ISDA: 8YLR

Deposition Date 2024-03-06

Release Date 2024-12-11

Last Version Date 2025-07-02

Entry Detail

PDB ID:

8YLR

Keywords:

RIBOSOME

Title:

State 6 (S6) of yeast 80S ribosome bound to 2 tRNAs and eEF2 and eEF3 during tranlocation

Biological Source:

Source Organism:

Saccharomyces cerevisiae S288C (Taxon ID: 559292)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.90 Å

Aggregation State:

CELL

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:A (auth: 2)
Chain Length:1799
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

Polymer Type:polyribonucleotide
Molecule:25S rRNA
Chain IDs:B (auth: A)
Chain Length:3394
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:C (auth: B)
Chain Length:135
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

Polymer Type:polyribonucleotide
Molecule:5.8S rRNA
Chain IDs:D (auth: C)
Chain Length:158
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL2A
Gene (Uniprot):RPL2A
Chain IDs:E (auth: D)
Chain Length:58
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX45 Pfam ID:PF00181, PF03947

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL3
Gene (Uniprot):RPL3
Chain IDs:DC (auth: E)
Chain Length:96
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P14126 Pfam ID:PF00297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL4A
Gene (Uniprot):RPL4A
Chain IDs:F
Chain Length:361
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P10664 Pfam ID:PF00573, PF14374

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL18
Gene (Uniprot):RPL5
Chain IDs:G
Chain Length:294
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P26321 Pfam ID:PF17144, PF14204

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL6B
Gene (Uniprot):RPL6B
Chain IDs:H
Chain Length:175
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05739 Pfam ID:PF01159

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL30A
Gene (Uniprot):RPL7A
Chain IDs:I
Chain Length:223
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05737 Pfam ID:PF08079, PF00327

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL8A
Gene (Uniprot):RPL8A
Chain IDs:J
Chain Length:233
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P17076 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL6A
Gene (Uniprot):RPL9A
Chain IDs:K
Chain Length:99
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05738 Pfam ID:PF00347

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL16
Gene (Uniprot):RPL10
Chain IDs:L
Chain Length:81
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P41805 Pfam ID:PF00252

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL5B
Gene (Uniprot):RPL11B
Chain IDs:M
Chain Length:169
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q3E757 Pfam ID:PF00281, PF00673

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL13A
Gene (Uniprot):RPL13A
Chain IDs:N
Chain Length:50
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q12690 Pfam ID:PF01294

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL14A
Gene (Uniprot):RPL14A
Chain IDs:O
Chain Length:52
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P36105 Pfam ID:PF00467, PF01929

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL15A
Gene (Uniprot):RPL15A
Chain IDs:P
Chain Length:203
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05748 Pfam ID:PF00827

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL13A
Gene (Uniprot):RPL16A
Chain IDs:Q
Chain Length:197
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P26784 Pfam ID:PF00572

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL22A
Gene (Uniprot):RPL17A
Chain IDs:R
Chain Length:91
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05740 Pfam ID:PF00237

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL18A
Gene (Uniprot):RPL18A
Chain IDs:S
Chain Length:185
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX49 Pfam ID:PF17135

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS3
Gene (Uniprot):RPS3
Chain IDs:WA (auth: SA)
Chain Length:222
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05750 Pfam ID:PF07650, PF00189

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS7
Gene (Uniprot):RPS5
Chain IDs:CC (auth: SB)
Chain Length:206
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P26783 Pfam ID:PF00177

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS10A
Gene (Uniprot):RPS10A
Chain IDs:XA (auth: SC)
Chain Length:92
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q08745 Pfam ID:PF03501

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS12
Gene (Uniprot):RPS12
Chain IDs:YA (auth: SD)
Chain Length:134
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P48589 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS19
Gene (Uniprot):RPS15
Chain IDs:ZA (auth: SE)
Chain Length:117
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q01855 Pfam ID:PF00203

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS9A
Gene (Uniprot):RPS16A
Chain IDs:AB (auth: SF)
Chain Length:81
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX51 Pfam ID:PF00380

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS17A
Gene (Uniprot):RPS17A
Chain IDs:YB (auth: SG)
Chain Length:121
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P02407 Pfam ID:PF00833

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS13A
Gene (Uniprot):RPS18A
Chain IDs:BB (auth: SH)
Chain Length:145
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX55 Pfam ID:PF00416

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS19A
Gene (Uniprot):RPS19A
Chain IDs:CB (auth: SI)
Chain Length:143
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P07280 Pfam ID:PF01090

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS10
Gene (Uniprot):RPS20
Chain IDs:DB (auth: SJ)
Chain Length:100
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P38701 Pfam ID:PF00338

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS25A
Gene (Uniprot):RPS25A
Chain IDs:EB (auth: SK)
Chain Length:108
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q3E792 Pfam ID:PF03297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS28A
Gene (Uniprot):RPS28A
Chain IDs:BC (auth: SL)
Chain Length:63
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q3E7X9 Pfam ID:PF01200

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS14A
Gene (Uniprot):RPS29A
Chain IDs:FB (auth: SM)
Chain Length:53
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P41057 Pfam ID:PF00253

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS31
Gene (Uniprot):RPS31
Chain IDs:GB (auth: SN)
Chain Length:73
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05759 Pfam ID:PF01599

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein RACK1
Gene (Uniprot):ASC1
Chain IDs:HB (auth: SO)
Chain Length:312
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P38011 Pfam ID:PF00400

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS2A
Gene (Uniprot):RPS0A
Chain IDs:ZB (auth: SP)
Chain Length:206
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P32905 Pfam ID:PF00318

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS1A
Gene (Uniprot):RPS1A
Chain IDs:IB (auth: SQ)
Chain Length:232
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P33442 Pfam ID:PF01015

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS5
Gene (Uniprot):RPS2
Chain IDs:LB (auth: SR)
Chain Length:216
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P25443 Pfam ID:PF00333, PF03719

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS4A
Gene (Uniprot):RPS4A
Chain IDs:JB (auth: SS)
Chain Length:258
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX35 Pfam ID:PF08071, PF01479, PF00900, PF00467, PF16121

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS6A
Gene (Uniprot):RPS6A
Chain IDs:KB (auth: ST)
Chain Length:228
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX37 Pfam ID:PF01092

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS7A
Gene (Uniprot):RPS7A
Chain IDs:AC (auth: SU)
Chain Length:184
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P26786 Pfam ID:PF01251

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS8A
Gene (Uniprot):RPS8A
Chain IDs:MB (auth: SV)
Chain Length:200
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX39 Pfam ID:PF01201

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS4A
Gene (Uniprot):RPS9A
Chain IDs:NB (auth: SW)
Chain Length:184
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:O13516 Pfam ID:PF00163, PF01479

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS17A
Gene (Uniprot):RPS11A
Chain IDs:OB (auth: SX)
Chain Length:142
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX47 Pfam ID:PF16205, PF00366

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS15
Gene (Uniprot):RPS13
Chain IDs:PB (auth: SY)
Chain Length:150
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05756 Pfam ID:PF08069, PF00312

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS11B
Gene (Uniprot):RPS14B
Chain IDs:QB (auth: SZ)
Chain Length:127
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P39516 Pfam ID:PF00411

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS21A
Gene (Uniprot):RPS21A
Chain IDs:RB (auth: Sa)
Chain Length:222
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0C0V8 Pfam ID:PF01249

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS8A
Gene (Uniprot):RPS22A
Chain IDs:SB (auth: Sb)
Chain Length:206
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0C0W1 Pfam ID:PF00410

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS12A
Gene (Uniprot):RPS23A
Chain IDs:TB (auth: Sc)
Chain Length:92
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX29 Pfam ID:PF00164

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS24A
Gene (Uniprot):RPS24A
Chain IDs:UB (auth: Sd)
Chain Length:134
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX31 Pfam ID:PF01282

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS26A
Gene (Uniprot):RPS26A
Chain IDs:VB (auth: Se)
Chain Length:117
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P39938 Pfam ID:PF01283

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS27A
Gene (Uniprot):RPS27A
Chain IDs:WB (auth: Sf)
Chain Length:81
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P35997 Pfam ID:PF01667

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS30A
Gene (Uniprot):RPS30A
Chain IDs:XB (auth: Sg)
Chain Length:121
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX33 Pfam ID:PF04758

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL19A
Gene (Uniprot):RPL19A
Chain IDs:T
Chain Length:188
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX82 Pfam ID:PF01280

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL20A
Gene (Uniprot):RPL20A
Chain IDs:U
Chain Length:171
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX23 Pfam ID:PF01775

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL21A
Gene (Uniprot):RPL21A
Chain IDs:V
Chain Length:159
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:Q02753 Pfam ID:PF01157

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL22A
Gene (Uniprot):RPL22A
Chain IDs:W
Chain Length:100
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05749 Pfam ID:PF01776

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL14A
Gene (Uniprot):RPL23A
Chain IDs:X
Chain Length:136
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX41 Pfam ID:PF00238

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL24A
Gene (Uniprot):RPL24A
Chain IDs:Y
Chain Length:126
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P04449 Pfam ID:PF01246

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL23
Gene (Uniprot):RPL25
Chain IDs:Z
Chain Length:121
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P04456 Pfam ID:PF03939, PF00276

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24A
Gene (Uniprot):RPL26A
Chain IDs:AA (auth: a)
Chain Length:3394
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05743 Pfam ID:PF00467, PF16906

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL27A
Gene (Uniprot):RPL27A
Chain IDs:BA (auth: b)
Chain Length:135
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0C2H6 Pfam ID:PF01777

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL15
Gene (Uniprot):RPL28
Chain IDs:CA (auth: c)
Chain Length:158
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P02406 Pfam ID:PF00828

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL29
Gene (Uniprot):RPL29
Chain IDs:DA (auth: d)
Chain Length:58
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05747 Pfam ID:PF01779

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL30
Gene (Uniprot):RPL30
Chain IDs:EA (auth: e)
Chain Length:96
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P14120 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL31A
Gene (Uniprot):RPL31A
Chain IDs:FA (auth: f)
Chain Length:361
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0C2H8 Pfam ID:PF01198

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL32
Gene (Uniprot):RPL32
Chain IDs:GA (auth: g)
Chain Length:294
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P38061 Pfam ID:PF01655

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL33A
Gene (Uniprot):RPL33A
Chain IDs:HA (auth: h)
Chain Length:175
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05744 Pfam ID:PF01247

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL34A
Gene (Uniprot):RPL34A
Chain IDs:IA (auth: i)
Chain Length:223
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P87262 Pfam ID:PF01199

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL29A
Gene (Uniprot):RPL35A
Chain IDs:JA (auth: j)
Chain Length:233
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX84 Pfam ID:PF00831

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL36A
Gene (Uniprot):RPL36A
Chain IDs:KA (auth: k)
Chain Length:99
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P05745 Pfam ID:PF01158

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL37A
Gene (Uniprot):RPL37A
Chain IDs:LA (auth: l)
Chain Length:81
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P49166 Pfam ID:PF01907

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL38
Gene (Uniprot):RPL38
Chain IDs:MA (auth: m)
Chain Length:169
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P49167 Pfam ID:PF01781

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL39
Gene (Uniprot):RPL39
Chain IDs:NA (auth: n)
Chain Length:50
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P04650 Pfam ID:PF00832

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL40A
Gene (Uniprot):RPL40A
Chain IDs:OA (auth: o)
Chain Length:52
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CH08 Pfam ID:PF01020

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL41A
Gene (Uniprot):RPL41A
Chain IDs:PA (auth: p)
Chain Length:203
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX86 Pfam ID:PF05162

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL42A
Gene (Uniprot):RPL42A
Chain IDs:QA (auth: q)
Chain Length:197
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX27 Pfam ID:PF00935

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL43A
Gene (Uniprot):RPL43A
Chain IDs:RA (auth: r)
Chain Length:91
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P0CX25 Pfam ID:PF01780

Polymer Type:polyribonucleotide
Molecule:tRNA
Chain IDs:SA (auth: t), TA (auth: u)
Chain Length:188
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae S288C

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Elongation factor 3A
Gene (Uniprot):YEF3
Chain IDs:UA (auth: v)
Chain Length:159
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P16521 Pfam ID:PF17947, PF00005

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Elongation factor 2
Gene (Uniprot):EFT1, EFT2
Chain IDs:VA (auth: x)
Chain Length:136
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C

UniProt ID:P32324 Pfam ID:PF00009, PF03144, PF14492, PF03764, PF00679

Ligand Molecules

Primary Citation

Capturing eukaryotic ribosome dynamics in situ at high resolution.

Cheng, J, Wu, C, Li, J, Yang, Q, Zhao, M, Zhang, X.Show

Nat.Struct.Mol.Biol. 32 698 708 (2025)

PMID: 39789210 DOI: 10.1038/s41594-024-01454-9

Abstact

Many protein complexes are highly dynamic in cells; thus, characterizing their conformational changes in cells is crucial for unraveling their functions. Here, using cryo-electron microscopy, 451,700 ribosome particles from Saccharomyces cerevisiae cell lamellae were obtained to solve the 60S region to 2.9-Å resolution by in situ single-particle analysis. Over 20 distinct conformations were identified by three-dimensional classification with resolutions typically higher than 4 Å. These conformations were used to reconstruct a complete elongation cycle of eukaryotic translation with elongation factors (eEFs). We found that compact eEF2 anchors to the partially rotated ribosome after subunit rolling and hypothesize that it stabilizes the local conformation for peptidyl transfer. Moreover, open-eEF3 binding to a fully rotated ribosome was observed, whose conformational change was coupled with head swiveling and body back-rotation of the 40S subunit.

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Primary Citation of related structures

Abstact

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