ISDA: 8K82

Deposition Date 2023-07-28

Release Date 2024-07-10

Last Version Date 2024-11-06

Entry Detail

PDB ID:

8K82

Keywords:

RIBOSOME

Title:

Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNA

Biological Source:

Source Organism(s):

Saccharomyces cerevisiae (Taxon ID: 4932)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.00 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:D (auth: C1)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:A (auth: C2)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Polymer Type:polyribonucleotide
Molecule:5.8S rRNA
Chain IDs:F (auth: C3)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:E (auth: C4)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Polymer Type:polyribonucleotide
Molecule:tRNA
Chain IDs:C (auth: C5)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Polymer Type:polyribonucleotide
Molecule:mRNA
Chain IDs:B (auth: C7)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:General negative regulator of
Gene (Uniprot):NOT5
Chain IDs:GC (auth: CN)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:Q12514 Pfam ID:PF04065, PF04153

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL1A
Chain IDs:EC (auth: L1)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX43 Pfam ID:PF00687

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL2A
Chain IDs:NA (auth: LA)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:OA (auth: LB)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P14126 Pfam ID:PF00297

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL4A
Chain IDs:PA (auth: LC)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P10664 Pfam ID:PF00573, PF14374

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL5
Chain IDs:QA (auth: LD)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:RA (auth: LE)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:Q02326 Pfam ID:PF01159

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL7A
Chain IDs:SA (auth: LF)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05737 Pfam ID:PF00327, PF08079

Structures with similar UniProt ID

Structural Superimposition Protein Blast

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

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:UA (auth: LH)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:VA (auth: LI)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P41805 Pfam ID:PF00252

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL11A
Chain IDs:WA (auth: LJ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0C0W9 Pfam ID:PF00673, PF00281

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL12A
Chain IDs:XA (auth: LK)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX53 Pfam ID:PF00298, PF03946

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL13A
Chain IDs:YA (auth: LL)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:Q12690 Pfam ID:PF01294

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL14A
Chain IDs:ZA (auth: LM)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:AB (auth: LN)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:BB (auth: LO)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P26784 Pfam ID:PF00572

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL17A
Chain IDs:CB (auth: LP)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05740 Pfam ID:PF00237

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL18A
Chain IDs:DB (auth: LQ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX49 Pfam ID:PF17135

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL19A
Chain IDs:EB (auth: LR)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:FB (auth: LS)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX23 Pfam ID:PF01775

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL21A
Chain IDs:GB (auth: LT)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:Q02753 Pfam ID:PF01157

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL22A
Chain IDs:HB (auth: LU)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05749 Pfam ID:PF01776

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL23A
Chain IDs:IB (auth: LV)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:JB (auth: LW)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P04449 Pfam ID:PF01246

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL25
Chain IDs:KB (auth: LX)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P04456 Pfam ID:PF03939, PF00276

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL26A
Chain IDs:LB (auth: LY)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05743 Pfam ID:PF16906, PF00467

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL27A
Chain IDs:MB (auth: LZ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0C2H6 Pfam ID:PF01777

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL28
Chain IDs:NB (auth: La)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:OB (auth: Lb)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05747 Pfam ID:PF01779

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL30
Chain IDs:PB (auth: Lc)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P14120 Pfam ID:PF01248

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL31A
Chain IDs:QB (auth: Ld)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0C2H8 Pfam ID:PF01198

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL32
Chain IDs:RB (auth: Le)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P38061 Pfam ID:PF01655

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL33A
Chain IDs:SB (auth: Lf)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05744 Pfam ID:PF01247

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL34A
Chain IDs:TB (auth: Lg)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P87262 Pfam ID:PF01199

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL35A
Chain IDs:UB (auth: Lh)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX84 Pfam ID:PF00831

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL36A
Chain IDs:VB (auth: Li)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05745 Pfam ID:PF01158

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL37A
Chain IDs:WB (auth: Lj)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P49166 Pfam ID:PF01907

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL38
Chain IDs:XB (auth: Lk)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P49167 Pfam ID:PF01781

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL39
Chain IDs:YB (auth: Ll)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:ZB (auth: Lm)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CH08 Pfam ID:PF00240, PF01020

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL41A
Chain IDs:AC (auth: Ln), BC (auth: L2)
Chain Length:0
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae

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:CC (auth: Lo)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX27 Pfam ID:PF00935

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPL43A
Chain IDs:DC (auth: Lp)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX25 Pfam ID:PF01780

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit prote
Gene (Uniprot):RPP0
Chain IDs:FC (auth: P0)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05317 Pfam ID:PF00466, PF17777, PF00428

Structures with similar UniProt ID

Structural Superimposition Protein Blast

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

UniProt ID:P32905 Pfam ID:PF00318

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S1-A
Gene (Uniprot):RPS1A
Chain IDs:H (auth: SB)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P33442 Pfam ID:PF01015

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S2
Gene (Uniprot):RPS2
Chain IDs:I (auth: SC)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:J (auth: SD)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05750 Pfam ID:PF07650, PF00189

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4-A
Gene (Uniprot):RPS4A
Chain IDs:K (auth: SE)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:L (auth: SF)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P26783 Pfam ID:PF00177

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6-A
Gene (Uniprot):RPS6A
Chain IDs:M (auth: SG)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX37 Pfam ID:PF01092

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7-A
Gene (Uniprot):RPS7A
Chain IDs:N (auth: SH)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P26786 Pfam ID:PF01251

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8-A
Gene (Uniprot):RPS8A
Chain IDs:O (auth: SI)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX39 Pfam ID:PF01201

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S9-A
Gene (Uniprot):RPS9A
Chain IDs:P (auth: SJ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:Q (auth: SK)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:R (auth: SL)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:S (auth: SM)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P48589 Pfam ID:PF01248

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S13
Gene (Uniprot):RPS13
Chain IDs:T (auth: SN)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P05756 Pfam ID:PF08069, PF00312

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S14-A
Gene (Uniprot):RPS14A
Chain IDs:U (auth: SO)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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: SP)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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: SQ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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: SR)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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: SS)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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: ST)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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: SU)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:BA (auth: SV)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0C0V8 Pfam ID:PF01249

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S22-A
Gene (Uniprot):RPS22A
Chain IDs:CA (auth: SW)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0C0W1 Pfam ID:PF00410

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S23-A
Gene (Uniprot):RPS23A
Chain IDs:DA (auth: SX)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P0CX29 Pfam ID:PF00164

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24-A
Gene (Uniprot):RPS24A
Chain IDs:EA (auth: SY)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:FA (auth: SZ)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:GA (auth: Sa)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P39939 Pfam ID:PF01283

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S27-A
Gene (Uniprot):RPS27A
Chain IDs:HA (auth: Sb)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:IA (auth: Sc)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:JA (auth: Sd)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P41057 Pfam ID:PF00253

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30-A
Gene (Uniprot):RPS30A
Chain IDs:KA (auth: Se)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:LA (auth: Sf)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

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:MA (auth: Sg)
Chain Length:0
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P38011 Pfam ID:PF00400

Ligand Molecules

SPD

T1C

Primary Citation

Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.

Li, X, Wang, M, Denk, T, Buschauer, R, Li, Y, Beckmann, R, Cheng, J.Show

Nat Commun 15 5481 5481 (2024)

PMID: 38942792 DOI: 10.1038/s41467-024-49797-7

Abstact

Tigecycline is widely used for treating complicated bacterial infections for which there are no effective drugs. It inhibits bacterial protein translation by blocking the ribosomal A-site. However, even though it is also cytotoxic for human cells, the molecular mechanism of its inhibition remains unclear. Here, we present cryo-EM structures of tigecycline-bound human mitochondrial 55S, 39S, cytoplasmic 80S and yeast cytoplasmic 80S ribosomes. We find that at clinically relevant concentrations, tigecycline effectively targets human 55S mitoribosomes, potentially, by hindering A-site tRNA accommodation and by blocking the peptidyl transfer center. In contrast, tigecycline does not bind to human 80S ribosomes under physiological concentrations. However, at high tigecycline concentrations, in addition to blocking the A-site, both human and yeast 80S ribosomes bind tigecycline at another conserved binding site restricting the movement of the L1 stalk. In conclusion, the observed distinct binding properties of tigecycline may guide new pathways for drug design and therapy.

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Protein

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Disease

Primary Citation of related structures

Abstact

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