7OYD image
Deposition Date 2021-06-24
Release Date 2022-07-20
Last Version Date 2024-04-24
Entry Detail
PDB ID:
7OYD
Keywords:
RIBOSOME
Title:
Cryo-EM structure of a rabbit 80S ribosome with zebrafish Dap1b
Biological Source:
Source Organism:
Danio rerio (Taxon ID: 7955)
Oryctolagus cuniculus (Taxon ID: 9986)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.30 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
7OYD validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:28S rRNA
Chain IDs:B (auth: 5)
Chain Length:3740
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Molecule:5.8S rRNA
Chain IDs:C (auth: 8)
Chain Length:156
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:D (auth: 9)
Chain Length:1786
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L8
Chain IDs:E (auth: A)
Chain Length:257
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein SA
Gene (Uniprot):RPSA
Chain IDs:F (auth: AA)
Chain Length:295
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TLT8 Pfam ID:PF00318, PF16122
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S26-like
Chain IDs:G (auth: Aa)
Chain Length:295
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L3
Gene (Uniprot):RPL3
Chain IDs:H (auth: B)
Chain Length:245
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TL06 Pfam ID:PF00297
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S3a
Gene (Uniprot):RPS3A
Chain IDs:I (auth: BB)
Chain Length:84
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SS70 Pfam ID:PF01015
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S27
Gene (Uniprot):RPS27
Chain IDs:J (auth: Bb)
Chain Length:84
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TZ76 Pfam ID:PF01667
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L4
Gene (Uniprot):RPL4
Chain IDs:K (auth: C)
Chain Length:115
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SVW5 Pfam ID:PF00573, PF14374
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S2
Chain IDs:L (auth: CC)
Chain Length:293
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S28
Gene (Uniprot):RPS28
Chain IDs:M (auth: Cc)
Chain Length:293
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TIB4 Pfam ID:PF01200
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L5
Chain IDs:N (auth: D)
Chain Length:125
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:P19949
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S3
Gene (Uniprot):RPS3
Chain IDs:O (auth: DD)
Chain Length:56
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TNM3 Pfam ID:PF07650, PF00189
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S29
Gene (Uniprot):RPS29
Chain IDs:P (auth: Dd)
Chain Length:56
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1U7M4 Pfam ID:PF00253
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L6
Gene (Uniprot):RPL6
Chain IDs:Q (auth: E)
Chain Length:291
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SKF7 Pfam ID:PF03868, PF01159
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4
Gene (Uniprot):RPS4X
Chain IDs:R (auth: EE)
Chain Length:263
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TK17 Pfam ID:PF08071, PF00900, PF00467, PF16121
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30
Gene (Uniprot):FAU
Chain IDs:S (auth: Ee)
Chain Length:263
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1T8A2 Pfam ID:PF00240, PF04758
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7
Gene (Uniprot):RPL7
Chain IDs:T (auth: F)
Chain Length:249
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SV32 Pfam ID:PF08079, PF00327
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S5
Gene (Uniprot):RPS5
Chain IDs:U (auth: FF)
Chain Length:204
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TFM5 Pfam ID:PF00177
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7a
Chain IDs:V (auth: G)
Chain Length:266
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6
Gene (Uniprot):RPS6
Chain IDs:W (auth: GG)
Chain Length:317
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TM55 Pfam ID:PF01092
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RACK1
Gene (Uniprot):RACK1
Chain IDs:X (auth: Gg)
Chain Length:317
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SJB4 Pfam ID:PF00400
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L9
Gene (Uniprot):RPL9
Chain IDs:Y (auth: H)
Chain Length:123
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SWI6 Pfam ID:PF00347
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7
Gene (Uniprot):RPS7
Chain IDs:Z (auth: HH)
Chain Length:432
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SVB0
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10
Gene (Uniprot):RPL10
Chain IDs:AA (auth: I)
Chain Length:214
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:B7NZQ2 Pfam ID:PF00252
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8
Gene (Uniprot):RPS8
Chain IDs:BA (auth: II)
Chain Length:208
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TJW1 Pfam ID:PF01201
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L11
Gene (Uniprot):RPL11
Chain IDs:CA (auth: J)
Chain Length:178
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TUB8 Pfam ID:PF00281, PF00673
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S9
Gene (Uniprot):RPS9
Chain IDs:DA (auth: JJ)
Chain Length:194
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:B7NZS8 Pfam ID:PF00163, PF01479
Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:EA (auth: K)
Chain Length:120
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:S10_plectin domain-containing protein
Chain IDs:FA (auth: KK)
Chain Length:165
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TPV3 Pfam ID:PF03501
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13
Gene (Uniprot):RPL13
Chain IDs:GA (auth: L)
Chain Length:51
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TKB3 Pfam ID:PF01294
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S11
Gene (Uniprot):RPS11
Chain IDs:HA (auth: LL)
Chain Length:158
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TRM4 Pfam ID:PF16205, PF00366
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L14
Chain IDs:IA (auth: M)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SZ12 Pfam ID:PF01929
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L15
Gene (Uniprot):RPL15
Chain IDs:JA (auth: N)
Chain Length:25
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1T0C1 Pfam ID:PF00827
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S13
Gene (Uniprot):RPS13
Chain IDs:KA (auth: NN)
Chain Length:151
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SP51 Pfam ID:PF08069, PF00312
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13a
Chain IDs:LA (auth: O)
Chain Length:203
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S14-like
Chain IDs:MA (auth: OO)
Chain Length:151
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L17
Gene (Uniprot):RPL17
Chain IDs:NA (auth: P)
Chain Length:187
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SCJ6 Pfam ID:PF00237
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein uS19
Gene (Uniprot):RPS15
Chain IDs:OA (auth: PP)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1U0Q2 Pfam ID:PF00203
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L18
Chain IDs:PA (auth: Q)
Chain Length:188
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S16
Gene (Uniprot):RPS16
Chain IDs:QA (auth: QQ)
Chain Length:146
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SGX4 Pfam ID:PF00380
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L19
Gene (Uniprot):RPL19
Chain IDs:RA (auth: R)
Chain Length:196
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TYL6 Pfam ID:PF01280
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein eS17
Gene (Uniprot):RPS17
Chain IDs:SA (auth: RR)
Chain Length:135
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TU13 Pfam ID:PF00833
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18a
Chain IDs:TA (auth: S)
Chain Length:224
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein uS13
Gene (Uniprot):RPS18
Chain IDs:UA (auth: SS)
Chain Length:152
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TPG3 Pfam ID:PF00416
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L21
Gene (Uniprot):RPL21
Chain IDs:VA (auth: T)
Chain Length:160
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SHQ2 Pfam ID:PF01157
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S19
Gene (Uniprot):RPS19
Chain IDs:WA (auth: TT)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TN62 Pfam ID:PF01090
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L22-like
Chain IDs:XA (auth: U)
Chain Length:141
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein uS10
Gene (Uniprot):RPS20
Chain IDs:YA (auth: UU)
Chain Length:119
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SIZ2 Pfam ID:PF00338
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L23
Gene (Uniprot):RPL23
Chain IDs:ZA (auth: V)
Chain Length:858
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1T6D1 Pfam ID:PF00238
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S21
Chain IDs:AB (auth: VV)
Chain Length:83
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L24
Gene (Uniprot):RPL24
Chain IDs:BB (auth: W)
Chain Length:407
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SE28 Pfam ID:PF01246
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S15a
Gene (Uniprot):RPS15A
Chain IDs:CB (auth: WW)
Chain Length:130
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TG89 Pfam ID:PF00410
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L23a
Chain IDs:DB (auth: X)
Chain Length:217
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S23
Gene (Uniprot):RPS23
Chain IDs:EB (auth: XX)
Chain Length:143
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SZ47 Pfam ID:PF00164
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L26
Gene (Uniprot):RPL26
Chain IDs:FB (auth: Y)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SQH0 Pfam ID:PF16906, PF00467
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24
Gene (Uniprot):RPS24
Chain IDs:GB (auth: YY)
Chain Length:133
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:A0A5F9D2E6 Pfam ID:PF01282
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27
Gene (Uniprot):RPL27
Chain IDs:HB (auth: Z)
Chain Length:136
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TXF6 Pfam ID:PF00467, PF01777
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S25
Gene (Uniprot):RPS25
Chain IDs:IB (auth: ZZ)
Chain Length:124
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TDB3 Pfam ID:PF03297
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27a
Gene (Uniprot):RPL27A
Chain IDs:JB (auth: a)
Chain Length:257
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SNY0 Pfam ID:PF00828
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L29
Gene (Uniprot):RPL29
Chain IDs:KB (auth: b)
Chain Length:245
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SGR6 Pfam ID:PF01779
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L30
Gene (Uniprot):RPL30
Chain IDs:LB (auth: c)
Chain Length:115
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TDL2 Pfam ID:PF01248
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L31
Gene (Uniprot):RPL31
Chain IDs:MB (auth: d)
Chain Length:125
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SHG0 Pfam ID:PF01198
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L32
Gene (Uniprot):RPL32
Chain IDs:NB (auth: e)
Chain Length:291
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TUN8 Pfam ID:PF01655
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35a
Gene (Uniprot):RPL35A
Chain IDs:OB (auth: f)
Chain Length:249
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SF08 Pfam ID:PF01247
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L34
Gene (Uniprot):RPL34
Chain IDs:PB (auth: g)
Chain Length:266
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TXG5 Pfam ID:PF01199
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35
Gene (Uniprot):RPL35
Chain IDs:QB (auth: h)
Chain Length:123
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SIT5 Pfam ID:PF00831
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L36
Gene (Uniprot):RPL36
Chain IDs:RB (auth: i)
Chain Length:214
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TTQ5 Pfam ID:PF01158
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L37
Gene (Uniprot):RPL37
Chain IDs:SB (auth: j)
Chain Length:178
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:U3KPD5 Pfam ID:PF01907
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L38
Gene (Uniprot):RPL38
Chain IDs:TB (auth: k)
Chain Length:120
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1U001 Pfam ID:PF01781
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L39-like
Gene (Uniprot):LOC100343258
Chain IDs:UB (auth: l)
Chain Length:51
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1TTN1 Pfam ID:PF00832
Polymer Type:polypeptide(L)
Molecule:Ubiquitin-60S ribosomal protein L40
Chain IDs:VB (auth: m)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60s ribosomal protein l41
Gene (Uniprot):RPL41
Chain IDs:WB (auth: n)
Chain Length:25
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:A0A087WNH4 Pfam ID:PF05162
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L36a-like
Chain IDs:XB (auth: o)
Chain Length:203
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1T040 Pfam ID:PF00935
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L37a
Gene (Uniprot):RPL37A
Chain IDs:YB (auth: p)
Chain Length:187
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SY53 Pfam ID:PF01780
Protein Blast
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L28
Gene (Uniprot):RPL28
Chain IDs:ZB (auth: r)
Chain Length:196
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1U7L1 Pfam ID:PF01778
Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L10E
Chain IDs:AC (auth: s)
Chain Length:224
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dap1b
Gene (Uniprot):dap1b
Chain IDs:BC (auth: s1)
Chain Length:109
Number of Molecules:1
Biological Source:Danio rerio
UniProt ID:Q9I9N0 Pfam ID:PF15228
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Eukaryotic translation initiation factor 5A-1
Gene (Uniprot):EIF5A
Chain IDs:CC (auth: t)
Chain Length:160
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:P10160 Pfam ID:PF21485, PF01287
Polymer Type:polypeptide(L)
Molecule:Elongation factor 2
Chain IDs:DC (auth: v)
Chain Length:858
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Protein Blast
Polymer Type:polypeptide(L)
Molecule:SERPINE1 mRNA binding protein 1
Gene (Uniprot):SERBP1
Chain IDs:EC (auth: w)
Chain Length:407
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SW77 Pfam ID:PF16174, PF04774
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uL1
Gene (Uniprot):RPL10A
Chain IDs:A (auth: x)
Chain Length:217
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
UniProt ID:G1SKZ8 Pfam ID:PF00687
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
5CT CC LYS modified residue
MLZ K LYS modified residue
OMU C U modified residue
Ligand Molecules
MG
ZN
Primary Citation
A molecular network of conserved factors keeps ribosomes dormant in the egg.
Nature 613 712 720 (2023)
PMID: 36653451 DOI: 10.1038/s41586-022-05623-y

Abstact

Ribosomes are produced in large quantities during oogenesis and are stored in the egg. However, the egg and early embryo are translationally repressed1-4. Here, using mass spectrometry and cryo-electron microscopy analyses of ribosomes isolated from zebrafish (Danio rerio) and Xenopus laevis eggs and embryos, we provide molecular evidence that ribosomes transition from a dormant state to an active state during the first hours of embryogenesis. Dormant ribosomes are associated with four conserved factors that form two modules, consisting of Habp4-eEF2 and death associated protein 1b (Dap1b) or Dap in complex with eIF5a. Both modules occupy functionally important sites and act together to stabilize ribosomes and repress translation. Dap1b (also known as Dapl1 in mammals) is a newly discovered translational inhibitor that stably inserts into the polypeptide exit tunnel. Addition of recombinant zebrafish Dap1b protein is sufficient to block translation and reconstitute the dormant egg ribosome state in a mammalian translation extract in vitro. Thus, a developmentally programmed, conserved ribosome state has a key role in ribosome storage and translational repression in the egg.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
7OYD