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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5Z3G

Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP)

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A25S rRNApolymer33961097493.91GenBank (834774822)Saccharomyces cerevisiae (Baker's yeast)
2B5.8S rRNApolymer15850682.91GenBank (1267176494)Saccharomyces cerevisiae (Baker's yeast)
3CITS2 RNApolymer23274308.41GenBank (1104417410)Saccharomyces cerevisiae (Baker's yeast)
4DRibosome biogenesis protein RLP7polymer32236621.11UniProt (P40693)
Pfam (PF00327)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Ribosomal protein L7-like
5ERibosome biogenesis protein 15polymer22025499.21UniProt (P53927)
Pfam (PF00076)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Nucleolar protein 15
6F60S ribosomal protein L3polymer38743850.81UniProt (P14126)
Pfam (PF00297)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1
7G60S ribosomal protein L4-Apolymer36239159.11UniProt (P10664)
Pfam (PF00573)
Pfam (PF14374)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L2,Large ribosomal subunit protein uL4-A,RP2,YL2
8HProteasome-interacting protein CIC1polymer37642596.71UniProt (P38779)
Pfam (PF00687)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Core interacting component 1
9I60S ribosomal protein L6-Apolymer17620000.61UniProt (Q02326)
Pfam (PF01159)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L17,Large ribosomal subunit protein eL6-A,RP18,YL16
10J60S ribosomal protein L7-Apolymer24427686.31UniProt (P05737)
Pfam (PF08079)
Pfam (PF00327)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L6,Large ribosomal subunit protein uL30-A,RP11,YL8
11K60S ribosomal protein L8-Apolymer25628175.81UniProt (P17076)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5
12L60S ribosomal protein L9-Apolymer19121605.11UniProt (P05738)
Pfam (PF00347)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L8,Large ribosomal subunit protein uL6-A,RP24,YL11
13MNucleolar protein 7polymer60569984.11UniProt (P53261)
Pfam (PF06732)
Pfam (PF16589)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Pescadillo homolog,Ribosomal RNA-processing protein 13
14NEukaryotic translation initiation factor 6polymer24526476.61UniProt (Q12522)
Pfam (PF01912)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)eIF-6
15ORibosome production factor 1polymer29535184.41UniProt (P38805)
Pfam (PF04427)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Ribosome biogenesis protein RPF1
16P60S ribosomal protein L13-Apolymer19922604.21UniProt (Q12690)
Pfam (PF01294)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL13-A
17Q60S ribosomal protein L14-Apolymer13815195.11UniProt (P36105)
Pfam (PF00467)
Pfam (PF01929)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL14-A
18R60S ribosomal protein L15-Apolymer20424482.41UniProt (P05748)
Pfam (PF00827)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18
19S60S ribosomal protein L16-Apolymer19922247.21UniProt (P26784)
Pfam (PF00572)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15
20T60S ribosomal protein L17-Apolymer18420589.51UniProt (P05740)
Pfam (PF00237)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L20A,Large ribosomal subunit protein uL22-A,YL17
21U60S ribosomal protein L18-Apolymer18620609.31UniProt (P0CX49)
Pfam (PF17135)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL18-A,RP28
22VRibosome biogenesis protein NSA1polymer46351982.51UniProt (P53136)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)NOP7-associated protein 1
23W60S ribosomal protein L20-Apolymer17220478.91UniProt (P0CX23)
Pfam (PF01775)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L18a,Large ribosomal subunit protein eL20-A
24XRibosomal RNA-processing protein 1polymer27833250.51UniProt (P35178)
Pfam (PF05997)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)
25YATP-dependent RNA helicase HAS1polymer50556798.31UniProt (Q03532)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF13959)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Helicase associated with SET1 protein 1
26ZProtein MAK16polymer30635754.61UniProt (P10962)
Pfam (PF01778)
Pfam (PF04874)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Maintenance of killer protein 16
27aRibosome biogenesis protein BRX1polymer29133585.41UniProt (Q08235)
Pfam (PF04427)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)
28brRNA-processing protein EBP2polymer42749842.61UniProt (P36049)
Pfam (PF05890)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)EBNA1-binding protein homolog
29c60S ribosomal protein L26-Apolymer12714265.81UniProt (P05743)
Pfam (PF16906)
Pfam (PF00467)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L33,Large ribosomal subunit protein uL24-A,YL33
30dUnassignedpolymer15413124.21Saccharomyces cerevisiae (Baker's yeast)
31i60S ribosomal protein L32polymer13014809.41UniProt (P38061)
Pfam (PF01655)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL32
32j60S ribosomal protein L33-Apolymer10712177.11UniProt (P05744)
Pfam (PF01247)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L37,Large ribosomal subunit protein eL33-A,RP47,YL37
33l60S ribosomal protein L35-Apolymer12013942.61UniProt (P0CX84)
Pfam (PF00831)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein uL29-A
34m60S ribosomal protein L36-Apolymer10011151.31UniProt (P05745)
Pfam (PF01158)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L39,Large ribosomal subunit protein eL36-A,YL39
35n60S ribosomal protein L37-Apolymer889877.41UniProt (P49166)
Pfam (PF01907)
In PDB		Saccharomyces cerevisiae S288c (Baker's yeast)L43,Large ribosomal subunit protein eL37-A,YL35,YP55
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains35
Total formula weight2136093.1
All*Total formula weight2136093.1
*Water molecules are not included.

224572

PDB entries from 2024-09-04

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