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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6Z6J

Cryo-EM structure of yeast Lso2 bound to 80S ribosomes under native condition

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1C218S rRNApolymer1800579761.91GenBank (874346701)Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
2C5Protein LSO2polymer9210523.01UniProt (Q3E772)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Late-annotated small open reading frame 2
3C125S rRNApolymer33961097493.91Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
4C45S rRNApolymer12138951.11GenBank (834774822)Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
5C35.8S rRNApolymer15850682.91GenBank (940534893)Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
6SA40S ribosomal protein S0-Apolymer25228051.31UniProt (P32905)
Pfam (PF00318)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Nucleic acid-binding protein NAB1A,Small ribosomal subunit protein uS2-A
7SB40S ribosomal protein S1-Apolymer25528798.51UniProt (P33442)
Pfam (PF01015)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP10A,Small ribosomal subunit protein eS1-A
8SC40S ribosomal protein S2polymer25427490.81UniProt (P25443)
Pfam (PF00333)
Pfam (PF03719)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Omnipotent suppressor protein SUP44,RP12,S4,Small ribosomal subunit protein uS5,YS5
9SD40S ribosomal protein S3polymer24026542.81UniProt (P05750)
Pfam (PF07650)
Pfam (PF00189)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP13,Small ribosomal subunit protein uS3,YS3
10SE40S ribosomal protein S4-Apolymer26129469.31UniProt (P0CX35)
Pfam (PF08071)
Pfam (PF01479)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP5,S7,Small ribosomal subunit protein eS4-A,YS6
11SF40S ribosomal protein S5polymer22525072.61UniProt (P26783)
Pfam (PF00177)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP14,S2,Small ribosomal subunit protein uS7,YS8
12SG40S ribosomal protein S6-Apolymer23627054.51UniProt (P0CX37)
Pfam (PF01092)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP9,S10,Small ribosomal subunit protein eS6-A,YS4
13SH40S ribosomal protein S7-Apolymer19021658.21UniProt (P26786)
Pfam (PF01251)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP30,RP40,Small ribosomal subunit protein eS7-A
14SI40S ribosomal protein S8-Apolymer20022537.81UniProt (P0CX39)
Pfam (PF01201)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP19,S14,Small ribosomal subunit protein eS8-A,YS9
15SJ40S ribosomal protein S9-Apolymer19722487.91UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11
16SK40S ribosomal protein S10-Apolymer10512757.41UniProt (Q08745)
Pfam (PF03501)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Small ribosomal subunit protein eS10-A
17SL40S ribosomal protein S11-Apolymer15617785.91UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP41,S18,Small ribosomal subunit protein uS17-A,YS12
18SM40S ribosomal protein S12polymer14315488.61UniProt (P48589)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Small ribosomal subunit protein eS12
19SN40S ribosomal protein S13polymer15117059.91UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)S27a,Small ribosomal subunit protein uS15,YS15
20SO40S ribosomal protein S14-Apolymer13714562.71UniProt (P06367)
Pfam (PF00411)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP59A,Small ribosomal subunit protein uS11-A
21SP40S ribosomal protein S15polymer14216031.91UniProt (Q01855)
Pfam (PF00203)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RIG protein,RP52,S21,Small ribosomal subunit protein uS19,YS21
22SQ40S ribosomal protein S16-Apolymer14315877.51UniProt (P0CX51)
Pfam (PF00380)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP61R,Small ribosomal subunit protein uS9-A
23SR40S ribosomal protein S17-Apolymer13615820.41UniProt (P02407)
Pfam (PF00833)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP51A,Small ribosomal subunit protein eS17-A
24SS40S ribosomal protein S18-Apolymer14617071.61UniProt (P0CX55)
Pfam (PF00416)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Small ribosomal subunit protein uS13-A
25ST40S ribosomal protein S19-Apolymer14415942.11UniProt (P07280)
Pfam (PF01090)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A
26SU40S ribosomal protein S20polymer12113929.01UniProt (P38701)
Pfam (PF00338)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Small ribosomal subunit protein uS10
27SV40S ribosomal protein S21-Apolymer879758.81UniProt (P0C0V8)
Pfam (PF01249)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)S26,Small ribosomal subunit protein eS21-A,YS25
28SW40S ribosomal protein S22-Apolymer13014650.11UniProt (P0C0W1)
Pfam (PF00410)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22
29SX40S ribosomal protein S23-Apolymer14516073.91UniProt (P0CX29)
Pfam (PF00164)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP37,S28,Small ribosomal subunit protein uS12-A,YS14
30SY40S ribosomal protein S24-Apolymer13515362.81UniProt (P0CX31)
Pfam (PF01282)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP50,Small ribosomal subunit protein eS24-A
31SZ40S ribosomal protein S25-Apolymer10812067.31UniProt (Q3E792)
Pfam (PF03297)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP45,S31,Small ribosomal subunit protein eS25-A,YS23
32Sa40S ribosomal protein S26-Bpolymer11913480.91UniProt (P39939)
Pfam (PF01283)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Small ribosomal subunit protein eS26-B
33Sb40S ribosomal protein S27-Apolymer828893.41UniProt (P35997)
Pfam (PF01667)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)RP61,Small ribosomal subunit protein eS27-A,YS20
34Sc40S ribosomal protein S28-Apolymer677605.81UniProt (Q3E7X9)
Pfam (PF01200)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)S33,Small ribosomal subunit protein eS28-A,YS27
35Sd40S ribosomal protein S29-Apolymer566675.71UniProt (P41057)
Pfam (PF00253)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)S36,Small ribosomal subunit protein uS14-A,YS29
36Se40S ribosomal protein S30-Apolymer637137.51UniProt (P0CX33)
Pfam (PF04758)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Small ribosomal subunit protein eS30-A
37SfUbiquitin-40S ribosomal protein S31polymer15217254.21UniProt (P05759)
Pfam (PF00240)
Pfam (PF01599)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
38SgGuanine nucleotide-binding protein subunit beta-like proteinpolymer31934841.21UniProt (P38011)
Pfam (PF00400)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Receptor for activated C kinase,Receptor of activated protein kinase C 1,RACK1,Small ribosomal subunit protein RACK1
39LA60S ribosomal protein L2-Apolymer25427463.61UniProt (P0CX45)
Pfam (PF00181)
Pfam (PF03947)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L5,Large ribosomal subunit protein uL2-A,RP8,YL6
40LB60S ribosomal protein L3polymer38743850.81UniProt (P14126)
Pfam (PF00297)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1
41LC60S ribosomal protein L4-Apolymer36239159.11UniProt (P10664)
Pfam (PF00573)
Pfam (PF14374)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L2,Large ribosomal subunit protein uL4-A,RP2,YL2
42LD60S ribosomal protein L5polymer29733764.81UniProt (P26321)
Pfam (PF17144)
Pfam (PF14204)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L1,L1a,Large ribosomal subunit protein uL18,Ribosomal 5S RNA-binding protein,YL3
43LE60S ribosomal protein L6-Apolymer17620000.61UniProt (Q02326)
Pfam (PF01159)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L17,Large ribosomal subunit protein eL6-A,RP18,YL16
44LF60S ribosomal protein L7-Apolymer24427686.31UniProt (P05737)
Pfam (PF00327)
Pfam (PF08079)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L6,Large ribosomal subunit protein uL30-A,RP11,YL8
45LG60S ribosomal protein L8-Apolymer25628175.81UniProt (P17076)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5
46LH60S ribosomal protein L9-Apolymer19121605.11UniProt (P05738)
Pfam (PF00347)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L8,Large ribosomal subunit protein uL6-A,RP24,YL11
47LI60S ribosomal protein L10polymer22125410.51UniProt (P41805)
Pfam (PF00252)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L9,Large ribosomal subunit protein uL16,Ubiquinol-cytochrome C reductase complex subunit VI-requiring protein
48LJ60S ribosomal protein L11-Apolymer17419755.71UniProt (P0C0W9)
Pfam (PF00281)
Pfam (PF00673)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L16,Large ribosomal subunit protein uL5-A,RP39,YL22
49LL60S ribosomal protein L13-Apolymer19922604.21UniProt (Q12690)
Pfam (PF01294)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL13-A
50LM60S ribosomal protein L14-Apolymer13815195.11UniProt (P36105)
Pfam (PF00467)
Pfam (PF01929)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL14-A
51LN60S ribosomal protein L15-Apolymer20424482.41UniProt (P05748)
Pfam (PF00827)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18
52LO60S ribosomal protein L16-Apolymer19922247.21UniProt (P26784)
Pfam (PF00572)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15
53LP60S ribosomal protein L17-Apolymer18420589.51UniProt (P05740)
Pfam (PF00237)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L20A,Large ribosomal subunit protein uL22-A,YL17
54LQ60S ribosomal protein L18-Apolymer18620609.31UniProt (P0CX49)
Pfam (PF17135)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL18-A,RP28
55LR60S ribosomal protein L19-Apolymer18921762.31UniProt (P0CX82)
Pfam (PF01280)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14
56LS60S ribosomal protein L20-Apolymer17220478.91UniProt (P0CX23)
Pfam (PF01775)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L18a,Large ribosomal subunit protein eL20-A
57LT60S ribosomal protein L21-Apolymer16018279.31UniProt (Q02753)
Pfam (PF01157)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL21-A
58LU60S ribosomal protein L22-Apolymer12113711.41UniProt (P05749)
Pfam (PF01776)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L1c,Large ribosomal subunit protein eL22-A,RP4,YL31
59LV60S ribosomal protein L23-Apolymer13714494.01UniProt (P0CX41)
Pfam (PF00238)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L17a,Large ribosomal subunit protein uL14-A,YL32
60LW60S ribosomal protein L24-Apolymer15517661.71UniProt (P04449)
Pfam (PF01246)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L30,Large ribosomal subunit protein eL24-A,RP29,YL21
61LX60S ribosomal protein L25polymer14215787.61UniProt (P04456)
Pfam (PF03939)
Pfam (PF00276)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein uL23,RP16L,YL25,YP42'
62LY60S ribosomal protein L26-Apolymer12714265.81UniProt (P05743)
Pfam (PF16906)
Pfam (PF00467)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L33,Large ribosomal subunit protein uL24-A,YL33
63LZ60S ribosomal protein L27-Apolymer13615568.41UniProt (P0C2H6)
Pfam (PF01777)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL27-A
64La60S ribosomal protein L28polymer14916761.71UniProt (P02406)
Pfam (PF00828)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L27a,L29,Large ribosomal subunit protein uL15,RP44,RP62,YL24
65Lb60S ribosomal protein L29polymer596691.91UniProt (P05747)
Pfam (PF01779)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL29,YL43
66Lc60S ribosomal protein L30polymer10511430.41UniProt (P14120)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L32,Large ribosomal subunit protein eL30,RP73,YL38
67Ld60S ribosomal protein L31-Apolymer11312980.21UniProt (P0C2H8)
Pfam (PF01198)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L34,Large ribosomal subunit protein eL31-A,YL28
68Le60S ribosomal protein L32polymer13014809.41UniProt (P38061)
Pfam (PF01655)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL32
69Lf60S ribosomal protein L33-Apolymer10712177.11UniProt (P05744)
Pfam (PF01247)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L37,Large ribosomal subunit protein eL33-A,RP47,YL37
70Lg60S ribosomal protein L34-Apolymer12113673.21UniProt (P87262)
Pfam (PF01199)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL34-A
71Lh60S ribosomal protein L35-Apolymer12013942.61UniProt (P0CX84)
Pfam (PF00831)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein uL29-A
72Li60S ribosomal protein L36-Apolymer10011151.31UniProt (P05745)
Pfam (PF01158)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L39,Large ribosomal subunit protein eL36-A,YL39
73Lj60S ribosomal protein L37-Apolymer889877.41UniProt (P49166)
Pfam (PF01907)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L43,Large ribosomal subunit protein eL37-A,YL35,YP55
74Lk60S ribosomal protein L38polymer788845.61UniProt (P49167)
Pfam (PF01781)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Large ribosomal subunit protein eL38
75Ll60S ribosomal protein L39polymer516358.61UniProt (P04650)
Pfam (PF00832)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L46,Large ribosomal subunit protein eL39,YL40
76LmUbiquitin-60S ribosomal protein L40polymer12814583.11UniProt (P0CH08)
Pfam (PF00240)
Pfam (PF01020)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
77Ln60S ribosomal protein L41-Bpolymer253354.21UniProt (P0CX87)
Pfam (PF05162)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L47,Large ribosomal subunit protein eL41-B,YL41
78Lo60S ribosomal protein L42-Apolymer10612246.71UniProt (P0CX27)
Pfam (PF00935)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L41,Large ribosomal subunit protein eL42-A,YL27,YP44
79Lp60S ribosomal protein L43-Apolymer9210113.01UniProt (P0CX25)
Pfam (PF01780)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c)L37a,Large ribosomal subunit protein eL43-A,YL35
80C2, Sa, Sb, Sf, Lg...ZINC IONnon-polymer65.49Chemie (ZN)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains79
Total formula weight3116310.8
Non-Polymers*Number of molecules9
Total formula weight588.7
All*Total formula weight3116899.5
*Water molecules are not included.

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PDB entries from 2024-04-24

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