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60S ribosomal subunit bound to the E3-UFM1 complex - state 2 (native)

Source organisms:
Biochemical function: structural constituent of ribosome
Biological process: translation
Cellular component: cytoplasm

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Biochemical function:
Biological process:
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF00467
Domain description: KOW motif
Occurring in:
  1. Large ribosomal subunit protein uL24
  2. Large ribosomal subunit protein eL27
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00467 (KOW motif) in Large ribosomal subunit protein uL24. Showing 1 copy in chain IA [auth LY].
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00467 (KOW motif) in Large ribosomal subunit protein eL27. Showing 1 copy in chain JA [auth LZ].

PF00347
Domain description: Ribosomal protein L6
Occurring in:
  1. Large ribosomal subunit protein uL6
The deposited structure of PDB entry 8oj0 contains 2 copies of Pfam domain PF00347 (Ribosomal protein L6) in Large ribosomal subunit protein uL6. Showing 2 copies in chain S [auth LH].

PF01248
Domain description: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Occurring in:
  1. Large ribosomal subunit protein eL8
  2. Large ribosomal subunit protein eL30
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01248 (Ribosomal protein L7Ae/L30e/S12e/Gadd45 family) in Large ribosomal subunit protein eL8. Showing 1 copy in chain R [auth LG].
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01248 (Ribosomal protein L7Ae/L30e/S12e/Gadd45 family) in Large ribosomal subunit protein eL30. Showing 1 copy in chain MA [auth Lc].

PF00687
Domain description: Ribosomal protein L1p/L10e family
Occurring in:
  1. Large ribosomal subunit protein uL1
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00687 (Ribosomal protein L1p/L10e family) in Large ribosomal subunit protein uL1. Showing 1 copy in chain AB [auth Lz].

PF01778
Domain description: Ribosomal L28e protein family
Occurring in:
  1. Large ribosomal subunit protein eL28
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01778 (Ribosomal L28e protein family) in Large ribosomal subunit protein eL28. Showing 1 copy in chain ZA [auth Lr].

PF01780
Domain description: Ribosomal L37ae protein family
Occurring in:
  1. Large ribosomal subunit protein eL43
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01780 (Ribosomal L37ae protein family) in Large ribosomal subunit protein eL43. Showing 1 copy in chain YA [auth Lp].

PF00935
Domain description: Ribosomal protein L44
Occurring in:
  1. Large ribosomal subunit protein eL42
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00935 (Ribosomal protein L44) in Large ribosomal subunit protein eL42. Showing 1 copy in chain XA [auth Lo].

PF01020
Domain description: Ribosomal L40e family
Occurring in:
  1. Ubiquitin-ribosomal protein eL40 fusion protein
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01020 (Ribosomal L40e family) in Ubiquitin-ribosomal protein eL40 fusion protein. Showing 1 copy in chain WA [auth Lm].

PF00240
Domain description: Ubiquitin family
Occurring in:
  1. Ubiquitin-ribosomal protein eL40 fusion protein
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00240 (Ubiquitin family) in Ubiquitin-ribosomal protein eL40 fusion protein. Showing 1 copy in chain WA [auth Lm] (this domain is out of the observed residue ranges!).

PF00832
Domain description: Ribosomal L39 protein
Occurring in:
  1. Large ribosomal subunit protein eL39
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00832 (Ribosomal L39 protein) in Large ribosomal subunit protein eL39. Showing 1 copy in chain VA [auth Ll].

PF01781
Domain description: Ribosomal L38e protein family
Occurring in:
  1. Large ribosomal subunit protein eL38
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01781 (Ribosomal L38e protein family) in Large ribosomal subunit protein eL38. Showing 1 copy in chain UA [auth Lk].

PF01907
Domain description: Ribosomal protein L37e
Occurring in:
  1. Large ribosomal subunit protein eL37
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01907 (Ribosomal protein L37e) in Large ribosomal subunit protein eL37. Showing 1 copy in chain TA [auth Lj].

PF01158
Domain description: Ribosomal protein L36e
Occurring in:
  1. Large ribosomal subunit protein eL36
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01158 (Ribosomal protein L36e) in Large ribosomal subunit protein eL36. Showing 1 copy in chain SA [auth Li].

PF00831
Domain description: Ribosomal L29 protein
Occurring in:
  1. Large ribosomal subunit protein uL29
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00831 (Ribosomal L29 protein) in Large ribosomal subunit protein uL29. Showing 1 copy in chain RA [auth Lh].

PF01199
Domain description: Ribosomal protein L34e
Occurring in:
  1. Large ribosomal subunit protein eL34
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01199 (Ribosomal protein L34e) in Large ribosomal subunit protein eL34. Showing 1 copy in chain QA [auth Lg].

PF01247
Domain description: Ribosomal protein L35Ae
Occurring in:
  1. Large ribosomal subunit protein eL33
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01247 (Ribosomal protein L35Ae) in Large ribosomal subunit protein eL33. Showing 1 copy in chain PA [auth Lf].

PF01655
Domain description: Ribosomal protein L32
Occurring in:
  1. Large ribosomal subunit protein eL32
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01655 (Ribosomal protein L32) in Large ribosomal subunit protein eL32. Showing 1 copy in chain OA [auth Le].

PF01198
Domain description: Ribosomal protein L31e
Occurring in:
  1. Large ribosomal subunit protein eL31
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01198 (Ribosomal protein L31e) in Large ribosomal subunit protein eL31. Showing 1 copy in chain NA [auth Ld].

PF01779
Domain description: Ribosomal L29e protein family
Occurring in:
  1. Large ribosomal subunit protein eL29
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01779 (Ribosomal L29e protein family) in Large ribosomal subunit protein eL29. Showing 1 copy in chain LA [auth Lb].

PF00828
Domain description: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Occurring in:
  1. Large ribosomal subunit protein uL15
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00828 (Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A) in Large ribosomal subunit protein uL15. Showing 1 copy in chain KA [auth La].

PF01777
Domain description: Ribosomal L27e protein family
Occurring in:
  1. Large ribosomal subunit protein eL27
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01777 (Ribosomal L27e protein family) in Large ribosomal subunit protein eL27. Showing 1 copy in chain JA [auth LZ].

PF16906
Domain description: Ribosomal proteins L26 eukaryotic, L24P archaeal
Occurring in:
  1. Large ribosomal subunit protein uL24
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF16906 (Ribosomal proteins L26 eukaryotic, L24P archaeal) in Large ribosomal subunit protein uL24. Showing 1 copy in chain IA [auth LY].

PF00276
Domain description: Ribosomal protein L23
Occurring in:
  1. Large ribosomal subunit protein uL23
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00276 (Ribosomal protein L23) in Large ribosomal subunit protein uL23. Showing 1 copy in chain HA [auth LX].

PF03939
Domain description: Ribosomal protein L23, N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL23
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF03939 (Ribosomal protein L23, N-terminal domain) in Large ribosomal subunit protein uL23. Showing 1 copy in chain HA [auth LX].

PF01246
Domain description: Ribosomal protein L24e
Occurring in:
  1. Large ribosomal subunit protein eL24
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01246 (Ribosomal protein L24e) in Large ribosomal subunit protein eL24. Showing 1 copy in chain GA [auth LW].

PF00238
Domain description: Ribosomal protein L14p/L23e
Occurring in:
  1. Large ribosomal subunit protein uL14
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00238 (Ribosomal protein L14p/L23e) in Large ribosomal subunit protein uL14. Showing 1 copy in chain FA [auth LV].

PF01776
Domain description: Ribosomal L22e protein family
Occurring in:
  1. Large ribosomal subunit protein eL22
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01776 (Ribosomal L22e protein family) in Large ribosomal subunit protein eL22. Showing 1 copy in chain EA [auth LU].

PF01157
Domain description: Ribosomal protein L21e
Occurring in:
  1. Large ribosomal subunit protein eL21
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01157 (Ribosomal protein L21e) in Large ribosomal subunit protein eL21. Showing 1 copy in chain DA [auth LT].

PF01775
Domain description: Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A
Occurring in:
  1. Large ribosomal subunit protein eL20
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01775 (Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A) in Large ribosomal subunit protein eL20. Showing 1 copy in chain CA [auth LS].

PF01280
Domain description: Ribosomal protein L19e
Occurring in:
  1. Large ribosomal subunit protein eL19
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01280 (Ribosomal protein L19e) in Large ribosomal subunit protein eL19. Showing 1 copy in chain BA [auth LR].

PF17135
Domain description: Ribosomal protein 60S L18 and 50S L18e
Occurring in:
  1. Large ribosomal subunit protein eL18
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF17135 (Ribosomal protein 60S L18 and 50S L18e) in Large ribosomal subunit protein eL18. Showing 1 copy in chain AA [auth LQ].

PF00237
Domain description: Ribosomal protein L22p/L17e
Occurring in:
  1. Large ribosomal subunit protein uL22
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00237 (Ribosomal protein L22p/L17e) in Large ribosomal subunit protein uL22. Showing 1 copy in chain Z [auth LP].

PF00572
Domain description: Ribosomal protein L13
Occurring in:
  1. Large ribosomal subunit protein uL13
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00572 (Ribosomal protein L13) in Large ribosomal subunit protein uL13. Showing 1 copy in chain Y [auth LO].

PF00827
Domain description: Ribosomal L15
Occurring in:
  1. Large ribosomal subunit protein eL15
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00827 (Ribosomal L15) in Large ribosomal subunit protein eL15. Showing 1 copy in chain X [auth LN].

PF01929
Domain description: Ribosomal protein L14
Occurring in:
  1. Large ribosomal subunit protein eL14
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01929 (Ribosomal protein L14) in Large ribosomal subunit protein eL14. Showing 1 copy in chain W [auth LM].

PF01294
Domain description: Ribosomal protein L13e
Occurring in:
  1. Large ribosomal subunit protein eL13
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01294 (Ribosomal protein L13e) in Large ribosomal subunit protein eL13. Showing 1 copy in chain V [auth LL].

PF00673
Domain description: ribosomal L5P family C-terminus
Occurring in:
  1. Large ribosomal subunit protein uL5
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00673 (ribosomal L5P family C-terminus) in Large ribosomal subunit protein uL5. Showing 1 copy in chain U [auth LJ].

PF00281
Domain description: Ribosomal protein L5
Occurring in:
  1. Large ribosomal subunit protein uL5
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00281 (Ribosomal protein L5) in Large ribosomal subunit protein uL5. Showing 1 copy in chain U [auth LJ].

PF00252
Domain description: Ribosomal protein L16p/L10e
Occurring in:
  1. Ribosomal protein uL16-like
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00252 (Ribosomal protein L16p/L10e) in Ribosomal protein uL16-like. Showing 1 copy in chain T [auth LI].

PF00327
Domain description: Ribosomal protein L30p/L7e
Occurring in:
  1. Large ribosomal subunit protein uL30
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00327 (Ribosomal protein L30p/L7e) in Large ribosomal subunit protein uL30. Showing 1 copy in chain Q [auth LF].

PF08079
Domain description: Ribosomal L30 N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL30
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF08079 (Ribosomal L30 N-terminal domain) in Large ribosomal subunit protein uL30. Showing 1 copy in chain Q [auth LF].

PF01159
Domain description: Ribosomal protein L6e
Occurring in:
  1. Large ribosomal subunit protein eL6
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01159 (Ribosomal protein L6e ) in Large ribosomal subunit protein eL6. Showing 1 copy in chain P [auth LE].

PF03868
Domain description: Ribosomal protein L6, N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein eL6
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF03868 (Ribosomal protein L6, N-terminal domain) in Large ribosomal subunit protein eL6. Showing 1 copy in chain P [auth LE].

PF14204
Domain description: Ribosomal L18 C-terminal region
Occurring in:
  1. Large ribosomal subunit protein uL18
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF14204 (Ribosomal L18 C-terminal region) in Large ribosomal subunit protein uL18. Showing 1 copy in chain O [auth LD].

PF17144
Domain description: Ribosomal large subunit proteins 60S L5, and 50S L18
Occurring in:
  1. Large ribosomal subunit protein uL18
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF17144 (Ribosomal large subunit proteins 60S L5, and 50S L18) in Large ribosomal subunit protein uL18. Showing 1 copy in chain O [auth LD].

PF14374
Domain description: 60S ribosomal protein L4 C-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL4
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF14374 (60S ribosomal protein L4 C-terminal domain) in Large ribosomal subunit protein uL4. Showing 1 copy in chain N [auth LC].

PF00573
Domain description: Ribosomal protein L4/L1 family
Occurring in:
  1. Large ribosomal subunit protein uL4
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00573 (Ribosomal protein L4/L1 family) in Large ribosomal subunit protein uL4. Showing 1 copy in chain N [auth LC].

PF00297
Domain description: Ribosomal protein L3
Occurring in:
  1. Large ribosomal subunit protein uL3
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00297 (Ribosomal protein L3) in Large ribosomal subunit protein uL3. Showing 1 copy in chain M [auth LB].

PF03947
Domain description: Ribosomal Proteins L2, C-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL2
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF03947 (Ribosomal Proteins L2, C-terminal domain) in Large ribosomal subunit protein uL2. Showing 1 copy in chain L [auth LA].

PF00181
Domain description: Ribosomal Proteins L2, RNA binding domain
Occurring in:
  1. Large ribosomal subunit protein uL2
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00181 (Ribosomal Proteins L2, RNA binding domain) in Large ribosomal subunit protein uL2. Showing 1 copy in chain L [auth LA].

PF01912
Domain description: eIF-6 family
Occurring in:
  1. Eukaryotic translation initiation factor 6
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF01912 (eIF-6 family) in Eukaryotic translation initiation factor 6. Showing 1 copy in chain K.

PF03671
Domain description: Ubiquitin fold modifier 1 protein
Occurring in:
  1. Ubiquitin-fold modifier 1
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF03671 (Ubiquitin fold modifier 1 protein) in Ubiquitin-fold modifier 1. Showing 1 copy in chain J [auth D].

PF09756
Domain description: DDRGK domain
Occurring in:
  1. DDRGK domain-containing protein 1
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF09756 (DDRGK domain) in DDRGK domain-containing protein 1. Showing 1 copy in chain I [auth C].

PF05600
Domain description: CDK5 regulatory subunit-associated protein 3
Occurring in:
  1. CDK5 regulatory subunit-associated protein 3
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF05600 (CDK5 regulatory subunit-associated protein 3) in CDK5 regulatory subunit-associated protein 3. Showing 1 copy in chain H [auth B].

PF09743
Domain description: E3 UFM1-protein ligase 1
Occurring in:
  1. E3 UFM1-protein ligase 1
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF09743 (E3 UFM1-protein ligase 1) in E3 UFM1-protein ligase 1. Showing 1 copy in chain G [auth A].

PF03911
Domain description: Sec61beta family
Occurring in:
  1. Protein transport protein Sec61 subunit beta
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF03911 (Sec61beta family) in Protein transport protein Sec61 subunit beta. Showing 1 copy in chain C [auth 3].

PF00584
Domain description: SecE/Sec61-gamma subunits of protein translocation complex
Occurring in:
  1. Protein transport protein Sec61 subunit gamma
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00584 (SecE/Sec61-gamma subunits of protein translocation complex) in Protein transport protein Sec61 subunit gamma. Showing 1 copy in chain B [auth 2].

PF00344
Domain description: SecY
Occurring in:
  1. Protein transport protein Sec61 subunit alpha isoform 1
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF00344 (SecY) in Protein transport protein Sec61 subunit alpha isoform 1. Showing 1 copy in chain A [auth 1].

PF10559
Domain description: Plug domain of Sec61p
Occurring in:
  1. Protein transport protein Sec61 subunit alpha isoform 1
The deposited structure of PDB entry 8oj0 contains 1 copy of Pfam domain PF10559 (Plug domain of Sec61p) in Protein transport protein Sec61 subunit alpha isoform 1. Showing 1 copy in chain A [auth 1].

Rfam RNA families (Rfam)
RF02543
Domain description: Eukaryotic large subunit ribosomal RNA
Occurring in:
  1. 28S ribosomal RNA
The deposited structure of PDB entry 8oj0 contains 1 copy of Rfam domain RF02543 (Eukaryotic large subunit ribosomal RNA) in 28S ribosomal RNA. Showing 1 copy in chain D [auth 5].

RF00001
Domain description: 5S ribosomal RNA
Occurring in:
  1. 5S ribosomal RNA
The deposited structure of PDB entry 8oj0 contains 1 copy of Rfam domain RF00001 (5S ribosomal RNA) in 5S ribosomal RNA. Showing 1 copy in chain E [auth 7].

RF00002
Domain description: 5.8S ribosomal RNA
Occurring in:
  1. 5.8S ribosomal RNA
The deposited structure of PDB entry 8oj0 contains 1 copy of Rfam domain RF00002 (5.8S ribosomal RNA) in 5.8S ribosomal RNA. Showing 1 copy in chain F [auth 8].

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