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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8I9W

Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - Dbp10-3

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1C1RNA (3341-MER)polymer33411079977.11Chaetomium thermophilum
2C2RNA (319-MER)polymer319102607.41Chaetomium thermophilum
3CABrix domain-containing proteinpolymer31636482.01UniProt (G0RXZ3)
Pfam (PF04427)
In PDB		Chaetomium thermophilum
4CBRibosome biogenesis protein C8F11.04polymer39143700.51UniProt (G0S7X0)
Pfam (PF00687)
In PDB		Chaetomium thermophilum
5CCRibosome biogenesis protein ERB1polymer80190998.01UniProt (G0SCK6)
Pfam (PF08145)
Pfam (PF00400)
In PDB		Chaetomium thermophilumEukaryotic ribosome biogenesis protein 1
6CERNA helicasepolymer59866830.91UniProt (G0RYU9)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF13959)
In PDB		Chaetomium thermophilum
7CFRibosome assembly factor mrt4polymer27030551.51UniProt (G0S616)
Pfam (PF17777)
Pfam (PF00466)
In PDB		Chaetomium thermophilummRNA turnover protein 4
8CG60S ribosome subunit biogenesis protein NIP7polymer18420686.01UniProt (G0S435)
Pfam (PF17833)
Pfam (PF03657)
In PDB		Chaetomium thermophilum
9CHNucleolar GTP-binding protein 1polymer66175621.51UniProt (G0S8F1)
Pfam (PF17835)
Pfam (PF06858)
Pfam (PF08155)
In PDB		Chaetomium thermophilum
10CIPutative RNA-binding proteinpolymer41445884.41UniProt (G0S1H0)
Pfam (PF00076)
In PDB		Chaetomium thermophilum
11CJPescadillo homologpolymer67977167.31UniProt (G0SHX6)
Pfam (PF06732)
Pfam (PF00533)
In PDB		Chaetomium thermophilumNucleolar protein 7 homolog
12CKRibosome biogenesis protein NSA2 homologpolymer26129724.61UniProt (G0S081)
Pfam (PF01201)
In PDB		Chaetomium thermophilum
13CLPutative GTP binding proteinpolymer55861523.91UniProt (G0SEW3)
Pfam (PF08701)
Pfam (PF01926)
In PDB		Chaetomium thermophilum
14CM, LF60S ribosomal protein l7-like proteinpolymer24928821.82UniProt (G0SFL0)
Pfam (PF08079)
Pfam (PF00327)
In PDB		Chaetomium thermophilum
15CNEukaryotic translation initiation factor 6polymer24626468.81UniProt (G0S683)
Pfam (PF01912)
In PDB		Chaetomium thermophilum
16CODUF2423 domain-containing proteinpolymer12013262.41UniProt (G0SHK0)
Pfam (PF10338)
In PDB		Chaetomium thermophilum
17CPRNA methyltransferase nop2-like proteinpolymer75183658.31UniProt (G0SHQ0)
Pfam (PF22458)
Pfam (PF01189)
In PDB		Chaetomium thermophilum
18CQRibosome biogenesis protein RLP24polymer22526434.31UniProt (G0S497)
Pfam (PF01246)
In PDB		Chaetomium thermophilum
19CRNucleolar protein 16polymer23726960.51UniProt (G0S832)
Pfam (PF09420)
In PDB		Chaetomium thermophilum
20CSAdoMet-dependent rRNA methyltransferase SPB1polymer83495511.01UniProt (G0SGD8)
Pfam (PF01728)
Pfam (PF11861)
Pfam (PF07780)
In PDB		Chaetomium thermophilum
21CTNucleolar complex-associated protein 3polymer68877953.91UniProt (G0S5L0)
Pfam (PF07540)
Pfam (PF03914)
In PDB		Chaetomium thermophilum
22CUrRNA-processing protein EBP2polymer45150255.61UniProt (G0SGC2)
Pfam (PF05890)
In PDB		Chaetomium thermophilum
23CVPutative 60S ribosomal proteinpolymer14715960.51UniProt (G0SHJ6)
Pfam (PF01778)
In PDB		Chaetomium thermophilum
24CX60S ribosomal subunit-like proteinpolymer20322678.61UniProt (G0SGJ0)
In PDB		Chaetomium thermophilum
25CYPutative NOC2 family proteinpolymer78889766.21UniProt (G0SD05)
Pfam (PF03715)
In PDB		Chaetomium thermophilum
26CbATP-dependent RNA helicase DBP10polymer924102993.91UniProt (G0S5S8)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF08147)
In PDB		Chaetomium thermophilum
27CzrRNA-processing proteinpolymer12314710.41UniProt (G0SCP3)
Pfam (PF03879)
In PDB		Chaetomium thermophilum
28LB60S ribosomal protein L3-like proteinpolymer39244456.91UniProt (G0RXW1)
Pfam (PF00297)
In PDB		Chaetomium thermophilum
29LC60S ribosomal protein L4-like proteinpolymer36539439.91UniProt (G0SFC3)
Pfam (PF00573)
Pfam (PF14374)
In PDB		Chaetomium thermophilum
30LE60S ribosomal protein L6polymer20022133.01UniProt (G0S0D6)
Pfam (PF01159)
In PDB		Chaetomium thermophilum
31LG60S ribosomal protein L8polymer26229744.51UniProt (G0SAJ9)
Pfam (PF01248)
In PDB		Chaetomium thermophilum
32LH60S ribosomal protein l9-like proteinpolymer19221582.11UniProt (G0S0E5)
Pfam (PF00347)
In PDB		Chaetomium thermophilum
33LK60S ribosomal protein L12-like proteinpolymer16517802.71UniProt (G0SGH8)
Pfam (PF03946)
Pfam (PF00298)
In PDB		Chaetomium thermophilum
34LL60S ribosomal protein L13polymer21324191.21UniProt (G0S992)
Pfam (PF01294)
In PDB		Chaetomium thermophilum
35LM60S ribosomal protein L14-like proteinpolymer14216111.91UniProt (G0S1R0)
Pfam (PF01929)
In PDB		Chaetomium thermophilum
36LNRibosomal protein L15polymer20324307.31UniProt (G0RZ88)
Pfam (PF00827)
In PDB		Chaetomium thermophilum
37LO60S ribosomal protein L16-like proteinpolymer20422993.21UniProt (G0SH61)
Pfam (PF00572)
In PDB		Chaetomium thermophilum
38LP60S ribosomal protein l17-like proteinpolymer18721072.21UniProt (G0SGY1)
Pfam (PF00237)
In PDB		Chaetomium thermophilum
39LQRibosomal protein L18-like proteinpolymer21324195.51UniProt (G0S9B5)
Pfam (PF17135)
In PDB		Chaetomium thermophilum
40LS60S ribosomal protein L20polymer17420341.91UniProt (G0SCE2)
Pfam (PF01775)
In PDB		Chaetomium thermophilum
41LT60S ribosomal protein l21-like proteinpolymer16018159.21UniProt (G0S0Z3)
Pfam (PF01157)
In PDB		Chaetomium thermophilum
42LV60S ribosomal protein l23-like proteinpolymer13914674.41UniProt (G0SI44)
Pfam (PF00238)
In PDB		Chaetomium thermophilum
43LX60S ribosomal protein L25-like proteinpolymer15617175.31UniProt (G0S507)
Pfam (PF03939)
Pfam (PF00276)
In PDB		Chaetomium thermophilum
44LY60S ribosomal protein L26-like proteinpolymer13815565.31UniProt (G0RYN9)
Pfam (PF16906)
Pfam (PF00467)
In PDB		Chaetomium thermophilum
45LdPutative 60S ribosomal proteinpolymer12013872.21UniProt (G0SD68)
Pfam (PF01198)
In PDB		Chaetomium thermophilum
46Le60S ribosomal protein L32-like proteinpolymer13115096.01UniProt (G0S6V4)
Pfam (PF01655)
In PDB		Chaetomium thermophilum
47Lf60S ribosomal protein l33-like proteinpolymer10912330.31UniProt (G0SCL3)
Pfam (PF01247)
In PDB		Chaetomium thermophilum
48Lhdolichyl-diphosphooligosaccharide--protein glycotransferasepolymer935105169.21UniProt (G0S0D7)
Pfam (PF00831)
Pfam (PF02516)
Pfam (PF21436)
In PDB		Chaetomium thermophilum
49Li60S ribosomal protein L36polymer11012784.11UniProt (G0SBN1)
Pfam (PF01158)
In PDB		Chaetomium thermophilum
50LjRibosomal protein L37polymer9510660.51UniProt (G0S101)
Pfam (PF01907)
In PDB		Chaetomium thermophilum
51LqRibosomal proteinpolymer21724055.31UniProt (G0S4Z9)
Pfam (PF00687)
In PDB		Chaetomium thermophilum
52CHGUANOSINE-5'-TRIPHOSPHATEnon-polymer523.21Chemie (GTP)
53CQ, LjZINC IONnon-polymer65.42Chemie (ZN)
Sequence modifications
CE: 1 - 598 (UniProt: G0RYU9)
PDBExternal DatabaseDetails
Lys 543-insertion
Ser 544-insertion
Phe 545-insertion
Gly 546-insertion
Phe 547-insertion
Ser 548-insertion
Thr 549-insertion
Pro 550-insertion
Pro 551-insertion
Arg 552-insertion
Val 553-insertion
Asp 554-insertion
Ile 555-insertion
Thr 556-insertion
Leu 557-insertion
Ser 558-insertion
Ala 559-insertion
Ser 560-insertion
Leu 561-insertion
Ser 562-insertion
Arg 563-insertion
Asp 564-insertion
Lys 565-insertion
Lys 566-insertion
Pro 567-insertion
Gln 568-insertion
Gly 569-insertion
Arg 570-insertion
Arg 571-insertion
Ala 572-insertion
Tyr 573-insertion
Gly 574-insertion
Ser 575-insertion
Gln 576-insertion
Pro 577-insertion
Arg 578-insertion
Gln 579-insertion
Gly 580-insertion
Gly 581-insertion
Arg 582-insertion
Tyr 583-insertion
Lys 584-insertion
CF: 1 - 270 (UniProt: G0S616)
PDBExternal DatabaseDetails
Ile 13Thr 13conflict
Thr 139Pro 139conflict
Asn 228Ser 228conflict
Ile 259Met 259conflict
CL: 1 - 558 (UniProt: G0SEW3)
PDBExternal DatabaseDetails
Arg 69Ile 69conflict
LH: 1 - 229 (UniProt: G0S0E5)
PDBExternal DatabaseDetails
-Gly 16deletion
-Thr 17deletion
-Phe 18deletion
-Arg 19deletion
-Lys 20deletion
-Phe 21deletion
-Arg 22deletion
-Arg 23deletion
-Asn 24deletion
-Asp 25deletion
-Tyr 26deletion
-Thr 27deletion
-Phe 28deletion
-Gly 29deletion
-Arg 30deletion
-Thr 31deletion
-Arg 32deletion
-Gly 33deletion
-Arg 34deletion
-Glu 35deletion
-Lys 36deletion
-Lys 37deletion
-Arg 38deletion
-Gly 39deletion
-Thr 40deletion
-Thr 41deletion
-Ser 42deletion
-Ser 43deletion
-Lys 44deletion
-Ile 45deletion
-Gly 46deletion
-Glu 47deletion
-Leu 48deletion
-Asp 49deletion
-Ile 50deletion
-Asn 51deletion
-Gly 52deletion
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains52
Total formula weight3053927.2
Non-Polymers*Number of molecules3
Total formula weight654.0
All*Total formula weight3054581.2
*Water molecules are not included.

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PDB entries from 2024-08-28

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