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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

7NAC

State E2 nucleolar 60S ribosomal biogenesis intermediate - Composite model

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1125S rRNApolymer33961097574.91Saccharomyces cerevisiae BY4741
225.8S rRNApolymer15850682.91Saccharomyces cerevisiae BY4741
3760S ribosomal subunit assembly/export protein LOC1polymer20423652.61UniProt (P43586)
In PDB		Saccharomyces cerevisiae BY4741Localization of ASH1 mRNA protein 1
4ARibosome biogenesis protein BRX1polymer29133585.41UniProt (Q08235)
Pfam (PF04427)
In PDB		Saccharomyces cerevisiae BY4741
5B60S 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
6C60S ribosomal protein L4-Apolymer36239159.11UniProt (P10664)
Pfam (PF00573)
Pfam (PF14374)
In PDB		Saccharomyces cerevisiae BY4741L2,Large ribosomal subunit protein uL4-A,RP2,YL2
7E60S ribosomal protein L6-Apolymer17620000.61UniProt (Q02326)
Pfam (PF01159)
In PDB		Saccharomyces cerevisiae BY4741L17,Large ribosomal subunit protein eL6-A,RP18,YL16
8F60S ribosomal protein L7-Apolymer24427686.31UniProt (P05737)
Pfam (PF08079)
Pfam (PF00327)
In PDB		Saccharomyces cerevisiae BY4741L6,Large ribosomal subunit protein uL30-A,RP11,YL8
9H60S ribosomal protein L9-Apolymer19121605.11UniProt (P05738)
Pfam (PF00347)
In PDB		Saccharomyces cerevisiae BY4741L8,Large ribosomal subunit protein uL6-A,RP24,YL11
10JrRNA-processing protein EBP2polymer42749842.61UniProt (P36049)
Pfam (PF05890)
In PDB		Saccharomyces cerevisiae BY4741EBNA1-binding protein homolog
11L60S ribosomal protein L13-Apolymer19922604.21UniProt (Q12690)
Pfam (PF01294)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL13-A
12M60S ribosomal protein L14-Apolymer13815195.11UniProt (P36105)
Pfam (PF00467)
Pfam (PF01929)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL14-A
13N60S ribosomal protein L15-Apolymer20424482.41UniProt (P05748)
Pfam (PF00827)
In PDB		Saccharomyces cerevisiae BY4741L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18
14O60S ribosomal protein L16-Apolymer19922247.21UniProt (P26784)
Pfam (PF00572)
In PDB		Saccharomyces cerevisiae BY4741L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15
15P60S ribosomal protein L17-Apolymer18420589.51UniProt (P05740)
Pfam (PF00237)
In PDB		Saccharomyces cerevisiae BY4741L20A,Large ribosomal subunit protein uL22-A,YL17
16Q60S ribosomal protein L18-Apolymer18620609.31UniProt (P0CX49)
Pfam (PF17135)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL18-A,RP28
17S60S ribosomal protein L20-Apolymer17220478.91UniProt (P0CX23)
Pfam (PF01775)
In PDB		Saccharomyces cerevisiae BY4741L18a,Large ribosomal subunit protein eL20-A
18T60S ribosomal protein L21-Apolymer16018279.31UniProt (Q02753)
Pfam (PF01157)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL21-A
19WRibosome assembly factor MRT4polymer23627098.01UniProt (P33201)
Pfam (PF00466)
Pfam (PF17777)
In PDB		Saccharomyces cerevisiae BY4741mRNA turnover protein 4
20X60S ribosomal protein L25polymer14215787.61UniProt (P04456)
Pfam (PF03939)
Pfam (PF00276)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein uL23,RP16L,YL25,YP42'
21Y60S ribosomal protein L26-Apolymer12714265.81UniProt (P05743)
Pfam (PF16906)
Pfam (PF00467)
In PDB		Saccharomyces cerevisiae BY4741L33,Large ribosomal subunit protein uL24-A,YL33
22bNucleolar GTP-binding protein 1polymer64774531.21UniProt (Q02892)
Pfam (PF17835)
Pfam (PF06858)
Pfam (PF08155)
In PDB		Saccharomyces cerevisiae BY4741
23d60S ribosomal protein L31-Apolymer11312980.21UniProt (P0C2H8)
Pfam (PF01198)
In PDB		Saccharomyces cerevisiae BY4741L34,Large ribosomal subunit protein eL31-A,YL28
24e60S ribosomal protein L32polymer13014809.41UniProt (P38061)
Pfam (PF01655)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL32
25f60S ribosomal protein L33-Apolymer10712177.11UniProt (P05744)
Pfam (PF01247)
In PDB		Saccharomyces cerevisiae BY4741L37,Large ribosomal subunit protein eL33-A,RP47,YL37
26h60S ribosomal protein L35-Apolymer12013942.61UniProt (P0CX84)
Pfam (PF00831)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein uL29-A
27i60S ribosomal protein L36-Apolymer10011151.31UniProt (P05745)
Pfam (PF01158)
In PDB		Saccharomyces cerevisiae BY4741L39,Large ribosomal subunit protein eL36-A,YL39
28j60S ribosomal protein L37-Apolymer889877.41UniProt (P49166)
Pfam (PF01907)
In PDB		Saccharomyces cerevisiae BY4741L43,Large ribosomal subunit protein eL37-A,YL35,YP55
29l60S ribosome subunit biogenesis protein NIP7polymer18120411.71UniProt (Q08962)
Pfam (PF17833)
Pfam (PF03657)
In PDB		Saccharomyces cerevisiae BY4741Nuclear import protein 7
30mRibosome biogenesis protein ERB1polymer80791772.61UniProt (Q04660)
Pfam (PF08145)
Pfam (PF00400)
In PDB		Saccharomyces cerevisiae BY4741Eukaryotic ribosome biogenesis protein 1
31q25S rRNA (cytosine(2870)-C(5))-methyltransferasepolymer61869912.21UniProt (P40991)
Pfam (PF17125)
Pfam (PF01189)
In PDB		Saccharomyces cerevisiae BY4741Nucleolar protein 2
32rRibosome biogenesis protein NSA2polymer26129786.81UniProt (A6ZR80)
Pfam (PF01201)
UniProt (by SIFTS) (P40078)
In PDB		Saccharomyces cerevisiae BY4741NOP7-associated protein 2
33sNuclear GTP-binding protein NUG1polymer52057798.71UniProt (P40010)
Pfam (PF08701)
Pfam (PF01926)
In PDB		Saccharomyces cerevisiae BY4741Nuclear GTPase 1
34uRibosome biogenesis protein RLP24polymer19924027.71UniProt (Q07915)
Pfam (PF01246)
In PDB		Saccharomyces cerevisiae BY4741Ribosomal protein L24-like
35vNucleolar protein 16polymer23126954.41UniProt (P40007)
Pfam (PF09420)
In PDB		Saccharomyces cerevisiae BY4741
36yEukaryotic translation initiation factor 6polymer24526476.61UniProt (Q12522)
Pfam (PF01912)
In PDB		Saccharomyces cerevisiae BY4741eIF-6
37zUPF0642 protein YBL028Cpolymer10612435.41UniProt (P38202)
Pfam (PF10338)
In PDB		Saccharomyces cerevisiae BY4741
388NOC2 isoform 1polymer71081719.31UniProt (A0A8H4BX61)
Pfam (PF03715)
UniProt (by SIFTS) (P39744)
In PDB		Saccharomyces cerevisiae BY4741
39INucleolar complex-associated protein 3polymer66375689.01UniProt (Q07896)
Pfam (PF07540)
Pfam (PF03914)
In PDB		Saccharomyces cerevisiae BY4741
40KProteasome-interacting protein CIC1polymer37642596.71UniProt (P38779)
Pfam (PF00687)
In PDB		Saccharomyces cerevisiae BY4741Core interacting component 1
41V60S ribosomal protein L23-Apolymer13714494.01UniProt (P0CX41)
Pfam (PF00238)
In PDB		Saccharomyces cerevisiae BY4741L17a,Large ribosomal subunit protein uL14-A,YL32
42R60S ribosomal protein L19-Apolymer18921762.31UniProt (P0CX82)
Pfam (PF01280)
In PDB		Saccharomyces cerevisiae BY4741L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14
43G60S 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
44Z60S ribosomal protein L27-Apolymer13615568.41UniProt (P0C2H6)
Pfam (PF01777)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL27-A
45U60S ribosomal protein L22-Apolymer12113711.41UniProt (P05749)
Pfam (PF01776)
In PDB		Saccharomyces cerevisiae BY4741L1c,Large ribosomal subunit protein eL22-A,RP4,YL31
46c60S ribosomal protein L30polymer10511430.41UniProt (P14120)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae BY4741L32,Large ribosomal subunit protein eL30,RP73,YL38
47g60S ribosomal protein L34-Apolymer12113673.21UniProt (P87262)
Pfam (PF01199)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL34-A
48k60S ribosomal protein L38polymer788845.61UniProt (P49167)
Pfam (PF01781)
In PDB		Saccharomyces cerevisiae BY4741Large ribosomal subunit protein eL38
49nPescadillo homologpolymer60569984.11UniProt (P53261)
Pfam (PF06732)
Pfam (PF16589)
In PDB		Saccharomyces cerevisiae BY4741Nucleolar protein 7,Ribosomal RNA-processing protein 13
50pYTM1 isoform 1polymer46051426.61UniProt (A0A8H4BV53)
Pfam (PF08154)
Pfam (PF00400)
UniProt (by SIFTS) (Q12024)
In PDB		Saccharomyces cerevisiae BY4741
51tRibosome biogenesis protein RLP7polymer32236621.11UniProt (P40693)
Pfam (PF00327)
In PDB		Saccharomyces cerevisiae BY4741Ribosomal protein L7-like
5265.8S ribosomal RNA gene and internal transcribed spacer 2polymer8727786.31Saccharomyces cerevisiae BY4741
53DATP-dependent RNA helicase HAS1polymer50556798.31UniProt (Q03532)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF13959)
In PDB		Saccharomyces cerevisiae BY4741Helicase associated with SET1 protein 1
54oRibosome biogenesis protein 15polymer22025499.21UniProt (P53927)
Pfam (PF00076)
In PDB		Saccharomyces cerevisiae BY4741Nucleolar protein 15
55w27S 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
56aRibosomal proteinpolymer21724524.81UniProt (A0A6A5Q2N7)
Pfam (PF00687)
UniProt (by SIFTS) (P0CX43)
In PDB		Saccharomyces cerevisiae BY4741
575RRP17 isoform 1polymer23528032.61UniProt (A0A6A5Q2X9)
Pfam (PF09805)
UniProt (by SIFTS) (Q04031)
In PDB		Saccharomyces cerevisiae BY4741
58xATP-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
59j, gZINC IONnon-polymer65.42Chemie (ZN)
60wS-ADENOSYL-L-HOMOCYSTEINEnon-polymer384.41Chemie (SAH)
Sequence modifications
m: 1 - 807 (UniProt: Q04660)
PDBExternal DatabaseDetails
Ala 551Glu 551conflict
x: 1 - 606 (UniProt: A7A237)
PDBExternal DatabaseDetails
Ala 405Thr 405conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains58
Total formula weight2952810.0
Non-Polymers*Number of molecules3
Total formula weight515.2
All*Total formula weight2953325.2
*Water molecules are not included.

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PDB entries from 2024-06-12

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