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Cryo-EM structure of native Otu2-bound ubiquitinated 43S pre-initiation complex

Source organism: Saccharomyces cerevisiae W303
Biochemical function: structural constituent of ribosome
Biological process: translation
Cellular component: cytoplasm

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GO terms

Biochemical function:
Biological process:
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF00400
Domain description: WD domain, G-beta repeat
Occurring in:
  1. Small ribosomal subunit protein RACK1
  2. Eukaryotic translation initiation factor 3 subunit I
The deposited structure of PDB entry 8cah contains 4 copies of Pfam domain PF00400 (WD domain, G-beta repeat) in Eukaryotic translation initiation factor 3 subunit I. Showing 4 copies in chain A [auth l].
The deposited structure of PDB entry 8cah contains 7 copies of Pfam domain PF00400 (WD domain, G-beta repeat) in Small ribosomal subunit protein RACK1. Showing 7 copies in chain NA [auth O].

PF08597
Domain description: Translation initiation factor eIF3 subunit
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit J
The deposited structure of PDB entry 8cah contains 2 copies of Pfam domain PF08597 (Translation initiation factor eIF3 subunit) in Eukaryotic translation initiation factor 3 subunit J. Showing 1 copy in chain PA [auth z].

PF00005
Domain description: ABC transporter
Occurring in:
  1. Translation initiation factor RLI1
The deposited structure of PDB entry 8cah contains 2 copies of Pfam domain PF00005 (ABC transporter) in RLI1 isoform 1. Showing 2 copies in chain RA [auth x].

PF05470
Domain description: Eukaryotic translation initiation factor 3 subunit 8 N-terminus
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit C
The deposited structure of PDB entry 8cah contains 2 copies of Pfam domain PF05470 (Eukaryotic translation initiation factor 3 subunit 8 N-terminus) in Eukaryotic translation initiation factor 3 subunit C. Showing 2 copies in chain E [auth q].

PF00076
Domain description: RNA recognition motif
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit B
  2. Eukaryotic translation initiation factor 3 subunit G
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00076 (RNA recognition motif) in Eukaryotic translation initiation factor 3 subunit G. Showing 1 copy in chain B [auth r] (this domain is out of the observed residue ranges!).
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00076 (RNA recognition motif) in Eukaryotic translation initiation factor 3 subunit B. Showing 1 copy in chain D [auth p].

PF01479
Domain description: S4 domain
Occurring in:
  1. Small ribosomal subunit protein eS4B
  2. Small ribosomal subunit protein uS4A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01479 (S4 domain) in Small ribosomal subunit protein eS4B. Showing 1 copy in chain M [auth S].
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01479 (S4 domain) in Small ribosomal subunit protein uS4A. Showing 1 copy in chain P [auth W].

PF00318
Domain description: Ribosomal protein S2
Occurring in:
  1. Small ribosomal subunit protein uS2A
The deposited structure of PDB entry 8cah contains 2 copies of Pfam domain PF00318 (Ribosomal protein S2) in Small ribosomal subunit protein uS2A. Showing 2 copies in chain J [auth P].

PF00037
Domain description: 4Fe-4S binding domain
Occurring in:
  1. Translation initiation factor RLI1
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00037 (4Fe-4S binding domain) in RLI1 isoform 1. Showing 1 copy in chain RA [auth x].

PF04068
Domain description: Possible Fer4-like domain in RNase L inhibitor, RLI
Occurring in:
  1. Translation initiation factor RLI1
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF04068 (Possible Fer4-like domain in RNase L inhibitor, RLI) in RLI1 isoform 1. Showing 1 copy in chain RA [auth x].

PF12353
Domain description: Eukaryotic translation initiation factor 3 subunit G
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit G
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF12353 (Eukaryotic translation initiation factor 3 subunit G ) in Eukaryotic translation initiation factor 3 subunit G. Showing 1 copy in chain B [auth r].

PF01399
Domain description: PCI domain
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit C
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01399 (PCI domain) in Eukaryotic translation initiation factor 3 subunit C. Showing 1 copy in chain E [auth q].

PF08662
Domain description: Eukaryotic translation initiation factor eIF2A
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit B
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF08662 (Eukaryotic translation initiation factor eIF2A) in Eukaryotic translation initiation factor 3 subunit B. Showing 1 copy in chain D [auth p].

PF22591
Domain description: eIF3a, PCI domain, TPR-like region
Occurring in:
  1. Eukaryotic translation initiation factor 3 subunit A

PF05162
Domain description: Ribosomal protein L41
Occurring in:
  1. Small ribosomal subunit protein eS32A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF05162 (Ribosomal protein L41) in Large ribosomal subunit protein eL41A. Showing 1 copy in chain TA [auth n].

PF01253
Domain description: Translation initiation factor SUI1
Occurring in:
  1. Eukaryotic translation initiation factor eIF-1
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01253 (Translation initiation factor SUI1) in SUI1 isoform 1. Showing 1 copy in chain G [auth m].

PF00240
Domain description: Ubiquitin family
Occurring in:
  1. Ubiquitin
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00240 (Ubiquitin family) in Ubiquitin. Showing 1 copy in chain SA [auth k].

PF01176
Domain description: Translation initiation factor 1A / IF-1
Occurring in:
  1. Eukaryotic translation initiation factor 1A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01176 (Translation initiation factor 1A / IF-1) in Eukaryotic translation initiation factor 4C. Showing 1 copy in chain F [auth i].

PF01200
Domain description: Ribosomal protein S28e
Occurring in:
  1. Small ribosomal subunit protein eS28A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01200 (Ribosomal protein S28e) in Small ribosomal subunit protein eS28A. Showing 1 copy in chain OA [auth h].

PF04758
Domain description: Ribosomal protein S30
Occurring in:
  1. Small ribosomal subunit protein eS30A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF04758 (Ribosomal protein S30) in Small ribosomal subunit protein eS30A. Showing 1 copy in chain Z [auth g].

PF01667
Domain description: Ribosomal protein S27
Occurring in:
  1. Small ribosomal subunit protein eS27A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01667 (Ribosomal protein S27) in Small ribosomal subunit protein eS27A. Showing 1 copy in chain Y [auth f].

PF01283
Domain description: Ribosomal protein S26e
Occurring in:
  1. Small ribosomal subunit protein eS26A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01283 (Ribosomal protein S26e) in Small ribosomal subunit protein eS26A. Showing 1 copy in chain X [auth e].

PF01282
Domain description: Ribosomal protein S24e
Occurring in:
  1. Small ribosomal subunit protein eS24A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01282 (Ribosomal protein S24e) in Small ribosomal subunit protein eS24A. Showing 1 copy in chain W [auth d].

PF00164
Domain description: Ribosomal protein S12/S23
Occurring in:
  1. Small ribosomal subunit protein uS12A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00164 (Ribosomal protein S12/S23) in Small ribosomal subunit protein uS12A. Showing 1 copy in chain V [auth c].

PF00410
Domain description: Ribosomal protein S8
Occurring in:
  1. Small ribosomal subunit protein uS8A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00410 (Ribosomal protein S8) in Small ribosomal subunit protein uS8A. Showing 1 copy in chain U [auth b].

PF01249
Domain description: Ribosomal protein S21e
Occurring in:
  1. Small ribosomal subunit protein eS21A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01249 (Ribosomal protein S21e ) in Small ribosomal subunit protein eS21A. Showing 1 copy in chain T [auth a].

PF00411
Domain description: Ribosomal protein S11
Occurring in:
  1. Small ribosomal subunit protein uS11A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00411 (Ribosomal protein S11) in Small ribosomal subunit protein uS11A. Showing 1 copy in chain S [auth Z].

PF00312
Domain description: Ribosomal protein S15
Occurring in:
  1. Small ribosomal subunit protein uS15
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00312 (Ribosomal protein S15) in Small ribosomal subunit protein uS15. Showing 1 copy in chain R [auth Y].

PF08069
Domain description: Ribosomal S13/S15 N-terminal domain
Occurring in:
  1. Small ribosomal subunit protein uS15
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF08069 (Ribosomal S13/S15 N-terminal domain) in Small ribosomal subunit protein uS15. Showing 1 copy in chain R [auth Y].

PF00366
Domain description: Ribosomal protein S17
Occurring in:
  1. Small ribosomal subunit protein uS17A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00366 (Ribosomal protein S17) in Small ribosomal subunit protein uS17A. Showing 1 copy in chain Q [auth X].

PF16205
Domain description: Ribosomal_S17 N-terminal
Occurring in:
  1. Small ribosomal subunit protein uS17A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF16205 (Ribosomal_S17 N-terminal) in Small ribosomal subunit protein uS17A. Showing 1 copy in chain Q [auth X].

PF00163
Domain description: Ribosomal protein S4/S9 N-terminal domain
Occurring in:
  1. Small ribosomal subunit protein uS4A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00163 (Ribosomal protein S4/S9 N-terminal domain) in Small ribosomal subunit protein uS4A. Showing 1 copy in chain P [auth W].

PF01201
Domain description: Ribosomal protein S8e
Occurring in:
  1. Small ribosomal subunit protein eS8A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01201 (Ribosomal protein S8e) in Small ribosomal subunit protein eS8A. Showing 1 copy in chain O [auth V].

PF01251
Domain description: Ribosomal protein S7e
Occurring in:
  1. Small ribosomal subunit protein eS7A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01251 (Ribosomal protein S7e) in Small ribosomal subunit protein eS7A. Showing 1 copy in chain VA [auth U].

PF01092
Domain description: Ribosomal protein S6e
Occurring in:
  1. Small ribosomal subunit protein eS6B
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01092 (Ribosomal protein S6e) in Small ribosomal subunit protein eS6B. Showing 1 copy in chain N [auth T].

PF16121
Domain description: 40S ribosomal protein S4 C-terminus
Occurring in:
  1. Small ribosomal subunit protein eS4B
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF16121 (40S ribosomal protein S4 C-terminus) in Small ribosomal subunit protein eS4B. Showing 1 copy in chain M [auth S].

PF00467
Domain description: KOW motif
Occurring in:
  1. Small ribosomal subunit protein eS4B
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00467 (KOW motif) in Small ribosomal subunit protein eS4B. Showing 1 copy in chain M [auth S].

PF00900
Domain description: Ribosomal family S4e
Occurring in:
  1. Small ribosomal subunit protein eS4B
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00900 (Ribosomal family S4e) in Small ribosomal subunit protein eS4B. Showing 1 copy in chain M [auth S].

PF08071
Domain description: RS4NT (NUC023) domain
Occurring in:
  1. Small ribosomal subunit protein eS4B
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF08071 (RS4NT (NUC023) domain) in Small ribosomal subunit protein eS4B. Showing 1 copy in chain M [auth S].

PF03719
Domain description: Ribosomal protein S5, C-terminal domain
Occurring in:
  1. Small ribosomal subunit protein uS5
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF03719 (Ribosomal protein S5, C-terminal domain) in Small ribosomal subunit protein uS5. Showing 1 copy in chain L [auth R].

PF00333
Domain description: Ribosomal protein S5, N-terminal domain
Occurring in:
  1. Small ribosomal subunit protein uS5
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00333 (Ribosomal protein S5, N-terminal domain) in Small ribosomal subunit protein uS5. Showing 1 copy in chain L [auth R].

PF01015
Domain description: Ribosomal S3Ae family
Occurring in:
  1. Small ribosomal subunit protein eS1A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01015 (Ribosomal S3Ae family) in Small ribosomal subunit protein eS1A. Showing 1 copy in chain K [auth Q].

PF01599
Domain description: Ribosomal protein S27a
Occurring in:
  1. Small ribosomal subunit protein eS31
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01599 (Ribosomal protein S27a) in Small ribosomal subunit protein eS31. Showing 1 copy in chain MA [auth N].

PF00253
Domain description: Ribosomal protein S14p/S29e
Occurring in:
  1. Small ribosomal subunit protein uS14A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00253 (Ribosomal protein S14p/S29e) in Small ribosomal subunit protein uS14A. Showing 1 copy in chain LA [auth M].

PF03297
Domain description: S25 ribosomal protein
Occurring in:
  1. Small ribosomal subunit protein eS25A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF03297 (S25 ribosomal protein) in Small ribosomal subunit protein eS25A. Showing 1 copy in chain KA [auth L].

PF00338
Domain description: Ribosomal protein S10p/S20e
Occurring in:
  1. Small ribosomal subunit protein uS10
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00338 (Ribosomal protein S10p/S20e) in Small ribosomal subunit protein uS10. Showing 1 copy in chain JA [auth K].

PF01090
Domain description: Ribosomal protein S19e
Occurring in:
  1. Small ribosomal subunit protein eS19A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01090 (Ribosomal protein S19e) in Small ribosomal subunit protein eS19A. Showing 1 copy in chain IA [auth J].

PF00416
Domain description: Ribosomal protein S13/S18
Occurring in:
  1. Small ribosomal subunit protein uS13A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00416 (Ribosomal protein S13/S18) in Small ribosomal subunit protein uS13A. Showing 1 copy in chain HA [auth I].

PF00833
Domain description: Ribosomal S17
Occurring in:
  1. Small ribosomal subunit protein eS17A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00833 (Ribosomal S17) in Small ribosomal subunit protein eS17A. Showing 1 copy in chain GA [auth H].

PF02338
Domain description: OTU-like cysteine protease
Occurring in:
  1. OTU domain-containing protein 2
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF02338 (OTU-like cysteine protease) in OTU domain-containing protein 2. Showing 1 copy in chain UA [auth G].

PF00380
Domain description: Ribosomal protein S9/S16
Occurring in:
  1. Small ribosomal subunit protein uS9A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00380 (Ribosomal protein S9/S16) in Small ribosomal subunit protein uS9A. Showing 1 copy in chain FA [auth F].

PF00203
Domain description: Ribosomal protein S19
Occurring in:
  1. Small ribosomal subunit protein uS19
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00203 (Ribosomal protein S19) in Small ribosomal subunit protein uS19. Showing 1 copy in chain AA [auth E].

PF01248
Domain description: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Occurring in:
  1. Small ribosomal subunit protein eS12
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF01248 (Ribosomal protein L7Ae/L30e/S12e/Gadd45 family) in Small ribosomal subunit protein eS12. Showing 1 copy in chain EA [auth D].

PF03501
Domain description: Plectin/S10 domain
Occurring in:
  1. Small ribosomal subunit protein eS10A
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF03501 (Plectin/S10 domain) in Small ribosomal subunit protein eS10A. Showing 1 copy in chain DA [auth C].

PF00177
Domain description: Ribosomal protein S7p/S5e
Occurring in:
  1. Small ribosomal subunit protein uS7
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00177 (Ribosomal protein S7p/S5e) in Small ribosomal subunit protein uS7. Showing 1 copy in chain CA [auth B].

PF00189
Domain description: Ribosomal protein S3, C-terminal domain
Occurring in:
  1. Small ribosomal subunit protein uS3
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF00189 (Ribosomal protein S3, C-terminal domain) in Small ribosomal subunit protein uS3. Showing 1 copy in chain BA [auth A].

PF07650
Domain description: KH domain
Occurring in:
  1. Small ribosomal subunit protein uS3
The deposited structure of PDB entry 8cah contains 1 copy of Pfam domain PF07650 (KH domain) in Small ribosomal subunit protein uS3. Showing 1 copy in chain BA [auth A].

Rfam RNA family (Rfam)
RF01960
Domain description: Eukaryotic small subunit ribosomal RNA
Occurring in:
  1. 18S Ribosomal RNA
The deposited structure of PDB entry 8cah contains 1 copy of Rfam domain RF01960 (Eukaryotic small subunit ribosomal RNA) in 18S Ribosomal RNA. Showing 1 copy in chain I [auth 2].

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