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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6TB3

yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complex

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
12Saccharomyces cerevisiae S288C 18S ribosomal RNA (RDN18-1), rRNApolymer1798579126.61GenBank (1329886537)Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
2lmRNApolymer3935.61Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
3P40S ribosomal protein S0-Apolymer20622811.11UniProt (P32905)
Pfam (PF00318)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Nucleic acid-binding protein NAB1A,Small ribosomal subunit protein uS2-A
4Q40S ribosomal protein S1-Apolymer23226314.71UniProt (P33442)
Pfam (PF01015)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP10A,Small ribosomal subunit protein eS1-A
5E40S ribosomal protein S15polymer11713265.61UniProt (Q01855)
Pfam (PF00203)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RIG protein,RP52,S21,Small ribosomal subunit protein uS19,YS21
6R40S ribosomal protein S2polymer21623084.81UniProt (P25443)
Pfam (PF00333)
Pfam (PF03719)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Omnipotent suppressor protein SUP44,RP12,S4,Small ribosomal subunit protein uS5,YS5
7A40S ribosomal protein S3polymer22224631.71UniProt (P05750)
Pfam (PF07650)
Pfam (PF00189)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP13,Small ribosomal subunit protein uS3,YS3
8S40S ribosomal protein S4-Apolymer25829167.91UniProt (P0CX35)
Pfam (PF08071)
Pfam (PF01479)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP5,S7,Small ribosomal subunit protein eS4-A,YS6
9B40S ribosomal protein S5polymer20622908.31Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
10T40S ribosomal protein S6-Apolymer22826181.41UniProt (P0CX37)
Pfam (PF01092)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP9,S10,Small ribosomal subunit protein eS6-A,YS4
11U40S ribosomal protein S7-Apolymer18421000.51UniProt (P26786)
Pfam (PF01251)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP30,RP40,Small ribosomal subunit protein eS7-A
12V40S ribosomal protein S8polymer18721018.01UniProt (A0A0J9X221)
Pfam (PF01201)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
13W40S ribosomal protein S9-Apolymer18421081.51UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11
14C40S ribosomal protein S10-Apolymer9211042.61UniProt (Q08745)
Pfam (PF03501)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein eS10-A
15X40S ribosomal protein S11-Apolymer14216272.11UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP41,S18,Small ribosomal subunit protein uS17-A,YS12
16D40S ribosomal protein S12polymer12113028.01UniProt (P48589)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein eS12
17Y40S ribosomal protein S13polymer15016928.71UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S27a,Small ribosomal subunit protein uS15,YS15
18Z40S ribosomal protein S14-Bpolymer12713446.41UniProt (P39516)
Pfam (PF00411)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP59B,Small ribosomal subunit protein uS11-B
19F40S ribosomal protein S16-Apolymer14115659.21UniProt (P0CX51)
Pfam (PF00380)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP61R,Small ribosomal subunit protein uS9-A
20G40S ribosomal protein S17-Bpolymer12514268.51UniProt (P14127)
Pfam (PF00833)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP51B,Small ribosomal subunit protein eS17-B
21H40S ribosomal protein S18-Apolymer14516940.41UniProt (P0CX55)
Pfam (PF00416)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein uS13-A
22I40S ribosomal protein S19-Apolymer14315810.91UniProt (P07280)
Pfam (PF01090)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A
23J40S ribosomal protein S20polymer10011363.31UniProt (P38701)
Pfam (PF00338)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein uS10
24ntRNApolymer7524487.81Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
25a40S ribosomal protein S21-Apolymer879758.81UniProt (P0C0V8)
Pfam (PF01249)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S26,Small ribosomal subunit protein eS21-A,YS25
26b40S ribosomal protein S22-Apolymer12914518.91UniProt (P0C0W1)
Pfam (PF00410)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22
27c40S ribosomal protein S23-Apolymer14415942.71UniProt (P0CX29)
Pfam (PF00164)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP37,S28,Small ribosomal subunit protein uS12-A,YS14
28d40S ribosomal protein S24-Apolymer13415231.61UniProt (P0CX31)
Pfam (PF01282)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP50,Small ribosomal subunit protein eS24-A
29K40S ribosomal protein S25-Apolymer829540.31UniProt (Q3E792)
Pfam (PF03297)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP45,S31,Small ribosomal subunit protein eS25-A,YS23
30e40S ribosomal protein S26-Bpolymer9711023.01UniProt (P39939)
Pfam (PF01283)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein eS26-B
31f40S ribosomal protein S27-Apolymer818762.21UniProt (P35997)
Pfam (PF01667)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP61,Small ribosomal subunit protein eS27-A,YS20
32M40S ribosomal protein S29-Apolymer536335.31UniProt (P41057)
Pfam (PF00253)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S36,Small ribosomal subunit protein uS14-A,YS29
33g40S ribosomal protein S30-Apolymer606779.11UniProt (P0CX33)
Pfam (PF04758)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein eS30-A
34NUbiquitin-40S ribosomal protein S31polymer738329.91UniProt (P05759)
Pfam (PF01599)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
35OGuanine nucleotide-binding protein subunit beta-like proteinpolymer31234151.51UniProt (P38011)
Pfam (PF00400)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Receptor for activated C kinase,Receptor of activated protein kinase C 1,RACK1,Small ribosomal subunit protein RACK1
36L40S ribosomal protein S28-Apolymer637116.31UniProt (Q3E7X9)
Pfam (PF01200)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S33,Small ribosomal subunit protein eS28-A,YS27
37BQ25S rRNApolymer32231041699.41Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
38BT60S ribosomal protein L1-Apolymer20422974.01UniProt (P0CX43)
Pfam (PF00687)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L10a,Large ribosomal subunit protein uL1-A
39BR5S rRNApolymer12138951.11GenBank (834774822)Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
40BS5.8S rRNApolymer15850682.91GenBank (940534893)Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
41AW60S ribosomal protein L2-Apolymer25127089.21UniProt (P0CX45)
Pfam (PF00181)
Pfam (PF03947)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L5,Large ribosomal subunit protein uL2-A,RP8,YL6
42BA60S ribosomal protein L3polymer38643719.61UniProt (P14126)
Pfam (PF00297)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1
43BE60S ribosomal protein L4-Apolymer36139027.91UniProt (P10664)
Pfam (PF00573)
Pfam (PF14374)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L2,Large ribosomal subunit protein uL4-A,RP2,YL2
44BI60S ribosomal protein L5polymer29433415.41UniProt (P26321)
Pfam (PF17144)
Pfam (PF14204)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L1,L1a,Large ribosomal subunit protein uL18,Ribosomal 5S RNA-binding protein,YL3
45BM60S ribosomal protein L6-Bpolymer17519893.31UniProt (P05739)
Pfam (PF01159)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L17,Large ribosomal subunit protein eL6-B,RP18,YL16
46BO60S ribosomal protein L7-Apolymer22225240.41UniProt (P05737)
Pfam (PF08079)
Pfam (PF00327)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L6,Large ribosomal subunit protein uL30-A,RP11,YL8
47AA60S ribosomal protein L8-Apolymer23325815.01UniProt (P17076)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5
48AD60S ribosomal protein L9-Apolymer19121605.11UniProt (P05738)
Pfam (PF00347)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L8,Large ribosomal subunit protein uL6-A,RP24,YL11
49BD60S ribosomal protein L10polymer21825080.11UniProt (P41805)
Pfam (PF00252)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L9,Large ribosomal subunit protein uL16,Ubiquinol-cytochrome C reductase complex subunit VI-requiring protein
50AG60S ribosomal protein L11-Bpolymer16919266.11UniProt (Q3E757)
Pfam (PF00281)
Pfam (PF00673)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L16,Large ribosomal subunit protein uL5-B,RP39,YL22
51AJ60S ribosomal protein L13-Apolymer19321885.21UniProt (Q12690)
Pfam (PF01294)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL13-A
52AM60S ribosomal protein L14-Apolymer13614976.81UniProt (P36105)
Pfam (PF00467)
Pfam (PF01929)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL14-A
53AQ60S ribosomal protein L15-Apolymer20324351.21UniProt (P05748)
Pfam (PF00827)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18
54AU60S ribosomal protein L16-Apolymer19722029.01UniProt (P26784)
Pfam (PF00572)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15
55AX60S ribosomal protein L17-Apolymer18320458.31UniProt (P05740)
Pfam (PF00237)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L20A,Large ribosomal subunit protein uL22-A,YL17
56BB60S ribosomal protein L18-Apolymer18520478.11UniProt (P0CX49)
Pfam (PF17135)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL18-A,RP28
57BF60S ribosomal protein L19-Apolymer18821631.11UniProt (P0CX82)
Pfam (PF01280)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14
58BH60S ribosomal protein L20-Apolymer17120347.71UniProt (P0CX23)
Pfam (PF01775)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L18a,Large ribosomal subunit protein eL20-A
59BJ60S ribosomal protein L21-Apolymer15918148.11UniProt (Q02753)
Pfam (PF01157)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL21-A
60BL60S ribosomal protein L22-Apolymer10011263.91UniProt (P05749)
Pfam (PF01776)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L1c,Large ribosomal subunit protein eL22-A,RP4,YL31
61AB60S ribosomal protein L23-Apolymer13614362.81UniProt (P0CX41)
Pfam (PF00238)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L17a,Large ribosomal subunit protein uL14-A,YL32
62AE60S ribosomal protein L24-Apolymer12614645.31UniProt (P04449)
Pfam (PF01246)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L30,Large ribosomal subunit protein eL24-A,RP29,YL21
63AH60S ribosomal protein L25polymer12113771.21UniProt (P04456)
Pfam (PF03939)
Pfam (PF00276)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein uL23,RP16L,YL25,YP42'
64AK60S ribosomal protein L26-Apolymer12514005.51UniProt (P05743)
Pfam (PF16906)
Pfam (PF00467)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L33,Large ribosomal subunit protein uL24-A,YL33
65AN60S ribosomal protein L27-Apolymer13515437.21UniProt (P0C2H6)
Pfam (PF01777)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL27-A
66AR60S ribosomal protein L28polymer14816630.51UniProt (P02406)
Pfam (PF00828)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L27a,L29,Large ribosomal subunit protein uL15,RP44,RP62,YL24
67AV60S ribosomal protein L29polymer586560.71UniProt (P05747)
Pfam (PF01779)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL29,YL43
68AY60S ribosomal protein L30polymer9610487.31UniProt (P14120)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L32,Large ribosomal subunit protein eL30,RP73,YL38
69BC60S ribosomal protein L31-Apolymer10912649.81UniProt (P0C2H8)
Pfam (PF01198)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L34,Large ribosomal subunit protein eL31-A,YL28
70BG60S ribosomal protein L32polymer12714478.11UniProt (P38061)
Pfam (PF01655)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL32
71BK60S ribosomal protein L33-Apolymer10612045.91UniProt (P05744)
Pfam (PF01247)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L37,Large ribosomal subunit protein eL33-A,RP47,YL37
72BN60S ribosomal protein L34-Apolymer11212608.81UniProt (P87262)
Pfam (PF01199)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL34-A
73BP60S ribosomal protein L35-Apolymer11913811.41UniProt (P0CX84)
Pfam (PF00831)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein uL29-A
74AC60S ribosomal protein L36-Apolymer9911020.11UniProt (P05745)
Pfam (PF01158)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L39,Large ribosomal subunit protein eL36-A,YL39
75AF60S ribosomal protein L37-Apolymer819229.61UniProt (P49166)
Pfam (PF01907)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L43,Large ribosomal subunit protein eL37-A,YL35,YP55
76AI60S ribosomal protein L38polymer778714.41UniProt (P49167)
Pfam (PF01781)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Large ribosomal subunit protein eL38
77AL60S ribosomal protein L39polymer506227.41UniProt (P04650)
Pfam (PF00832)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L46,Large ribosomal subunit protein eL39,YL40
78AOUbiquitin-60S ribosomal protein L40polymer526032.31UniProt (P0CH08)
Pfam (PF01020)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
79AS60S ribosomal protein L41-Bpolymer253354.21UniProt (P0CX87)
Pfam (PF05162)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L47,Large ribosomal subunit protein eL41-B,YL41
80AP60S ribosomal protein L42-Apolymer10311840.21UniProt (P0CX27)
Pfam (PF00935)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L41,Large ribosomal subunit protein eL42-A,YL27,YP44
81AT60S ribosomal protein L43-Apolymer919981.81UniProt (P0CX25)
Pfam (PF01780)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)L37a,Large ribosomal subunit protein eL43-A,YL35
82BV60S ribosomal protein L41-Apolymer222980.81Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
83BWGeneral negative regulator of transcription subunit 5polymer11213438.41UniProt (Q12514)
Pfam (PF04065)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
842, BQ, BR, AW, BA...MAGNESIUM IONnon-polymer24.3327Chemie (MG)
85AP, AT, M, N, BN...ZINC IONnon-polymer65.47Chemie (ZN)
86BQSPERMIDINEnon-polymer145.21Chemie (SPD)
Sequence modifications
N: 80 - 152 (UniProt: P05759)
PDBExternal DatabaseDetails
Ala 97Lys 97conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains83
Total formula weight3032607.8
Non-Polymers*Number of molecules335
Total formula weight8550.8
All*Total formula weight3041158.6
*Water molecules are not included.

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PDB entries from 2024-07-17

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