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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

7R72

State E1 nucleolar 60S ribosome biogenesis intermediate - Spb4 local model

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1125S rRNApolymer641207253.61Saccharomyces cerevisiae BY4741
225.8S rRNApolymer7223067.61Saccharomyces cerevisiae BY4741
38Nucleolar complex protein 2polymer71081719.31UniProt (P39744)
Pfam (PF03715)
In PDB		Saccharomyces cerevisiae BY4741
4B60S ribosomal protein L3polymer38743850.81UniProt (P14126)
Pfam (PF00297)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1
5G60S ribosomal protein L8-Apolymer25628175.81UniProt (P17076)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae BY4741L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5
6INucleolar complex-associated protein 3polymer66375689.01UniProt (Q07896)
Pfam (PF07540)
Pfam (PF03914)
In PDB		Saccharomyces cerevisiae BY4741
7P60S ribosomal protein L17-Apolymer18420589.51UniProt (P05740)
Pfam (PF00237)
In PDB		Saccharomyces cerevisiae BY4741L20A,Large ribosomal subunit protein uL22-A,YL17
8R60S ribosomal protein L19-Apolymer18921762.31UniProt (P0CX82)
Pfam (PF01280)
In PDB		Saccharomyces cerevisiae BY4741L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14
9U60S ribosomal protein L22-Apolymer12113711.41UniProt (P05749)
Pfam (PF01776)
In PDB		Saccharomyces cerevisiae BY4741L1c,Large ribosomal subunit protein eL22-A,RP4,YL31
10X60S ribosomal protein L25polymer14215787.61UniProt (P04456)
Pfam (PF00276)
Pfam (PF03939)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein uL23,RP16L,YL25,YP42'
11Z60S ribosomal protein L27-Apolymer13615568.41UniProt (P0C2H6)
Pfam (PF01777)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL27-A
12bNucleolar GTP-binding protein 1polymer64774531.21UniProt (Q02892)
Pfam (PF17835)
Pfam (PF06858)
Pfam (PF08155)
In PDB		Saccharomyces cerevisiae BY4741
13c60S ribosomal protein L30polymer10511430.41UniProt (P14120)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae BY4741L32,Large ribosomal subunit protein eL30,RP73,YL38
14d60S ribosomal protein L31-Apolymer11312980.21UniProt (P0C2H8)
Pfam (PF01198)
In PDB		Saccharomyces cerevisiae BY4741L34,Large ribosomal subunit protein eL31-A,YL28
15g60S ribosomal protein L34-Apolymer12113673.21UniProt (P87262)
Pfam (PF01199)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL34-A
16j60S ribosomal protein L37-Apolymer889877.41UniProt (P49166)
Pfam (PF01907)
In PDB		Saccharomyces cerevisiae BY4741L43,Large ribosomal subunit protein eL37-A,YL35,YP55
17k60S ribosomal protein L38polymer788845.61UniProt (P49167)
Pfam (PF01781)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL38
18mRibosome biogenesis protein ERB1polymer42948685.11Pfam (PF00400)
UniProt (by SIFTS) (Q04660)
In PDB		Saccharomyces cerevisiae BY4741
19nPescadillo homologpolymer10412445.71Pfam (PF06732)
UniProt (by SIFTS) (P53261)
In PDB		Saccharomyces cerevisiae BY4741
20pRibosome biogenesis protein YTM1polymer46051440.71UniProt (A6ZPA9)
Pfam (PF08154)
Pfam (PF00400)
UniProt (by SIFTS) (Q12024)
In PDB		Saccharomyces cerevisiae BY4741Microtubule-associated protein YTM1
21tRibosome biogenesis protein RLP7polymer32236621.11UniProt (P40693)
Pfam (PF00327)
In PDB		Saccharomyces cerevisiae BY4741Ribosomal protein L7-like
22uRibosome biogenesis protein RLP24polymer19924027.71UniProt (Q07915)
Pfam (PF01246)
In PDB		Saccharomyces cerevisiae BY4741Ribosomal protein L24-like
23w27S pre-rRNA (guanosine(2922)-2'-O)-methyltransferasepolymer84196656.21UniProt (P25582)
Pfam (PF01728)
Pfam (PF11861)
Pfam (PF07780)
In PDB		Saccharomyces cerevisiae BY47412'-O-ribose RNA methyltransferase SPB1,AdoMet-dependent rRNA methyltransferase SPB1,S-adenosyl-L-methionine-dependent methyltransferase,Suppressor of PAB1 protein 1
24xATP-dependent rRNA helicase SPB4polymer60669492.21UniProt (A7A237)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF13959)
UniProt (by SIFTS) (P25808)
In PDB		Saccharomyces cerevisiae BY4741Suppressor of PAB1 protein 4
25gZINC IONnon-polymer65.41Chemie (ZN)
Sequence modifications
p: 1 - 460 (UniProt: A6ZPA9)
PDBExternal DatabaseDetails
Ala 454Gly 454conflict
x: 1 - 606 (UniProt: A7A237)
PDBExternal DatabaseDetails
Ala 405Thr 405conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains24
Total formula weight1017881.8
Non-Polymers*Number of molecules1
Total formula weight65.4
All*Total formula weight1017947.2
*Water molecules are not included.

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PDB entries from 2024-07-24

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