6I9R image
Deposition Date 2018-11-25
Release Date 2020-07-08
Last Version Date 2025-12-17
Entry Detail
PDB ID:
6I9R
Keywords:
RIBOSOME
Title:
Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and Quinupristin
Biological Source:
Source Organism(s):
synthetic construct (Taxon ID: 32630)
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.90 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
6I9R validation report missing
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L32, mi
Gene (Uniprot):MRPL32
Chain IDs:A (auth: 0)
Chain Length:188
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BYC8 Pfam ID:PF01783
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L33, mi
Gene (Uniprot):MRPL33
Chain IDs:B (auth: 1)
Chain Length:65
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O75394 Pfam ID:PF00471
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L34, mi
Gene (Uniprot):MRPL34
Chain IDs:C (auth: 2)
Chain Length:92
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BQ48 Pfam ID:PF00468
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L35, mi
Gene (Uniprot):MRPL35
Chain IDs:D (auth: 3)
Chain Length:188
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NZE8 Pfam ID:PF01632
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L36, mi
Gene (Uniprot):MRPL36
Chain IDs:E (auth: 4)
Chain Length:103
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9P0J6 Pfam ID:PF00444
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L37, mi
Gene (Uniprot):MRPL37
Chain IDs:F (auth: 5)
Chain Length:423
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BZE1 Pfam ID:PF07147
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L38, mi
Gene (Uniprot):MRPL38
Chain IDs:G (auth: 6)
Chain Length:380
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96DV4 Pfam ID:PF01161
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L39, mi
Gene (Uniprot):MRPL39
Chain IDs:H (auth: 7)
Chain Length:338
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NYK5
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L40, mi
Gene (Uniprot):MRPL40
Chain IDs:I (auth: 8)
Chain Length:206
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NQ50 Pfam ID:PF09812
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L41, mi
Gene (Uniprot):MRPL41
Chain IDs:J (auth: 9)
Chain Length:137
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8IXM3 Pfam ID:PF09809
Polymer Type:polyribonucleotide
Molecule:16S rRNA
Chain IDs:K (auth: A)
Chain Length:142
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polyribonucleotide
Molecule:tRNA Val
Chain IDs:L (auth: B)
Chain Length:215
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Quinupristin
Chain IDs:AB (auth: C)
Chain Length:332
Number of Molecules:1
Biological Source:synthetic construct
UniProt ID:6I9R
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L2, mit
Gene (Uniprot):MRPL2
Chain IDs:M (auth: D)
Chain Length:305
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q5T653 Pfam ID:PF00181, PF03947
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L3, mit
Gene (Uniprot):MRPL3
Chain IDs:N (auth: E)
Chain Length:348
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P09001 Pfam ID:PF00297
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L4, mit
Gene (Uniprot):MRPL4
Chain IDs:O (auth: F)
Chain Length:212
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BYD3 Pfam ID:PF00573
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L9, mit
Gene (Uniprot):MRPL9
Chain IDs:P (auth: H)
Chain Length:158
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BYD2 Pfam ID:PF01281, PF22078, PF25131
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L10, mi
Gene (Uniprot):MRPL10
Chain IDs:Q (auth: I)
Chain Length:261
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q7Z7H8 Pfam ID:PF00466
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L11, mi
Gene (Uniprot):MRPL11
Chain IDs:R (auth: J)
Chain Length:192
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y3B7 Pfam ID:PF03946, PF00298
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L13, mi
Gene (Uniprot):MRPL13
Chain IDs:S (auth: K)
Chain Length:112
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BYD1 Pfam ID:PF00572
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L14, mi
Gene (Uniprot):MRPL14
Chain IDs:T (auth: L)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q6P1L8 Pfam ID:PF00238
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L15, mi
Gene (Uniprot):MRPL15
Chain IDs:U (auth: M)
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9P015 Pfam ID:PF00828
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L16, mi
Gene (Uniprot):MRPL16
Chain IDs:V (auth: N)
Chain Length:251
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NX20 Pfam ID:PF00252
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L17, mi
Gene (Uniprot):MRPL17
Chain IDs:W (auth: O)
Chain Length:175
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NRX2 Pfam ID:PF01196
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Mitochondrial ribosomal prote
Gene (Uniprot):MRPL18
Chain IDs:X (auth: P)
Chain Length:206
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:A8K9D2 Pfam ID:PF00861
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L19, mi
Gene (Uniprot):MRPL19
Chain IDs:Y (auth: Q)
Chain Length:222
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P49406 Pfam ID:PF01245
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L20, mi
Gene (Uniprot):MRPL20
Chain IDs:Z (auth: R)
Chain Length:149
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BYC9 Pfam ID:PF00453
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L21, mi
Gene (Uniprot):MRPL21
Chain IDs:AA (auth: S)
Chain Length:205
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q7Z2W9 Pfam ID:PF00829
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L22, mi
Gene (Uniprot):MRPL22
Chain IDs:BA (auth: T)
Chain Length:212
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:E7ESL0 Pfam ID:PF00237
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L23, mi
Gene (Uniprot):MRPL23
Chain IDs:CA (auth: U)
Chain Length:153
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q16540 Pfam ID:PF00276
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L24, mi
Gene (Uniprot):MRPL24
Chain IDs:DA (auth: V)
Chain Length:216
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96A35 Pfam ID:PF00467, PF17136
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L27, mi
Gene (Uniprot):MRPL27
Chain IDs:EA (auth: W)
Chain Length:148
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9P0M9 Pfam ID:PF01016
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L28, mi
Gene (Uniprot):MRPL28
Chain IDs:FA (auth: X)
Chain Length:256
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q13084 Pfam ID:PF00830
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L47, mi
Gene (Uniprot):MRPL47
Chain IDs:GA (auth: Y)
Chain Length:250
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9HD33 Pfam ID:PF06984
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L30, mi
Gene (Uniprot):MRPL30
Chain IDs:HA (auth: Z)
Chain Length:161
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8TCC3 Pfam ID:PF00327
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L42, mi
Gene (Uniprot):MRPL42
Chain IDs:IA (auth: a)
Chain Length:142
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y6G3 Pfam ID:PF10210
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L43, mi
Gene (Uniprot):MRPL43
Chain IDs:JA (auth: b)
Chain Length:215
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8N983 Pfam ID:PF05047
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L44, mi
Gene (Uniprot):MRPL44
Chain IDs:KA (auth: c)
Chain Length:332
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9H9J2 Pfam ID:PF22935, PF22892
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L45, mi
Gene (Uniprot):MRPL45
Chain IDs:LA (auth: d)
Chain Length:305
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BRJ2 Pfam ID:PF04280
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L46, mi
Gene (Uniprot):MRPL46
Chain IDs:MA (auth: e)
Chain Length:348
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9H2W6 Pfam ID:PF11788
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L48, mi
Gene (Uniprot):MRPL48
Chain IDs:NA (auth: f)
Chain Length:212
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96GC5 Pfam ID:PF00338
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L49, mi
Gene (Uniprot):MRPL49
Chain IDs:OA (auth: g)
Chain Length:166
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q13405 Pfam ID:PF05046
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L50, mi
Gene (Uniprot):MRPL50
Chain IDs:PA (auth: h)
Chain Length:158
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8N5N7 Pfam ID:PF10501
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L51, mi
Gene (Uniprot):MRPL51
Chain IDs:QA (auth: i)
Chain Length:261
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q4U2R6 Pfam ID:PF10244
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:cDNA FLJ76418, highly similar
Chain IDs:RA (auth: j)
Chain Length:192
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:A8K7J6 Pfam ID:PF18699
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L53, mi
Gene (Uniprot):MRPL53
Chain IDs:SA (auth: k)
Chain Length:112
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96EL3 Pfam ID:PF10780
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L54, mi
Gene (Uniprot):MRPL54
Chain IDs:TA (auth: l)
Chain Length:145
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q6P161 Pfam ID:PF08561
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein L55, mi
Gene (Uniprot):MRPL55
Chain IDs:UA (auth: m)
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q7Z7F7 Pfam ID:PF09776
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein 63, mitocho
Gene (Uniprot):MRPL57
Chain IDs:VA (auth: o)
Chain Length:175
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BQC6 Pfam ID:PF14978
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Peptidyl-tRNA hydrolase ICT1,
Gene (Uniprot):MRPL58
Chain IDs:WA (auth: p)
Chain Length:206
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q14197 Pfam ID:PF00472 EC:3.1.1.29
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Growth arrest and DNA damage-
Gene (Uniprot):GADD45GIP1
Chain IDs:XA (auth: q)
Chain Length:222
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8TAE8 Pfam ID:PF10147
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein S18a, m
Gene (Uniprot):MRPS18A
Chain IDs:YA (auth: r)
Chain Length:149
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NVS2 Pfam ID:PF01084
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:39S ribosomal protein S30, mi
Gene (Uniprot):MRPS30
Chain IDs:ZA (auth: s)
Chain Length:205
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NP92 Pfam ID:PF07147
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
2MA K A modified residue
2MU K U modified residue
5MC K C modified residue
5MU K U modified residue
Ligand Molecules
G
H8T
MG
ZN
Peptide-like Molecules
PRD_000505
Primary Citation
Inhibition of mitochondrial translation suppresses glioblastoma stem cell growth.
Cell Rep 35 109024 109024 (2021)
PMID: 33910005 DOI: 10.1016/j.celrep.2021.109024

Abstact

Glioblastoma stem cells (GSCs) resist current glioblastoma (GBM) therapies. GSCs rely highly on oxidative phosphorylation (OXPHOS), whose function requires mitochondrial translation. Here we explore the therapeutic potential of targeting mitochondrial translation and report the results of high-content screening with putative blockers of mitochondrial ribosomes. We identify the bacterial antibiotic quinupristin/dalfopristin (Q/D) as an effective suppressor of GSC growth. Q/D also decreases the clonogenicity of GSCs in vitro, consequently dysregulating the cell cycle and inducing apoptosis. Cryoelectron microscopy (cryo-EM) reveals that Q/D binds to the large mitoribosomal subunit, inhibiting mitochondrial protein synthesis and functionally dysregulating OXPHOS complexes. These data suggest that targeting mitochondrial translation could be explored to therapeutically suppress GSC growth in GBM and that Q/D could potentially be repurposed for cancer treatment.

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Protein

Chemical

Disease

Primary Citation of related structures
6I9R
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