8P60 image
Entry Detail
PDB ID:
8P60
EMDB ID:
Keywords:
Title:
Spraguea lophii ribosome dimer
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2023-05-24
Release Date:
2023-06-21
Method Details:
Experimental Method:
Resolution:
14.30 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SUBTOMOGRAM AVERAGING
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:RNA 28S
Chain IDs:A (auth: L50), WB (auth: K50)
Chain Length:2618
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polyribonucleotide
Description:RNA 5S
Chain IDs:B (auth: L70), XB (auth: K70)
Chain Length:119
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L8
Chain IDs:C (auth: LA0), YB (auth: KA0)
Chain Length:246
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein L18e/L15P
Chain IDs:D (auth: LAA), ZB (auth: KAA)
Chain Length:147
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L3
Chain IDs:E (auth: LB0), AC (auth: KB0)
Chain Length:392
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L4
Chain IDs:F (auth: LC0), BC (auth: KC0)
Chain Length:328
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L3
Chain IDs:G (auth: LCC), CC (auth: KCC)
Chain Length:110
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L5
Chain IDs:H (auth: LD0), DC (auth: KD0)
Chain Length:291
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L31
Chain IDs:I (auth: LDD), EC (auth: KDD)
Chain Length:110
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L6
Chain IDs:J (auth: LE0), FC (auth: KE0)
Chain Length:171
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L32
Chain IDs:K (auth: LEE), GC (auth: KEE)
Chain Length:139
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L7
Chain IDs:L (auth: LF0), HC (auth: KF0)
Chain Length:235
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L35a
Chain IDs:M (auth: LFF), IC (auth: KFF)
Chain Length:111
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L8
Chain IDs:N (auth: LG0), JC (auth: KG0)
Chain Length:206
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein L34
Chain IDs:O (auth: LGG), KC (auth: KGG)
Chain Length:106
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L9
Chain IDs:P (auth: LH0), LC (auth: KH0)
Chain Length:187
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal L29 protein
Chain IDs:Q (auth: LHH), MC (auth: KHH)
Chain Length:119
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:S60 ribosomal protein L10
Chain IDs:R (auth: LI0), NC (auth: KI0)
Chain Length:218
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L36
Chain IDs:S (auth: LII), OC (auth: KII)
Chain Length:98
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L11
Chain IDs:T (auth: LJ0), PC (auth: KJ0)
Chain Length:171
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L37
Chain IDs:U (auth: LJJ), QC (auth: KJJ)
Chain Length:92
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L13
Chain IDs:V (auth: LL0), RC (auth: KL0)
Chain Length:165
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L39
Chain IDs:W (auth: LLL), SC (auth: KLL)
Chain Length:52
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Transposase
Chain IDs:X (auth: LM0), TC (auth: KM0)
Chain Length:115
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ubiquitin
Chain IDs:Y (auth: LMM), UC (auth: KMM)
Chain Length:127
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein L15
Chain IDs:Z (auth: LN0), VC (auth: KN0)
Chain Length:204
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein L13A
Chain IDs:AA (auth: LO0), WC (auth: KO0)
Chain Length:198
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L44
Chain IDs:BA (auth: LOO), XC (auth: KOO)
Chain Length:104
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L17
Chain IDs:CA (auth: LP0), YC (auth: KP0)
Chain Length:167
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L37a
Chain IDs:DA (auth: LPP), ZC (auth: KPP)
Chain Length:89
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L18
Chain IDs:EA (auth: LQ0), AD (auth: KQ0)
Chain Length:183
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L19
Chain IDs:FA (auth: LR0), BD (auth: KR0)
Chain Length:168
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L20
Chain IDs:GA (auth: LS0), CD (auth: KS0)
Chain Length:171
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60s ribosomal protein L21
Chain IDs:HA (auth: LT0), DD (auth: KT0)
Chain Length:158
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L22
Chain IDs:IA (auth: LU0), ED (auth: KU0)
Chain Length:113
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein L23
Chain IDs:JA (auth: LV0), FD (auth: KV0)
Chain Length:142
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein L24E
Chain IDs:KA (auth: LW0), GD (auth: KW0)
Chain Length:131
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L23a
Chain IDs:LA (auth: LX0), HD (auth: KX0)
Chain Length:113
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L26
Chain IDs:MA (auth: LY0), ID (auth: KY0)
Chain Length:131
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L27
Chain IDs:NA (auth: LZ0), JD (auth: KZ0)
Chain Length:153
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:DNL-type domain-containing protein
Chain IDs:OA (auth: MD1), KD (auth: MD2)
Chain Length:151
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polyribonucleotide
Description:RNA 16S
Chain IDs:PA (auth: S60), LD (auth: R60)
Chain Length:1368
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S0
Chain IDs:QA (auth: SA0), MD (auth: RA0)
Chain Length:233
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S26
Chain IDs:RA (auth: SAA), ND (auth: RAA)
Chain Length:102
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S1
Chain IDs:SA (auth: SB0), OD (auth: RB0)
Chain Length:230
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S27
Chain IDs:TA (auth: SBB), PD (auth: RBB)
Chain Length:82
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S2
Chain IDs:UA (auth: SC0), QD (auth: RC0)
Chain Length:248
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S28
Chain IDs:VA (auth: SCC), RD (auth: RCC)
Chain Length:65
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S3
Chain IDs:WA (auth: SD0), SD (auth: RD0)
Chain Length:242
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S29
Chain IDs:XA (auth: SDD), TD (auth: RDD)
Chain Length:65
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S4
Chain IDs:YA (auth: SE0), UD (auth: RE0)
Chain Length:280
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S30
Chain IDs:ZA (auth: SEE), VD (auth: REE)
Chain Length:60
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S5
Chain IDs:AB (auth: SF0), WD (auth: RF0)
Chain Length:195
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ubiquitin/40s ribosomal protein S27a fusion
Chain IDs:BB (auth: SFF), XD (auth: RFF)
Chain Length:150
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S6
Chain IDs:CB (auth: SG0), YD (auth: RG0)
Chain Length:230
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Guanine nucleotide binding protein beta subunit
Chain IDs:DB (auth: SGG), ZD (auth: RGG)
Chain Length:326
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S7
Chain IDs:EB (auth: SH0), AE (auth: RH0)
Chain Length:164
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S8
Chain IDs:FB (auth: SI0), BE (auth: RI0)
Chain Length:173
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S9
Chain IDs:GB (auth: SJ0), CE (auth: RJ0)
Chain Length:184
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S10
Chain IDs:HB (auth: SK0), DE (auth: RK0)
Chain Length:107
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S11
Chain IDs:IB (auth: SL0), EE (auth: RL0)
Chain Length:155
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S12
Chain IDs:JB (auth: SM0), FE (auth: RM0)
Chain Length:130
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S13
Chain IDs:KB (auth: SN0), GE (auth: RN0)
Chain Length:143
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S14
Chain IDs:LB (auth: SO0), HE (auth: RO0)
Chain Length:135
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein S19
Chain IDs:SE (auth: SP0), TE (auth: RP0)
Chain Length:163
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S16
Chain IDs:MB (auth: SQ0), IE (auth: RQ0)
Chain Length:143
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S17
Chain IDs:NB (auth: SR0), JE (auth: RR0)
Chain Length:120
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S18
Chain IDs:OB (auth: SS0), KE (auth: RS0)
Chain Length:160
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S Ribosomal protein S19
Chain IDs:PB (auth: ST0), LE (auth: RT0)
Chain Length:143
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S20
Chain IDs:QB (auth: SU0), ME (auth: RU0)
Chain Length:119
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein S21E
Chain IDs:RB (auth: SV0), NE (auth: RV0)
Chain Length:67
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S15A
Chain IDs:SB (auth: SW0), OE (auth: RW0)
Chain Length:128
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:Ribosomal protein S12/S23
Chain IDs:TB (auth: SX0), PE (auth: RX0)
Chain Length:141
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40s ribosomal protein s24
Chain IDs:UB (auth: SY0), QE (auth: RY0)
Chain Length:146
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S25
Chain IDs:VB (auth: SZ0), RE (auth: RZ0)
Chain Length:128
Number of Molecules:2
Biological Source:Spraguea lophii 42_110
Ligand Molecules
Primary Citation
CryoEM reveals that ribosomes in microsporidian spores are locked in a dimeric hibernating state.
Nat Microbiol 8 1834 1845 (2023)
PMID: 37709902 DOI: 10.1038/s41564-023-01469-w

Abstact

Translational control is an essential process for the cell to adapt to varying physiological or environmental conditions. To survive adverse conditions such as low nutrient levels, translation can be shut down almost entirely by inhibiting ribosomal function. Here we investigated eukaryotic hibernating ribosomes from the microsporidian parasite Spraguea lophii in situ by a combination of electron cryo-tomography and single-particle electron cryo-microscopy. We show that microsporidian spores contain hibernating ribosomes that are locked in a dimeric (100S) state, which is formed by a unique dimerization mechanism involving the beak region. The ribosomes within the dimer are fully assembled, suggesting that they are ready to be activated once the host cell is invaded. This study provides structural evidence for dimerization acting as a mechanism for ribosomal hibernation in microsporidia, and therefore demonstrates that eukaryotes utilize this mechanism in translational control.

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Disease

Primary Citation of related structures