ISDA: 9PN5

Deposition Date 2025-07-19

Release Date 2026-05-20

Last Version Date 2026-05-20

Entry Detail

PDB ID:

9PN5

Keywords:

RIBOSOME

Title:

Composite map of hypomethylated 80S ribosome treated with hygromycin B

Biological Source:

Source Organism(s):

Saccharomyces cerevisiae BY4741 (Taxon ID: 1247190)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

1.75 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:25S rRNA
Chain IDs:LA (auth: A1)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:MA (auth: A3)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

Polymer Type:polyribonucleotide
Molecule:5.8S rRNA
Chain IDs:NA (auth: A4)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L2-A
Gene (Uniprot):RPL2A
Chain IDs:IA (auth: AA)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX45 Pfam ID:PF00181, PF03947

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL3
Chain IDs:JA (auth: AB)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P14126 Pfam ID:PF00297

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L4-A
Gene (Uniprot):RPL4A
Chain IDs:KA (auth: AC)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P10664 Pfam ID:PF00573, PF14374

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L5
Gene (Uniprot):RPL5
Chain IDs:OA (auth: AD)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P26321 Pfam ID:PF17144, PF14204

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL6A
Chain IDs:PA (auth: AE)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q02326 Pfam ID:PF01159

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7-A
Gene (Uniprot):RPL7A
Chain IDs:QA (auth: AF)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05737 Pfam ID:PF08079, PF00327

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL8A
Chain IDs:RA (auth: AG)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P17076 Pfam ID:PF01248

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL9A
Chain IDs:SA (auth: AH)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05738 Pfam ID:PF00347

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL10
Chain IDs:TA (auth: AI)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P41805 Pfam ID:PF00252

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L11-A
Gene (Uniprot):RPL11A
Chain IDs:UA (auth: AJ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0C0W9 Pfam ID:PF00281, PF00673

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L13-A
Gene (Uniprot):RPL13A
Chain IDs:VA (auth: AL)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q12690 Pfam ID:PF01294

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L14-A
Gene (Uniprot):RPL14A
Chain IDs:WA (auth: AM)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P36105 Pfam ID:PF00467, PF01929

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL15A
Chain IDs:XA (auth: AN)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05748 Pfam ID:PF00827

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL16A
Chain IDs:YA (auth: AO)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P26784 Pfam ID:PF00572

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L17-A
Gene (Uniprot):RPL17A
Chain IDs:ZA (auth: AP)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05740 Pfam ID:PF00237

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18-A
Gene (Uniprot):RPL18A
Chain IDs:AB (auth: AQ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX49 Pfam ID:PF17135

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L19-A
Gene (Uniprot):RPL19A
Chain IDs:BB (auth: AR)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX82 Pfam ID:PF01280, PF25476

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL20A
Chain IDs:CB (auth: AS)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX23 Pfam ID:PF01775

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L21-A
Gene (Uniprot):RPL21A
Chain IDs:DB (auth: AT)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q02753 Pfam ID:PF01157

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L22-A
Gene (Uniprot):RPL22A
Chain IDs:EB (auth: AU)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05749 Pfam ID:PF01776

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L23-A
Gene (Uniprot):RPL23A
Chain IDs:FB (auth: AV)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX41 Pfam ID:PF00238

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL24A
Chain IDs:GB (auth: AW)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P04449 Pfam ID:PF01246

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L25
Gene (Uniprot):RPL25
Chain IDs:HB (auth: AX)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P04456 Pfam ID:PF03939, PF00276

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L26-A
Gene (Uniprot):RPL26A
Chain IDs:IB (auth: AY)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05743 Pfam ID:PF16906, PF00467

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27-A
Gene (Uniprot):RPL27A
Chain IDs:JB (auth: AZ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0C2H6 Pfam ID:PF01777

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L28
Gene (Uniprot):RPL28
Chain IDs:KB (auth: Aa)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P02406 Pfam ID:PF00828

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL29
Chain IDs:LB (auth: Ab)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05747 Pfam ID:PF01779

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L30
Gene (Uniprot):RPL30
Chain IDs:MB (auth: Ac)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P14120 Pfam ID:PF01248

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L31-A
Gene (Uniprot):RPL31A
Chain IDs:NB (auth: Ad)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0C2H8 Pfam ID:PF01198

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L32
Gene (Uniprot):RPL32
Chain IDs:OB (auth: Ae)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P38061 Pfam ID:PF01655

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L33-A
Gene (Uniprot):RPL33A
Chain IDs:PB (auth: Af)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05744 Pfam ID:PF01247

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L34-A
Gene (Uniprot):RPL34A
Chain IDs:QB (auth: Ag)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P87262 Pfam ID:PF01199

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L35-A
Gene (Uniprot):RPL35A
Chain IDs:RB (auth: Ah)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX84 Pfam ID:PF00831

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L36-A
Gene (Uniprot):RPL36A
Chain IDs:SB (auth: Ai)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05745 Pfam ID:PF01158

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L37-A
Gene (Uniprot):RPL37A
Chain IDs:TB (auth: Aj)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P49166 Pfam ID:PF01907

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L38
Gene (Uniprot):RPL38
Chain IDs:UB (auth: Ak)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P49167 Pfam ID:PF01781

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L39
Gene (Uniprot):RPL39
Chain IDs:VB (auth: Al)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P04650 Pfam ID:PF00832

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-ribosomal protein e
Gene (Uniprot):RPL40A
Chain IDs:WB (auth: Am)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CH08 Pfam ID:PF00240, PF01020

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPL41A
Chain IDs:XB (auth: An)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX86 Pfam ID:PF05162

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL42A
Chain IDs:YB (auth: Ao)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX27 Pfam ID:PF00935

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L43-A
Gene (Uniprot):RPL43A
Chain IDs:ZB (auth: Ap)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX25 Pfam ID:PF01780

Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:HA (auth: B5)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS0A
Chain IDs:A (auth: BA)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:B3LI22,P32905 Pfam ID:PF00318

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS1A
Chain IDs:B (auth: BB)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:B3RHV0,P33442 Pfam ID:PF01015

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS2
Chain IDs:C (auth: BC)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P25443 Pfam ID:PF00333, PF03719

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS3
Chain IDs:S (auth: BD)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05750 Pfam ID:PF07650, PF00189

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS4A
Chain IDs:D (auth: BE)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

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

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS5
Chain IDs:T (auth: BF)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P26783 Pfam ID:PF00177

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS6A
Chain IDs:E (auth: BG)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX37 Pfam ID:PF01092

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS7A
Chain IDs:F (auth: BH)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P26786 Pfam ID:PF01251

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS8A
Chain IDs:G (auth: BI)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX39 Pfam ID:PF01201

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS9A
Chain IDs:H (auth: BJ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:O13516 Pfam ID:PF00163, PF01479

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS10A
Chain IDs:U (auth: BK)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q08745 Pfam ID:PF03501

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS11A
Chain IDs:I (auth: BL)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX47 Pfam ID:PF16205, PF00366

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS12
Chain IDs:GA (auth: BM)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P48589 Pfam ID:PF01248

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS13
Chain IDs:J (auth: BN)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05756 Pfam ID:PF08069, PF00312

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS14A
Chain IDs:K (auth: BO)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P06367 Pfam ID:PF00411

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS15
Chain IDs:V (auth: BP)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q01855 Pfam ID:PF00203

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS16A
Chain IDs:W (auth: BQ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX51 Pfam ID:PF00380

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS17A
Chain IDs:X (auth: BR)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P02407 Pfam ID:PF00833

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS18A
Chain IDs:Y (auth: BS)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX55 Pfam ID:PF00416

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS19A
Chain IDs:Z (auth: BT)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P07280 Pfam ID:PF01090

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS20
Chain IDs:AA (auth: BU)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P38701 Pfam ID:PF00338

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS21A
Chain IDs:L (auth: BV)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0C0V8 Pfam ID:PF01249

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS22A
Chain IDs:M (auth: BW)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0C0W1 Pfam ID:PF00410

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS23A
Chain IDs:N (auth: BX)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX29 Pfam ID:PF00164

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS24A
Chain IDs:O (auth: BY)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX31 Pfam ID:PF01282

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS25A
Chain IDs:BA (auth: BZ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q3E792 Pfam ID:PF03297

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS26B
Chain IDs:P (auth: Ba)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P39939 Pfam ID:PF01283

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS27A
Chain IDs:Q (auth: Bb)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P35997 Pfam ID:PF01667

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS28A
Chain IDs:CA (auth: Bc)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:Q3E7X9 Pfam ID:PF01200

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS29A
Chain IDs:DA (auth: Bd)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P41057 Pfam ID:PF00253

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):RPS30A
Chain IDs:R (auth: Be)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P0CX33 Pfam ID:PF04758

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-ribosomal protein e
Gene (Uniprot):RPS31
Chain IDs:FA (auth: Bf)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P05759 Pfam ID:PF00240, PF01599

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit prote
Gene (Uniprot):ASC1
Chain IDs:EA (auth: Bg)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae BY4741

UniProt ID:P38011 Pfam ID:PF00400

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
HIC	JA	HIS	modified residue
PSU	MA	U	modified residue

Ligand Molecules

Primary Citation

2'-O-Methylation maintains ribosome structural and translation integrity.

Zhao, Y, Rai, J, Cohen, L.N, Shu, Y, Xu, C, Goswami, H, Chen, X, Jin, H, Marchand, V, Motorin, Y, Ghalei, H, Li, H.Show

Mol.Cell 86 1495 1510.e7 (2026)

PMID: 41928510 DOI: 10.1016/j.molcel.2026.03.008

Abstact

In eukaryotic ribosomes, approximately 2% of RNA nucleotides undergo 2'-O-methylation, a conserved cellular mechanism thought to be critical for maintaining and regulating translation. Here, we use ribosome profiling, translation assays, proteomics, and high-resolution structural analyses to show that loss of native 2'-O-methylation in yeast ribosomes disproportionally affects the translation of ribosomal protein transcripts, driven by changes in codon usage and recognition of structured RNA. Translation reprogramming by the hypomethylated ribosomes is supported by reduced thermostability and high-resolution evidence of altered ribosomal structures and conformations. Consistent with the roles of the affected proteins in sustaining cellular fitness, hypomethylated ribosomes under stress exhibit a selective loss of downregulated proteins and misassembly associated with methylation loss. Our data provide structural and mechanistic insights into how 2'-O-methylation supports ribosome integrity and mediates cellular stress responses.

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Protein

Chemical

Disease

Primary Citation of related structures

Abstact

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