - mEIF4E + nucleotide
    
  • 6u06, 6u09 - mEIF4E + inhibitor
    
  • 6xki - mEIF4E + RNA + pateamine
    
  • 1ipb, 1ipc - hEIF4E + nucleotide
    
  • 4dt6, 4dum – hEIF4E + inhibitor
    
  • 2w97, 4aza – hEIF4E + hEIF4G peptide
    
  • 2v8w, 2v8x, 2v8y, 3u7x, 2jgc - hEIF4E + EIF4E-BP1 peptide
    
  • 3am7, 1wkw - hEIF4E + EIF4E-BP1 peptide + nucleotide
    
  • 1ej4 - mEIF4E + EIF4E-BP1 peptide
    
  • 5osx, 5m84, 5m83, 5m81, 5m80, 5m7z, 5m7x, 5m7w, 5m7v, 5j5y, 5j5o, 6ylt, 6ylv - mEIF4E + mRNA cap analog
    
  • 6ylr - mEIF4E (mutant) + mRNA cap analog
    
  • 5bxv, 1ejh - mEIF4E + nucleotide + 4E-BP1 peptide
    
  • 2idv - wEIF4E (mutant) + GDP
    
  • 3hxg, 3hxi - EIF4E + EIF4E-BP1 peptide + GDP – Schistosoma mansoni
    
  • 3m93, 3m94 - EIF4E + EIF4E-BP1 peptide + nucleotide – Pig roundworm
    
  • 5abx, 5aby - EIF4E + EIF4E-BP1 peptide + nucleotide – roundworm
    
  • 1ap8 – yEIF4E + GDP – NMR
    
  • 1rf8 - yEIF4E + yEIF4GI peptide + GDP
    
  • 4ue8, 4uea, 4ueb, 4ued, 5abu, 5abv - DmEIF4E + 4E-BP1
    
  • 5me6 - mmEIF4E + GDP derivative
    
• EIF5
  • 3cpf - hEIF
    
  • 2iu1 - hEIF5 CTD
    
  • 2g2k – hEIF5 NTD (mutant) – NMR
    
  • 2e9h – hEIF5 – NMR
    
  • 3cpf – hEIF5A
    
  • 5dlq – hEIF5A + exportin 4 + GTPase RAN + GTP
    
  • 2ful – yEIF5 CTD
    
  • 3er0 - yEIF5A
    
  • 6q84 – yEIF5A + importin + RANGTP
    
  • 5hy6 – EIF5A – armyworm
    
  • 1eif, 2eif – EIF5A – Methanocaldococcus janaschii
    
  • 1x6o – EIF5A – Leishmania braziliensis
    
  • 1xtd - EIF5A – Leishmania mexicana
    
  • 3hks – EIF5A – Arabidopsis thaliana
    
  • 6knd, 6kne – EIF5 CTD – Candida albicans
    
  • 6q84 – yEIF5A + importin Kap122 + GTPase RAN + GTP
    
  • 3wbi, 3wbj, 4n3s – yEIF5B
    
  • 3wbk – yEIF5B + yEIF1A
    
  • 4ncf – yEIF5B + nucleotide
    
  • 4tmt, 4tmv, 4tmw, 4tmx, 4tmz, 4tn1 – CtEIF5B (mutant) + nucleotide
    
• EIF6
  • 6lqm, 6lsr, 6lss, 6lu8 – hEIF6 in pre-60S ribosome – cryo EM
    
  • 1g62 – yEIF6
    
  • 2x7n – yEIF6S + sarcin-ricin loop + ribosomal protein L23 + ribosomal protein L24
    
  • 3j2i – yEIF6 + proliferation-associated protein 2G4 – cryo EM
    
  • 5m3q – CtEIF6
    
  • 5anb, 5an9, 6qkl – EIF6 in 60S ribosome – slime mold – cryo EM
    
  • 6em5, 6em4, 6c0f, 5z3g – yEIF6 in 60S ribosome – cryo EM
    

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Michal Harel, Joel L. Sussman