MRPS10

gene
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Also known as FLJ10567uS10m

Summary

MRPS10 (mitochondrial ribosomal protein S10, HGNC:14502) is a protein-coding gene on chromosome 6p21.1, encoding Small ribosomal subunit protein uS10m (P82664). It is a selective cancer dependency (DepMap: 60.1% of cell lines).

Mammalian mitochondrial ribosomal proteins are encoded by nuclear genes and help in protein synthesis within the mitochondrion. Mitochondrial ribosomes (mitoribosomes) consist of a small 28S subunit and a large 39S subunit. They have an estimated 75% protein to rRNA composition compared to prokaryotic ribosomes, where this ratio is reversed. Another difference between mammalian mitoribosomes and prokaryotic ribosomes is that the latter contain a 5S rRNA. Among different species, the proteins comprising the mitoribosome differ greatly in sequence, and sometimes in biochemical properties, which prevents easy recognition by sequence homology. This gene encodes a 28S subunit protein that belongs to the ribosomal protein S10P family. Pseudogenes corresponding to this gene are found on chromosomes 1q, 3p, and 9p.

Source: NCBI Gene 55173 — RefSeq curated summary.

At a glance

  • Clinical variants (ClinVar): 34 total
  • Cancer dependency (DepMap): dependent in 60.1% of screened cell lines
  • MANE Select transcript: NM_018141

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:14502
Approved symbolMRPS10
Namemitochondrial ribosomal protein S10
Location6p21.1
Locus typegene with protein product
StatusApproved
AliasesFLJ10567, uS10m
Ensembl geneENSG00000048544
Ensembl biotypeprotein_coding
OMIM611976
Entrez55173

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 7 protein_coding, 2 nonsense_mediated_decay

ENST00000053468, ENST00000718325, ENST00000718326, ENST00000718327, ENST00000896501, ENST00000896502, ENST00000896503, ENST00000934613, ENST00000934614

RefSeq mRNA: 1 — MANE Select: NM_018141 NM_018141

CCDS: CCDS4866

Canonical transcript exons

ENST00000053468 — 7 exons

ExonStartEnd
ENSE000006190634221178142211917
ENSE000007511744220885842208947
ENSE000007512014221048842210596
ENSE000007512024221412042214192
ENSE000007512264221428042214344
ENSE000011389634221780242217861
ENSE000040347844220680742208372

Expression profiles

Bgee: expression breadth ubiquitous, 294 present calls, max score 98.80.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 31.8266 / max 642.6341, expressed in 1818 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter IDTPM avgSamples expressed
7360231.82661818

Top tissues by expression

294 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
buccal mucosa cellCL:000233698.80gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451196.03gold quality
body of tongueUBERON:001187695.54gold quality
vastus lateralisUBERON:000137995.40gold quality
biceps brachiiUBERON:000150795.04gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450294.93gold quality
quadriceps femorisUBERON:000137794.82gold quality
pharyngeal mucosaUBERON:000035594.55gold quality
palpebral conjunctivaUBERON:000181294.40gold quality
tongueUBERON:000172394.36gold quality
superior surface of tongueUBERON:000737194.30gold quality
muscle organUBERON:000163094.02gold quality
skeletal muscle organUBERON:001489294.02gold quality
skeletal muscle tissueUBERON:000113494.00gold quality
hindlimb stylopod muscleUBERON:000425293.99gold quality
heart right ventricleUBERON:000208093.92gold quality
gastrocnemiusUBERON:000138893.88gold quality
muscle of legUBERON:000138393.79gold quality
lower esophagus mucosaUBERON:003583493.61gold quality
oral cavityUBERON:000016793.45gold quality
triceps brachiiUBERON:000150993.35gold quality
visceral pleuraUBERON:000240193.22gold quality
esophagus squamous epitheliumUBERON:000692093.16gold quality
epithelium of esophagusUBERON:000197692.98gold quality
gingivaUBERON:000182892.94gold quality
muscle tissueUBERON:000238592.92gold quality
gingival epitheliumUBERON:000194992.85gold quality
amniotic fluidUBERON:000017392.66gold quality
esophagus mucosaUBERON:000246992.62gold quality
jejunumUBERON:000211592.52gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes6.70

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): YY1

miRNA regulators (miRDB)

61 targeting MRPS10, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-5692A100.0074.406850
HSA-MIR-186-5P99.9970.833707
HSA-MIR-1213699.9872.815713
HSA-MIR-548P99.9872.253784
HSA-MIR-4482-3P99.9872.503147
HSA-MIR-60799.9773.625593
HSA-MIR-314899.9775.066478
HSA-MIR-568899.9673.234504
HSA-MIR-495-3P99.9672.814197
HSA-MIR-10523-5P99.9169.222038
HSA-MIR-548AR-3P99.8571.263889
HSA-MIR-469899.8471.414303
HSA-MIR-548AZ-3P99.8270.563549
HSA-MIR-548BC99.8270.613524
HSA-MIR-548E-3P99.8270.593514
HSA-MIR-548F-3P99.8270.593540
HSA-MIR-57799.7869.132479
HSA-MIR-548AG99.7769.251492
HSA-MIR-4645-3P99.7669.33993
HSA-MIR-548A-3P99.7670.583524
HSA-MIR-378G99.7164.901106
HSA-MIR-548AI99.6969.241494
HSA-MIR-548BA99.6969.141514
HSA-MIR-570-5P99.6969.241494
HSA-MIR-561-3P99.6470.903647
HSA-MIR-1251-3P99.6467.211408
HSA-MIR-885-5P99.5968.59879
HSA-MIR-888-3P99.5369.771057
HSA-MIR-392399.5269.21446
HSA-MIR-608199.4866.071446

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 60.1% of screened cell lines.

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_reriomrps10ENSDARG00000045913
mus_musculusMrps10ENSMUSG00000034729
rattus_norvegicusMrps10ENSRNOG00000022609
drosophila_melanogastermRpS10FBGN0038307
caenorhabditis_elegansWBGENE00012556

Protein

Protein identifiers

Small ribosomal subunit protein uS10mP82664 (reviewed: P82664)

Alternative names: 28S ribosomal protein S10, mitochondrial

All UniProt accessions (1): P82664

UniProt curated annotations — full annotation on UniProt →

Subunit / interactions. Component of the mitochondrial small ribosomal subunit (mt-SSU). Mature mammalian 55S mitochondrial ribosomes consist of a small (28S) and a large (39S) subunit. The 28S small subunit contains a 12S ribosomal RNA (12S mt-rRNA) and 30 different proteins. The 39S large subunit contains a 16S rRNA (16S mt-rRNA), a copy of mitochondrial valine transfer RNA (mt-tRNA(Val)), which plays an integral structural role, and 52 different proteins.

Subcellular location. Mitochondrion.

Similarity. Belongs to the universal ribosomal protein uS10 family.

RefSeq proteins (1): NP_060611* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR027486Ribosomal_uS10_domDomain
IPR036838Ribosomal_uS10_dom_sfHomologous_superfamily
IPR040055Ribosomal_uS10mFamily

Pfam: PF00338

UniProt features (11 total): strand 6, helix 3, chain 1, sequence conflict 1

Structure

Experimental structures (PDB)

77 structures, top 30 by resolution.

PDBMethodResolution (Å)
7QI4ELECTRON MICROSCOPY2.21
8CSSELECTRON MICROSCOPY2.36
7P2EELECTRON MICROSCOPY2.4
8RRIELECTRON MICROSCOPY2.4
9OLFELECTRON MICROSCOPY2.46
9OJMELECTRON MICROSCOPY2.5
8CSQELECTRON MICROSCOPY2.54
8CSRELECTRON MICROSCOPY2.54
6ZM6ELECTRON MICROSCOPY2.59
7QI5ELECTRON MICROSCOPY2.63
8CSPELECTRON MICROSCOPY2.66
7PNXELECTRON MICROSCOPY2.76
8ANYELECTRON MICROSCOPY2.85
8CSTELECTRON MICROSCOPY2.85
6ZM5ELECTRON MICROSCOPY2.89
7PO0ELECTRON MICROSCOPY2.9
8K2AELECTRON MICROSCOPY2.9
9PGLELECTRON MICROSCOPY2.9
7PO1ELECTRON MICROSCOPY2.92
7PO3ELECTRON MICROSCOPY2.92
9PGFELECTRON MICROSCOPY2.93
6VMIELECTRON MICROSCOPY2.96
6RW4ELECTRON MICROSCOPY2.97
6VLZELECTRON MICROSCOPY2.97
7QI6ELECTRON MICROSCOPY2.98
8QRNELECTRON MICROSCOPY2.98
9PSMELECTRON MICROSCOPY2.98
8OISELECTRON MICROSCOPY3
9G5CELECTRON MICROSCOPY3
9G5DELECTRON MICROSCOPY3

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P82664-F179.460.58

Function

Pathways and Gene Ontology

Reactome pathways

8 pathways

IDPathway
R-HSA-5368286Mitochondrial translation initiation
R-HSA-5389840Mitochondrial translation elongation
R-HSA-5419276Mitochondrial translation termination
R-HSA-9837999Mitochondrial protein degradation
R-HSA-9937383Mitochondrial ribosome-associated quality control
R-HSA-392499Metabolism of proteins
R-HSA-5368287Mitochondrial translation
R-HSA-72766Translation

MSigDB gene sets: 110 (showing top): GOBP_MITOCHONDRIAL_TRANSLATION, GOBP_TRANSLATION, WCTCNATGGY_UNKNOWN, GOCC_MITOCHONDRIAL_ENVELOPE, BERENJENO_TRANSFORMED_BY_RHOA_UP, RIZKI_TUMOR_INVASIVENESS_3D_UP, GOCC_RIBOSOME, GOCC_SMALL_RIBOSOMAL_SUBUNIT, GOCC_ORGANELLAR_RIBOSOME, GOCC_MITOCHONDRIAL_MATRIX, GOCC_ORGANELLE_INNER_MEMBRANE, GOCC_RIBOSOMAL_SUBUNIT, BLALOCK_ALZHEIMERS_DISEASE_DN, GOCC_RIBONUCLEOPROTEIN_COMPLEX, GOCC_MITOCHONDRIAL_PROTEIN_CONTAINING_COMPLEX

GO Biological Process (1): mitochondrial translation (GO:0032543)

GO Molecular Function (0):

GO Cellular Component (6): mitochondrion (GO:0005739), mitochondrial inner membrane (GO:0005743), mitochondrial matrix (GO:0005759), mitochondrial small ribosomal subunit (GO:0005763), ribosome (GO:0005840), ribonucleoprotein complex (GO:1990904)

Reactome top-level categories

Rollup of top-3 pathways:

CategoryPathways
Mitochondrial translation4
Metabolism of proteins2
Translation1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
mitochondrion2
translation1
mitochondrial gene expression1
cytoplasm1
intracellular membrane-bounded organelle1
organelle inner membrane1
mitochondrial membrane1
intracellular organelle lumen1
organellar small ribosomal subunit1
mitochondrial ribosome1
mitochondrial protein-containing complex1
intracellular membraneless organelle1
protein-containing complex1

Protein interactions and networks

STRING

5094 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
MRPS10MRPS27Q92552724
MRPS10MRPL44Q9H9J2674
MRPS10MRPL21Q7Z2W9647
MRPS10DAP3P51398625
MRPS10MRPS9P82933625
MRPS10MRPL9Q9BYD2614
MRPS10MRPS14O60783604
MRPS10MRPS11P82912563
MRPS10MRPS6P82932561
MRPS10MRPL11Q9Y3B7558
MRPS10MRPL40Q9NQ50550
MRPS10MRPS5P82675533
MRPS10MRPS15P82914531
MRPS10MRPL36Q9P0J6513
MRPS10MRPS2Q9Y399505

IntAct

166 interactions, top by confidence:

ABTypeScore
CFTRESYT2psi-mi:“MI:2364”(proximity)0.710
MRPS27MRPS14psi-mi:“MI:0914”(association)0.640
IGF2BP1IGF2BP3psi-mi:“MI:0914”(association)0.640
LIN28AIGF2BP3psi-mi:“MI:0914”(association)0.640
NOP53RRP8psi-mi:“MI:0914”(association)0.640
FAM120ASYNCRIPpsi-mi:“MI:0914”(association)0.640
NPKPNA6psi-mi:“MI:0914”(association)0.550
MRPS6STAT5Apsi-mi:“MI:0914”(association)0.550
ZNF707ZNF316psi-mi:“MI:0914”(association)0.530
RPL18NOP56psi-mi:“MI:0914”(association)0.530
ZBTB48ZBTB24psi-mi:“MI:0914”(association)0.530
MRPS15MRPS14psi-mi:“MI:0914”(association)0.530
TRMT10BMRPS14psi-mi:“MI:0914”(association)0.530
DAP3PNMA6Apsi-mi:“MI:0914”(association)0.530
MRPS18BMRPS14psi-mi:“MI:0914”(association)0.530
SNRNP70GTPBP1psi-mi:“MI:0914”(association)0.530
PPANPPM1Gpsi-mi:“MI:0914”(association)0.530
MRPS34ZZEF1psi-mi:“MI:0914”(association)0.530
E4F1ZBTB24psi-mi:“MI:0914”(association)0.530
MRPS18CMRPS14psi-mi:“MI:0914”(association)0.530
MRPS15PRKACGpsi-mi:“MI:0914”(association)0.530
MRPS27YBX1psi-mi:“MI:0914”(association)0.530
MRPS26MRPS10psi-mi:“MI:0914”(association)0.530
MRPL18GTPBP10psi-mi:“MI:0914”(association)0.530

BioGRID (266): MRPS10 (Affinity Capture-RNA), MRPS10 (Affinity Capture-RNA), MRPS10 (Affinity Capture-RNA), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Affinity Capture-MS), MRPS10 (Co-fractionation), MRPS10 (Co-fractionation), MRPS10 (Co-fractionation), MRPS10 (Co-fractionation)

ESM2 similar proteins: A6QPQ5, A9X1A9, O95707, P0C2C1, P82664, P82670, P82675, P82915, P82919, P82933, Q08BI9, Q0P5E7, Q0VFH6, Q2KIB9, Q2KID9, Q2KIJ6, Q2TBK2, Q2TBR2, Q3MHY7, Q3SYS0, Q3T040, Q58DQ5, Q58DV5, Q5C9Z4, Q5R7B0, Q5REJ1, Q5REY4, Q5RFM3, Q641X9, Q7Z2W9, Q7Z7H8, Q8N3Z3, Q8TCC3, Q924T2, Q99N85, Q99N87, Q99N94, Q9BSH4, Q9BYD2, Q9BYD6

Diamond homologs: A0ALW9, A0L5X2, A0LII9, A0Q4I2, A1AVJ9, A1B026, A3PGL0, A4WVK9, A4YSJ1, A5CXK3, A5ELM8, A5FZW6, A5VR07, A6U858, A6X0B7, A7HWR0, A7IFY0, A7Z0N7, A8F984, A8IAS9, A9IW28, A9M5Q1, B0CH33, B0SAF5, B0SSH8, B0UHX0, B1Y7H1, B2IK61, B2S680, B2SDY6, B3PWS0, B3QBY1, B5ZYT4, B6JET2, B8DB07, B8ELG4, B8IS84, B9JVN6, B9KL90, C0RJK2

SIGNOR signaling

1 interactions.

AEffectBMechanism
MRPS10“form complex”“28S mitochondrial small ribosomal subunit”binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 175 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Mitochondrial translation2632.8×2e-31
Mitochondrial ribosome-associated quality control2932.7×1e-34
Mitochondrial translation initiation2832.6×9e-34
Mitochondrial translation elongation2832.6×9e-34
Mitochondrial translation termination2828.2×7e-32
Transport of Mature Transcript to Cytoplasm517.5×1e-04
Translation3017.1×2e-27
Peptide chain elongation1011.6×4e-07

GO biological processes:

GO termPartnersFoldFDR
mitochondrial translation2932.7×9e-34
positive regulation of cytoplasmic translation532.2×5e-05
cytoplasmic translation1214.4×9e-09
translation2114.0×8e-16
regulation of alternative mRNA splicing, via spliceosome711.1×3e-04
negative regulation of translation78.9×1e-03
ribosomal small subunit biogenesis68.9×4e-03
RNA processing68.5×4e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

34 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance23
Likely benign2
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

926 predictions. Top by Δscore:

VariantEffectΔscore
6:42208852:CTATA:Cdonor_loss1.0000
6:42208853:TATAC:Tdonor_loss1.0000
6:42208854:ATAC:Adonor_loss1.0000
6:42208856:A:ATdonor_loss1.0000
6:42208868:T:TAdonor_gain1.0000
6:42208869:C:Adonor_gain1.0000
6:42208944:CTAA:Cacceptor_gain1.0000
6:42208945:TAA:Tacceptor_gain1.0000
6:42208946:AA:Aacceptor_gain1.0000
6:42208948:C:CCacceptor_gain1.0000
6:42210483:CTCA:Cdonor_loss1.0000
6:42210484:TCA:Tdonor_loss1.0000
6:42210485:CACC:Cdonor_loss1.0000
6:42210486:A:ACdonor_gain1.0000
6:42210486:ACC:Adonor_loss1.0000
6:42210487:C:CCdonor_gain1.0000
6:42210487:CCT:Cdonor_gain1.0000
6:42210592:CATGT:Cacceptor_gain1.0000
6:42210593:ATGT:Aacceptor_gain1.0000
6:42210594:TGT:Tacceptor_gain1.0000
6:42210594:TGTC:Tacceptor_loss1.0000
6:42210595:GT:Gacceptor_gain1.0000
6:42210595:GTC:Gacceptor_loss1.0000
6:42210597:C:CAacceptor_loss1.0000
6:42210597:C:CCacceptor_gain1.0000
6:42210603:T:Cacceptor_gain1.0000
6:42210603:T:TCacceptor_gain1.0000
6:42210606:A:ACacceptor_gain1.0000
6:42210606:A:Cacceptor_gain1.0000
6:42211779:A:ACdonor_gain1.0000

AlphaMissense

1301 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
6:42208895:C:GR162P0.994
6:42211808:G:TA99D0.987
6:42211871:A:TV78D0.986
6:42211809:C:GA99P0.985
6:42211834:A:CS90R0.985
6:42211834:A:TS90R0.985
6:42211836:T:GS90R0.985
6:42208875:C:GA169P0.984
6:42208923:C:GA153P0.980
6:42211811:G:TA98D0.980
6:42211822:A:CF94L0.980
6:42211822:A:TF94L0.980
6:42211824:A:GF94L0.980
6:42208914:A:CY156D0.977
6:42208881:C:GG167R0.974
6:42208881:C:TG167R0.974
6:42211820:G:TA95D0.973
6:42211860:C:GG82R0.970
6:42210515:T:AE135D0.968
6:42210515:T:GE135D0.968
6:42211799:A:GL102P0.968
6:42211859:C:TG82D0.968
6:42208886:G:TP165H0.966
6:42211821:C:GA95P0.966
6:42210509:T:AR137S0.964
6:42210509:T:GR137S0.964
6:42208877:A:TV168D0.963
6:42210561:A:GL120P0.963
6:42208881:C:AG167W0.961
6:42208905:A:GY159H0.961

dbSNP variants (sampled 300 via entrez): RS1000225370 (6:42212277 T>C), RS1000402020 (6:42214037 T>C), RS1000499655 (6:42209189 G>A), RS1001055629 (6:42208542 C>G), RS1001387618 (6:42206775 T>C), RS1001661268 (6:42214762 A>G), RS1001674983 (6:42212344 T>C), RS1002042249 (6:42212056 C>G,T), RS1002131193 (6:42218380 A>T), RS1002930114 (6:42216116 T>C), RS1003062831 (6:42209698 T>C), RS1003110363 (6:42209500 C>G), RS1003250447 (6:42217451 C>A,T), RS1003315493 (6:42211045 G>T), RS1003450685 (6:42211269 T>C)

Disease associations

OMIM: gene MIM:611976 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

24 total (human), top 24 by PubMed support.

ChemicalActions (top 5)PubMed papers
bisphenol Aincreases expression, increases methylation2
Acetaminophenincreases expression, affects cotreatment2
Tretinoindecreases expression2
dicrotophosdecreases expression1
triphenyl phosphateaffects expression1
arseniteaffects binding, increases reaction1
sodium arseniteaffects cotreatment, increases abundance, increases expression1
di-n-butylphosphoric acidaffects expression1
cylindrospermopsinincreases expression1
abrineincreases expression1
eprenetapoptaffects expression, affects reaction1
bisphenol Sincreases expression1
Air Pollutantsdecreases expression, increases abundance1
Arsenicaffects cotreatment, increases abundance, increases expression1
Atrazinedecreases expression1
Cannabidiolincreases expression1
Leadaffects expression1
Lipopolysaccharidesincreases expression, affects cotreatment1
Ribonucleotidesaffects binding1
Valproic Acidaffects expression1
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxidedecreases expression1
Cyclosporineincreases expression1
Antirheumatic Agentsincreases expression1
Particulate Matterincreases abundance, decreases expression1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.