9EHO image
Deposition Date 2024-11-24
Release Date 2026-07-22
Last Version Date 2026-08-26
Entry Detail
PDB ID:
9EHO
Keywords:
RIBOSOME
Title:
Octopus ribosome, hybrid 80S
Biological Source:
Source Organism(s):
Octopus (Taxon ID: 6643)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.10 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9EHO validation report missing
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:RNA (5'-R(P*AP*CP*CP*AP*AP*AP
Chain IDs:BC (auth: 1)
Chain Length:10
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polyribonucleotide
Molecule:tRNA
Chain IDs:ZB (auth: 2)
Chain Length:76
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polyribonucleotide
Molecule:tRNA
Chain IDs:AC (auth: 3)
Chain Length:76
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polyribonucleotide
Molecule:28S rRNA
Chain IDs:A (auth: 5)
Chain Length:5185
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:B (auth: 7)
Chain Length:119
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polyribonucleotide
Molecule:5.8S rRNA
Chain IDs:C (auth: 8)
Chain Length:161
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:D (auth: A)
Chain Length:259
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:TA (auth: AA)
Chain Length:2985
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L3
Chain IDs:E (auth: B)
Chain Length:402
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:WA (auth: BB)
Chain Length:300
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:Q (auth: C)
Chain Length:488
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:YA (auth: CC)
Chain Length:264
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:R (auth: D)
Chain Length:296
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:AB (auth: DD)
Chain Length:277
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:S (auth: E)
Chain Length:277
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S3
Gene (Uniprot):LOC115218373
Chain IDs:CB (auth: EE)
Chain Length:241
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A7E6FAP0 Pfam ID:PF07650, PF00189
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7 isof
Gene (Uniprot):LOC115215615
Chain IDs:T (auth: F)
Chain Length:343
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SRC5 Pfam ID:PF08079, PF00327
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4
Gene (Uniprot):LOC115225830
Chain IDs:DB (auth: FF)
Chain Length:263
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7TL90 Pfam ID:PF08071, PF01479, PF00900, PF00467, PF16121
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7a
Gene (Uniprot):LOC115223558
Chain IDs:U (auth: G)
Chain Length:265
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7TFK4 Pfam ID:PF01248
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal S5
Gene (Uniprot):OCTVUL_1B018084
Chain IDs:FB (auth: GG)
Chain Length:204
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0AA36AJI8
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:V (auth: H)
Chain Length:187
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:GB (auth: HH)
Chain Length:808
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:F (auth: I)
Chain Length:219
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7
Gene (Uniprot):OCTVUL_1B022394
Chain IDs:IB (auth: II)
Chain Length:193
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0AA36BFQ8
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L11
Gene (Uniprot):LOC115210387
Chain IDs:W (auth: J)
Chain Length:180
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7S926 Pfam ID:PF00281, PF00673
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8
Gene (Uniprot):LOC115210290
Chain IDs:JB (auth: JJ)
Chain Length:208
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7S8V1 Pfam ID:PF01201
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):OCTVUL_1B010426
Chain IDs:KB (auth: KK)
Chain Length:191
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0AA36EZW4
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:X (auth: L)
Chain Length:211
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Plectin/eS10 N-terminal domai
Chain IDs:LB (auth: LL)
Chain Length:156
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:Y (auth: M)
Chain Length:153
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S11
Gene (Uniprot):OCTVUL_1B022028
Chain IDs:MB (auth: MM)
Chain Length:157
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0AA36BFS1
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L15
Chain IDs:Z (auth: N)
Chain Length:204
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:AA (auth: O)
Chain Length:203
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:NB (auth: OO)
Chain Length:151
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:G (auth: P)
Chain Length:186
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S14a
Gene (Uniprot):OCTVUL_1B015953
Chain IDs:OB (auth: PP)
Chain Length:151
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0AA36AUI4
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:H (auth: Q)
Chain Length:187
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:PB (auth: QQ)
Chain Length:152
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L19
Gene (Uniprot):LOC115211072
Chain IDs:BA (auth: R)
Chain Length:196
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SCW8 Pfam ID:PF01280, PF25476
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S16
Gene (Uniprot):LOC115214215
Chain IDs:QB (auth: RR)
Chain Length:148
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SLL6 Pfam ID:PF00380
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18a
Gene (Uniprot):LOC115210687
Chain IDs:CA (auth: S)
Chain Length:176
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SAY7 Pfam ID:PF01775
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):LOC115218007
Chain IDs:RB (auth: SS)
Chain Length:136
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7T0R9 Pfam ID:PF00833
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L21
Chain IDs:DA (auth: T)
Chain Length:160
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):LOC115212849
Chain IDs:SB (auth: TT)
Chain Length:152
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SHR0 Pfam ID:PF00416
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):LOC115222477
Chain IDs:EA (auth: U)
Chain Length:136
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7TBZ9 Pfam ID:PF01776
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S19
Chain IDs:TB (auth: UU)
Chain Length:157
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):LOC115212976
Chain IDs:I (auth: V)
Chain Length:140
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SHL5 Pfam ID:PF00238
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:UB (auth: VV)
Chain Length:120
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):LOC115220399
Chain IDs:FA (auth: W)
Chain Length:158
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7T9B6 Pfam ID:PF01246
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S21
Gene (Uniprot):LOC115216701
Chain IDs:VB (auth: WW)
Chain Length:83
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SVZ2 Pfam ID:PF01249
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:GA (auth: X)
Chain Length:201
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S15a
Gene (Uniprot):LOC115212959
Chain IDs:WB (auth: XX)
Chain Length:130
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SI58 Pfam ID:PF00410
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:HA (auth: Y)
Chain Length:143
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):LOC115217538
Chain IDs:XB (auth: YY)
Chain Length:143
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SY84 Pfam ID:PF00164
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:IA (auth: Z)
Chain Length:136
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24
Gene (Uniprot):LOC115212095
Chain IDs:YB (auth: ZZ)
Chain Length:133
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SEH2 Pfam ID:PF01282
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:J (auth: a)
Chain Length:149
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S25
Gene (Uniprot):LOC115211824
Chain IDs:UA (auth: aa)
Chain Length:118
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SED9 Pfam ID:PF03297
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L29
Chain IDs:JA (auth: b)
Chain Length:91
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S26
Chain IDs:VA (auth: bb)
Chain Length:118
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):LOC115215779
Chain IDs:KA (auth: c)
Chain Length:116
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SRS2 Pfam ID:PF01248
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S27
Chain IDs:ZA (auth: cc)
Chain Length:84
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:LA (auth: d)
Chain Length:121
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:BB (auth: dd)
Chain Length:67
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L32
Gene (Uniprot):LOC115220417
Chain IDs:K (auth: e)
Chain Length:133
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7T6K0 Pfam ID:PF01655
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:XA (auth: ee)
Chain Length:56
Number of Molecules:1
Biological Source:Octopus
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):OCTVUL_1B024665
Chain IDs:MA (auth: f)
Chain Length:132
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0AA36B3M9
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:eS30
Gene (Uniprot):LOC115210796
Chain IDs:EB (auth: ff)
Chain Length:176
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SBH5 Pfam ID:PF00240, PF04758
Structures with similar UniProt ID
Structural Superimposition Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):LOC115211667
Chain IDs:L (auth: g)
Chain Length:113
Number of Molecules:1
Biological Source:Octopus
UniProt ID:A0A6P7SDP0 Pfam ID:PF01199
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35
Chain IDs:NA (auth: h)
Chain Length:123
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Chain IDs:HB (auth: hh)
Chain Length:317
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:OA (auth: i)
Chain Length:114
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L37
Chain IDs:M (auth: j)
Chain Length:101
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:eL38
Chain IDs:PA (auth: k)
Chain Length:103
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:QA (auth: l)
Chain Length:51
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Ubiquitin-ribosomal protein e
Chain IDs:N (auth: m)
Chain Length:128
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:eS32
Chain IDs:SA (auth: n)
Chain Length:25
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:O (auth: o)
Chain Length:106
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:P (auth: p)
Chain Length:92
Number of Molecules:1
Biological Source:Octopus
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Chain IDs:RA (auth: r)
Chain Length:134
Number of Molecules:1
Biological Source:Octopus
Ligand Molecules
MG
SPD
ZN
Primary Citation
Evolution of a core ribosomal innovation in octopus.
Curr.Biol. 36 4059 4068.e9 (2026)
PMID: 42526433 DOI: 10.1016/j.cub.2026.07.008

Abstact

Much of biology focuses on how genetic changes mediate new functions, but less attention is given to adaptations within the ancient molecular machines that execute the central dogma. Octopuses exhibit complex nervous systems and sophisticated behaviors that rival vertebrates but via an entirely divergent evolutionary history. Here, we serendipitously discovered that octopus ribosomes contain a structural break in the core ribosomal RNA that is unique among all animals. This break site enhances translation fidelity to reduce miscoding and subsequent protein aggregation, even when engineered into evolutionarily distant bacterial ribosomes. Furthermore, high-fidelity translation by octopus ribosomes supports proteomic stability during extensive RNA editing observed in cephalopods, suggesting synergy between distinct non-canonical modes of gene regulation. This adaptation emerged in recently derived octopuses with expanded nervous systems, thereby revealing a mechanism that could broadly support the evolution of novel organismal traits.

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Primary Citation of related structures
9EHO
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