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human nuclear pre-60S ribosomal particle - State A

Source organism: Homo sapiens
Biochemical function: RNA binding
Biological process: translation
Cellular component: cytoplasm

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Biological process:
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF00400
Domain description: WD domain, G-beta repeat
Occurring in:
  1. Notchless protein homolog 1
The deposited structure of PDB entry 8ir1 contains 7 copies of Pfam domain PF00400 (WD domain, G-beta repeat) in Notchless protein homolog 1. Showing 7 copies in chain KA [auth N].

PF01926
Domain description: 50S ribosome-binding GTPase
Occurring in:
  1. Guanine nucleotide-binding protein-like 3
  2. Nucleolar GTP-binding protein 2
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01926 (50S ribosome-binding GTPase) in Guanine nucleotide-binding protein-like 3. Showing 1 copy in chain MA [auth u] (this domain is out of the observed residue ranges!).
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01926 (50S ribosome-binding GTPase) in Nucleolar GTP-binding protein 2. Showing 1 copy in chain OA [auth w].

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 8ir1 contains 1 copy of Pfam domain PF00467 (KOW motif) in Large ribosomal subunit protein uL24. Showing 1 copy in chain Z [auth h].
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00467 (KOW motif) in Large ribosomal subunit protein eL27. Showing 1 copy in chain AA [auth i].

PF00347
Domain description: Ribosomal protein L6
Occurring in:
  1. Large ribosomal subunit protein uL6
The deposited structure of PDB entry 8ir1 contains 2 copies of Pfam domain PF00347 (Ribosomal protein L6) in Large ribosomal subunit protein uL6. Showing 2 copies in chain K [auth I].

PF01248
Domain description: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Occurring in:
  1. Large ribosomal subunit protein eL30
  2. Large ribosomal subunit protein eL8
The deposited structure of PDB entry 8ir1 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 G [auth E].
The deposited structure of PDB entry 8ir1 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 I [auth G].

PF10169
Domain description: LLP homolog
Occurring in:
  1. Protein LLP homolog
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF10169 (Learning-associated protein) in Protein LLP homolog. Showing 1 copy in chain GA [auth z].

PF00298
Domain description: Ribosomal protein L11, RNA binding domain
Occurring in:
  1. Large ribosomal subunit protein uL11
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00298 (Ribosomal protein L11, RNA binding domain) in Large ribosomal subunit protein uL11. Showing 1 copy in chain A [auth y].

PF03946
Domain description: Ribosomal protein L11, N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL11
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF03946 (Ribosomal protein L11, N-terminal domain) in Large ribosomal subunit protein uL11. Showing 1 copy in chain A [auth y].

PF08153
Domain description: NGP1NT (NUC091) domain
Occurring in:
  1. Nucleolar GTP-binding protein 2
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF08153 (NGP1NT (NUC091) domain) in Nucleolar GTP-binding protein 2. Showing 1 copy in chain OA [auth w].

PF17777
Domain description: Insertion domain in 60S ribosomal protein L10P
Occurring in:
  1. mRNA turnover protein 4 homolog
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF17777 (Insertion domain in 60S ribosomal protein L10P) in mRNA turnover protein 4 homolog. Showing 1 copy in chain NA [auth v].

PF00466
Domain description: Ribosomal protein L10
Occurring in:
  1. mRNA turnover protein 4 homolog
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00466 (Ribosomal protein L10) in mRNA turnover protein 4 homolog. Showing 1 copy in chain NA [auth v].

PF08701
Domain description: GNL3L/Grn1 putative GTPase
Occurring in:
  1. Guanine nucleotide-binding protein-like 3
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF08701 (GNL3L/Grn1 putative GTPase) in Guanine nucleotide-binding protein-like 3. Showing 1 copy in chain MA [auth u].

PF03879
Domain description: Cgr1 family
Occurring in:
  1. Coiled-coil domain-containing protein 86
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF03879 (Cgr1 family) in Coiled-coil domain-containing protein 86. Showing 1 copy in chain PA [auth r].

PF00327
Domain description: Ribosomal protein L30p/L7e
Occurring in:
  1. Large ribosomal subunit protein uL30
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00327 (Ribosomal protein L30p/L7e) in Large ribosomal subunit protein uL30. Showing 1 copy in chain FA [auth p].

PF08079
Domain description: Ribosomal L30 N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL30
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF08079 (Ribosomal L30 N-terminal domain) in Large ribosomal subunit protein uL30. Showing 1 copy in chain FA [auth p].

PF01159
Domain description: Ribosomal protein L6e
Occurring in:
  1. Large ribosomal subunit protein eL6
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01159 (Ribosomal protein L6e ) in Large ribosomal subunit protein eL6. Showing 1 copy in chain EA [auth o].

PF03868
Domain description: Ribosomal protein L6, N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein eL6
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF03868 (Ribosomal protein L6, N-terminal domain) in Large ribosomal subunit protein eL6. Showing 1 copy in chain EA [auth o].

PF01247
Domain description: Ribosomal protein L35Ae
Occurring in:
  1. Large ribosomal subunit protein eL33
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01247 (Ribosomal protein L35Ae) in Large ribosomal subunit protein eL33. Showing 1 copy in chain DA [auth n].

PF03947
Domain description: Ribosomal Proteins L2, C-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL2
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF03947 (Ribosomal Proteins L2, C-terminal domain) in Large ribosomal subunit protein uL2. Showing 1 copy in chain CA [auth m].

PF00181
Domain description: Ribosomal Proteins L2, RNA binding domain
Occurring in:
  1. Large ribosomal subunit protein uL2
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00181 (Ribosomal Proteins L2, RNA binding domain) in Large ribosomal subunit protein uL2. Showing 1 copy in chain CA [auth m].

PF01778
Domain description: Ribosomal L28e protein family
Occurring in:
  1. Large ribosomal subunit protein eL28
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01778 (Ribosomal L28e protein family) in Large ribosomal subunit protein eL28. Showing 1 copy in chain BA [auth l].

PF01655
Domain description: Ribosomal protein L32
Occurring in:
  1. Large ribosomal subunit protein eL32
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01655 (Ribosomal protein L32) in Large ribosomal subunit protein eL32. Showing 1 copy in chain VA [auth k].

PF01198
Domain description: Ribosomal protein L31e
Occurring in:
  1. Large ribosomal subunit protein eL31
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01198 (Ribosomal protein L31e) in Large ribosomal subunit protein eL31. Showing 1 copy in chain UA [auth j].

PF01777
Domain description: Ribosomal L27e protein family
Occurring in:
  1. Large ribosomal subunit protein eL27
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01777 (Ribosomal L27e protein family) in Large ribosomal subunit protein eL27. Showing 1 copy in chain AA [auth i].

PF16906
Domain description: Ribosomal proteins L26 eukaryotic, L24P archaeal
Occurring in:
  1. Large ribosomal subunit protein uL24
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF16906 (Ribosomal proteins L26 eukaryotic, L24P archaeal) in Large ribosomal subunit protein uL24. Showing 1 copy in chain Z [auth h].

PF00276
Domain description: Ribosomal protein L23
Occurring in:
  1. Large ribosomal subunit protein uL23
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00276 (Ribosomal protein L23) in Large ribosomal subunit protein uL23. Showing 1 copy in chain SA [auth g].

PF03939
Domain description: Ribosomal protein L23, N-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL23
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF03939 (Ribosomal protein L23, N-terminal domain) in Large ribosomal subunit protein uL23. Showing 1 copy in chain SA [auth g].

PF00238
Domain description: Ribosomal protein L14p/L23e
Occurring in:
  1. Large ribosomal subunit protein uL14
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00238 (Ribosomal protein L14p/L23e) in Large ribosomal subunit protein uL14. Showing 1 copy in chain Y [auth e].

PF01776
Domain description: Ribosomal L22e protein family
Occurring in:
  1. Large ribosomal subunit protein eL22
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01776 (Ribosomal L22e protein family) in Large ribosomal subunit protein eL22. Showing 1 copy in chain TA [auth d].

PF01157
Domain description: Ribosomal protein L21e
Occurring in:
  1. Large ribosomal subunit protein eL21
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01157 (Ribosomal protein L21e) in Large ribosomal subunit protein eL21. Showing 1 copy in chain X [auth c].

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 8ir1 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 W [auth b].

PF01280
Domain description: Ribosomal protein L19e
Occurring in:
  1. Large ribosomal subunit protein eL19
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01280 (Ribosomal protein L19e) in Large ribosomal subunit protein eL19. Showing 1 copy in chain V [auth a].

PF17135
Domain description: Ribosomal protein 60S L18 and 50S L18e
Occurring in:
  1. Large ribosomal subunit protein eL18
The deposited structure of PDB entry 8ir1 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 U [auth Z].

PF00237
Domain description: Ribosomal protein L22p/L17e
Occurring in:
  1. Large ribosomal subunit protein uL22
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00237 (Ribosomal protein L22p/L17e) in Large ribosomal subunit protein uL22. Showing 1 copy in chain WA [auth Y].

PF01780
Domain description: Ribosomal L37ae protein family
Occurring in:
  1. Large ribosomal subunit protein eL43
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01780 (Ribosomal L37ae protein family) in Large ribosomal subunit protein eL43. Showing 1 copy in chain T [auth X].

PF00572
Domain description: Ribosomal protein L13
Occurring in:
  1. Large ribosomal subunit protein uL13
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00572 (Ribosomal protein L13) in Large ribosomal subunit protein uL13. Showing 1 copy in chain S [auth V].

PF00827
Domain description: Ribosomal L15
Occurring in:
  1. Large ribosomal subunit protein eL15
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00827 (Ribosomal L15) in Large ribosomal subunit protein eL15. Showing 1 copy in chain R [auth U].

PF04427
Domain description: Brix domain
Occurring in:
  1. Ribosome production factor 2 homolog
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF04427 (Brix domain) in Ribosome production factor 2 homolog. Showing 1 copy in chain ZA [auth T].

PF01929
Domain description: Ribosomal protein L14
Occurring in:
  1. Large ribosomal subunit protein eL14
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01929 (Ribosomal protein L14) in Large ribosomal subunit protein eL14. Showing 1 copy in chain Q [auth S].

PF04939
Domain description: Ribosome biogenesis regulatory protein (RRS1)
Occurring in:
  1. Ribosome biogenesis regulatory protein homolog
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF04939 (Ribosome biogenesis regulatory protein (RRS1)) in Ribosome biogenesis regulatory protein homolog. Showing 1 copy in chain LA [auth R].

PF01294
Domain description: Ribosomal protein L13e
Occurring in:
  1. Large ribosomal subunit protein eL13
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01294 (Ribosomal protein L13e) in Large ribosomal subunit protein eL13. Showing 1 copy in chain P [auth Q].

PF00832
Domain description: Ribosomal L39 protein
Occurring in:
  1. Large ribosomal subunit protein eL39
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00832 (Ribosomal L39 protein) in Large ribosomal subunit protein eL39. Showing 1 copy in chain O [auth P].

PF01781
Domain description: Ribosomal L38e protein family
Occurring in:
  1. Large ribosomal subunit protein eL38
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01781 (Ribosomal L38e protein family) in Large ribosomal subunit protein eL38. Showing 1 copy in chain XA [auth O].

PF08154
Domain description: NLE (NUC135) domain
Occurring in:
  1. Notchless protein homolog 1
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF08154 (NLE (NUC135) domain) in Notchless protein homolog 1. Showing 1 copy in chain KA [auth N].

PF01907
Domain description: Ribosomal protein L37e
Occurring in:
  1. Large ribosomal subunit protein eL37
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01907 (Ribosomal protein L37e) in Large ribosomal subunit protein eL37. Showing 1 copy in chain N [auth M].

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 8ir1 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 M [auth L].

PF01158
Domain description: Ribosomal protein L36e
Occurring in:
  1. Large ribosomal subunit protein eL36
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01158 (Ribosomal protein L36e) in Large ribosomal subunit protein eL36. Showing 1 copy in chain L [auth K].

PF01201
Domain description: Ribosomal protein S8e
Occurring in:
  1. Ribosome biogenesis protein NSA2 homolog
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01201 (Ribosomal protein S8e) in Ribosome biogenesis protein NSA2 homolog. Showing 1 copy in chain JA [auth J].

PF00831
Domain description: Ribosomal L29 protein
Occurring in:
  1. Large ribosomal subunit protein uL29
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00831 (Ribosomal L29 protein) in Large ribosomal subunit protein uL29. Showing 1 copy in chain J [auth H].

PF01199
Domain description: Ribosomal protein L34e
Occurring in:
  1. Large ribosomal subunit protein eL34
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01199 (Ribosomal protein L34e) in Large ribosomal subunit protein eL34. Showing 1 copy in chain H [auth F].

PF14374
Domain description: 60S ribosomal protein L4 C-terminal domain
Occurring in:
  1. Large ribosomal subunit protein uL4
The deposited structure of PDB entry 8ir1 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 F [auth D].

PF00573
Domain description: Ribosomal protein L4/L1 family
Occurring in:
  1. Large ribosomal subunit protein uL4
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00573 (Ribosomal protein L4/L1 family) in Large ribosomal subunit protein uL4. Showing 1 copy in chain F [auth D].

PF14204
Domain description: Ribosomal L18 C-terminal region
Occurring in:
  1. Large ribosomal subunit protein uL18
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF14204 (Ribosomal L18 C-terminal region) in Large ribosomal subunit protein uL18. Showing 1 copy in chain IA [auth C].

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 8ir1 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 IA [auth C].

PF00297
Domain description: Ribosomal protein L3
Occurring in:
  1. Large ribosomal subunit protein uL3
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00297 (Ribosomal protein L3) in Large ribosomal subunit protein uL3. Showing 1 copy in chain E [auth B].

PF00673
Domain description: ribosomal L5P family C-terminus
Occurring in:
  1. Large ribosomal subunit protein uL5
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00673 (ribosomal L5P family C-terminus) in Large ribosomal subunit protein uL5. Showing 1 copy in chain HA [auth A].

PF00281
Domain description: Ribosomal protein L5
Occurring in:
  1. Large ribosomal subunit protein uL5
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF00281 (Ribosomal protein L5) in Large ribosomal subunit protein uL5. Showing 1 copy in chain HA [auth A].

PF07780
Domain description: Spb1 C-terminal domain
Occurring in:
  1. pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF07780 (Spb1 C-terminal domain) in pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3. Showing 1 copy in chain AB [auth 9] (this domain is out of the observed residue ranges!).

PF11861
Domain description: Ribosomal RNA methyltransferase Spb1, DUF3381
Occurring in:
  1. pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF11861 (Ribosomal RNA methyltransferase Spb1, DUF3381) in pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3. Showing 1 copy in chain AB [auth 9].

PF01728
Domain description: FtsJ-like methyltransferase
Occurring in:
  1. pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01728 (FtsJ-like methyltransferase) in pre-rRNA 2'-O-ribose RNA methyltransferase FTSJ3. Showing 1 copy in chain AB [auth 9] (this domain is out of the observed residue ranges!).

PF01246
Domain description: Ribosomal protein L24e
Occurring in:
  1. Probable ribosome biogenesis protein RLP24
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01246 (Ribosomal protein L24e) in Probable ribosome biogenesis protein RLP24. Showing 1 copy in chain D [auth 7].

PF01912
Domain description: eIF-6 family
Occurring in:
  1. Eukaryotic translation initiation factor 6
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF01912 (eIF-6 family) in Eukaryotic translation initiation factor 6. Showing 1 copy in chain C [auth 6].

PF08155
Domain description: NOGCT (NUC087) domain
Occurring in:
  1. GTP-binding protein 4
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF08155 (NOGCT (NUC087) domain) in GTP-binding protein 4. Showing 1 copy in chain B [auth 4].

PF06858
Domain description: Nucleolar GTP-binding protein 1 (NOG1)
Occurring in:
  1. GTP-binding protein 4
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF06858 (Nucleolar GTP-binding protein 1 (NOG1)) in GTP-binding protein 4. Showing 1 copy in chain B [auth 4].

PF17835
Domain description: NOG1 N-terminal helical domain
Occurring in:
  1. GTP-binding protein 4
The deposited structure of PDB entry 8ir1 contains 1 copy of Pfam domain PF17835 (NOG1 N-terminal helical domain) in GTP-binding protein 4. Showing 1 copy in chain B [auth 4].

Rfam RNA families (Rfam)
RF02543
Domain description: Eukaryotic large subunit ribosomal RNA
Occurring in:
  1. 28S ribosomal RNA
The deposited structure of PDB entry 8ir1 contains 1 copy of Rfam domain RF02543 (Eukaryotic large subunit ribosomal RNA) in 28S ribosomal RNA. Showing 1 copy in chain QA [auth 2].

RF00002
Domain description: 5.8S ribosomal RNA
Occurring in:
  1. 5.8S rRMA
The deposited structure of PDB entry 8ir1 contains 1 copy of Rfam domain RF00002 (5.8S ribosomal RNA) in 5.8S rRMA. Showing 1 copy in chain RA [auth 8].

RF00001
Domain description: 5S ribosomal RNA
Occurring in:
  1. 5S ribosomal RNA
The deposited structure of PDB entry 8ir1 contains 1 copy of Rfam domain RF00001 (5S ribosomal RNA) in 5S ribosomal RNA. Showing 1 copy in chain YA [auth W].

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