RPL41

Summary

RPL41 (ribosomal protein L41, HGNC:10354) is a protein-coding gene on chromosome 12q13, encoding Small ribosomal subunit protein eS32 (P62945). Component of the small ribosomal subunit (Ref.8). It is a selective cancer dependency (DepMap: 13.8% of cell lines).

Enables mRNA 3’-UTR binding activity and mRNA 5’-UTR binding activity. Involved in cytoplasmic translation. Located in endoplasmic reticulum. Part of cytosolic large ribosomal subunit.

Source: NCBI Gene 6171 — RefSeq curated summary.

At a glance

• GWAS associations: 5
• Clinical variants (ClinVar): 10 total
• Druggable target: yes — 1 molecules with ChEMBL bioactivity
• Cancer dependency (DepMap): dependent in 13.8% of screened cell lines
• MANE Select transcript: NM_001035267

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:10354
Approved symbol	RPL41
Name	ribosomal protein L41
Location	12q13
Locus type	gene with protein product
Status	Approved
Aliases	L41, eL41
Ensembl gene	ENSG00000229117
Ensembl biotype	protein_coding
OMIM	613315
Entrez	6171

Gene structure

Transcript identifiers

Ensembl transcripts: 7 — 4 protein_coding_CDS_not_defined, 3 protein_coding

ENST00000358888, ENST00000501597, ENST00000546485, ENST00000546591, ENST00000546654, ENST00000552314, ENST00000945892

RefSeq mRNA: 2 — MANE Select: NM_001035267 NM_001035267, NM_021104

CCDS: CCDS44919

Canonical transcript exons

ENST00000546591 — 3 exons

Exon	Start	End
ENSE00002367235	56117482	56117967
ENSE00002426395	56116633	56116799
ENSE00003553561	56117189	56117211

Expression profiles

Bgee: expression breadth ubiquitous, 134 present calls, max score 99.98.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 109.7043 / max 1337.0827, expressed in 1823 samples.

FANTOM5 promoters (7 alternative TSS)

Promoter ID	TPM avg	Samples expressed
126060	58.6649	1820
126059	24.3693	1809
126061	11.9104	1775
126064	5.7196	1517
126058	4.6483	1630
126062	2.9571	1223
126063	1.4346	765

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
ovary	UBERON:0000992	99.98	gold quality
right ovary	UBERON:0002118	99.98	gold quality
left ovary	UBERON:0002119	99.98	gold quality
ventricular zone	UBERON:0003053	99.98	gold quality
ganglionic eminence	UBERON:0004023	99.98	gold quality
granulocyte	CL:0000094	99.97	gold quality
endocervix	UBERON:0000458	99.97	gold quality
left lobe of thyroid gland	UBERON:0001120	99.97	gold quality
mucosa of stomach	UBERON:0001199	99.97	gold quality
right uterine tube	UBERON:0001302	99.97	gold quality
skin of abdomen	UBERON:0001416	99.97	gold quality
thyroid gland	UBERON:0002046	99.97	gold quality
fallopian tube	UBERON:0003889	99.97	gold quality
uterine cervix	UBERON:0000002	99.96	gold quality
pituitary gland	UBERON:0000007	99.96	gold quality
zone of skin	UBERON:0000014	99.96	gold quality
lymph node	UBERON:0000029	99.96	gold quality
vagina	UBERON:0000996	99.96	gold quality
adipose tissue	UBERON:0001013	99.96	gold quality
rectum	UBERON:0001052	99.96	gold quality
right lobe of thyroid gland	UBERON:0001119	99.96	gold quality
myometrium	UBERON:0001296	99.96	gold quality
left uterine tube	UBERON:0001303	99.96	gold quality
skin of leg	UBERON:0001511	99.96	gold quality
subcutaneous adipose tissue	UBERON:0002190	99.96	gold quality
adenohypophysis	UBERON:0002196	99.96	gold quality
prostate gland	UBERON:0002367	99.96	gold quality
mucosa of transverse colon	UBERON:0004991	99.96	gold quality
thoracic mammary gland	UBERON:0005200	99.96	gold quality
cortical plate	UBERON:0005343	99.96	gold quality

Single-cell (SCXA)

Detected in 46 experiment(s), a significant marker in 8.

Experiment	Marker?	Max mean expression
E-MTAB-10042	yes	18396.64
E-MTAB-9067	yes	10727.24
E-GEOD-137537	yes	6160.81
E-MTAB-6678	yes	3566.51
E-MTAB-9221	yes	57.81
E-HCAD-35	yes	19.31
E-HCAD-25	yes	4.63
E-HCAD-6	no	20490.82
E-CURD-85	no	18644.18
E-HCAD-15	no	18503.56
E-MTAB-10432	no	17939.41
E-CURD-112	no	17679.29
E-CURD-55	no	15510.86
E-HCAD-4	no	15119.75
E-CURD-98	no	15083.92

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): MYC, ZBTB4

miRNA regulators (miRDB)

17 targeting RPL41, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-12122	99.56	69.33	1672
HSA-MIR-4685-5P	99.25	65.99	1563
HSA-MIR-6837-5P	99.25	65.47	1632
HSA-MIR-6744-3P	99.22	64.41	972
HSA-MIR-4757-5P	99.12	64.51	981
HSA-MIR-7854-3P	99.08	66.26	1117
HSA-MIR-4751	98.80	64.95	525
HSA-MIR-198	98.70	67.32	920
HSA-MIR-1301-5P	98.09	66.62	495
HSA-MIR-6502-5P	98.09	66.73	495
HSA-MIR-4305	97.94	68.63	533
HSA-MIR-6847-5P	97.93	66.74	1808
HSA-MIR-7113-5P	97.88	67.33	1735
HSA-MIR-4257	97.86	68.05	1190
HSA-MIR-4433A-5P	96.79	65.01	599
HSA-MIR-193A-5P	95.70	65.33	613
HSA-MIR-758-5P	93.99	64.46	534

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 13.8% of screened cell lines.

Literature-anchored findings (GeneRIF, showing 4)

• RPL41 down-regulation is associated with breast neoplasms. (PMID:20234822)
• we show that RPL41 induces ATF4 phosphorylation and rapid degradation in the proteasome (PMID:21706477)
• Differential gene expression analysis demonstrated significant upregulation of PDZK1IP1, EEF1A2 and RPL41 (ENSG00000279483) genes in the intrahepatic cholangiocarcinoma samples when compared with the matched paratumor samples. (PMID:27082702)
• RPL41 sensitizes retinoblastoma cells to chemotherapeutic drugs via ATF4 degradation. (PMID:32783256)

Cross-species orthologs

0 orthologs

Protein

Protein identifiers

Small ribosomal subunit protein eS32 — P62945 (reviewed: P62945)

Alternative names: 60S ribosomal protein L41, HG12, Large ribosomal subunit protein eL41

All UniProt accessions (1): P62945

UniProt curated annotations — full annotation on UniProt →

Function. Component of the small ribosomal subunit (Ref.8). The ribosome is a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell. Interacts with the beta subunit of protein kinase CKII and stimulates phosphorylation of DNA topoisomerase II alpha by CKII.

Subunit / interactions. Component of the small ribosomal subunit.

Subcellular location. Cytoplasm.

Miscellaneous. Initially thought to be part of the large ribosomal subunit. Crystal structures show eS32/eL41 to be a small ribosomal subunit forming a bridge at the interface of the 2 subunits.

Similarity. Belongs to the eukaryotic ribosomal protein eS32 family.

RefSeq proteins (2): NP_001030344, NP_066927 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR007836	Ribosomal_eS32	Family

Pfam: PF05162

UniProt features (3 total): chain 1, region of interest 1, helix 1

Structure

Experimental structures (PDB)

185 structures, top 30 by resolution.

PDB	Method	Resolution (Å)
8GLP	ELECTRON MICROSCOPY	1.67
8QOI	ELECTRON MICROSCOPY	1.9
9O3W	ELECTRON MICROSCOPY	1.9
8YOO	ELECTRON MICROSCOPY	2
9C3H	ELECTRON MICROSCOPY	2
7R4X	ELECTRON MICROSCOPY	2.15
9I2D	ELECTRON MICROSCOPY	2.19
9PBE	ELECTRON MICROSCOPY	2.19
8YOP	ELECTRON MICROSCOPY	2.2
9O3V	ELECTRON MICROSCOPY	2.2
9O3Y	ELECTRON MICROSCOPY	2.2
8JDK	ELECTRON MICROSCOPY	2.26
8G5Y	ELECTRON MICROSCOPY	2.29
9S3D	ELECTRON MICROSCOPY	2.32
9RPV	ELECTRON MICROSCOPY	2.35
9S3B	ELECTRON MICROSCOPY	2.38
8K2C	ELECTRON MICROSCOPY	2.4
8XSX	ELECTRON MICROSCOPY	2.4
9SPF	ELECTRON MICROSCOPY	2.4
9SPI	ELECTRON MICROSCOPY	2.4
8JDL	ELECTRON MICROSCOPY	2.42
9S3C	ELECTRON MICROSCOPY	2.42
9QLO	ELECTRON MICROSCOPY	2.47
9P8B	ELECTRON MICROSCOPY	2.48
7XNY	ELECTRON MICROSCOPY	2.5
8JDJ	ELECTRON MICROSCOPY	2.5
9RUC	ELECTRON MICROSCOPY	2.5
8G60	ELECTRON MICROSCOPY	2.54
8IFE	ELECTRON MICROSCOPY	2.57
9P7D	ELECTRON MICROSCOPY	2.57

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P62945-F1	94.52	0.86

Function

Pathways and Gene Ontology

Reactome pathways

40 pathways

ID	Pathway
R-HSA-156827	L13a-mediated translational silencing of Ceruloplasmin expression
R-HSA-156902	Peptide chain elongation
R-HSA-1799339	SRP-dependent cotranslational protein targeting to membrane
R-HSA-192823	Viral mRNA Translation
R-HSA-2408557	Selenocysteine synthesis
R-HSA-6791226	Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-72689	Formation of a pool of free 40S subunits
R-HSA-72706	GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-72764	Eukaryotic Translation Termination
R-HSA-9010553	Regulation of expression of SLITs and ROBOs
R-HSA-9633012	Response of EIF2AK4 (GCN2) to amino acid deficiency
R-HSA-975956	Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-HSA-975957	Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-HSA-9954709	Ribosome Quality Control (RQC) complex extracts and degrades nascent peptide
R-HSA-9954714	PELO:HBS1L and ABCE1 dissociate a ribosome on a non-stop mRNA
R-HSA-9954716	ZNF598 and the Ribosome-associated Quality Trigger (RQT) complex dissociate a ribosome stalled on a no-go mRNA
R-HSA-1266738	Developmental Biology
R-HSA-1430728	Metabolism
R-HSA-156842	Eukaryotic Translation Elongation
R-HSA-1643685	Disease
R-HSA-168255	Influenza Infection
R-HSA-168273	Influenza Viral RNA Transcription and Replication
R-HSA-2262752	Cellular responses to stress
R-HSA-2408522	Selenoamino acid metabolism
R-HSA-376176	Signaling by ROBO receptors
R-HSA-392499	Metabolism of proteins
R-HSA-422475	Axon guidance
R-HSA-5663205	Infectious disease
R-HSA-71291	Metabolism of amino acids and derivatives
R-HSA-72312	rRNA processing

MSigDB gene sets: 236 (showing top): GOBP_CYTOPLASMIC_TRANSLATION, GNF2_TPT1, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, GOBP_STRIATED_MUSCLE_CELL_DIFFERENTIATION, HSIAO_HOUSEKEEPING_GENES, CREBP1_Q2, AP2_Q3, GOBP_MALE_GAMETE_GENERATION, GOBP_NEGATIVE_REGULATION_OF_CELLULAR_COMPONENT_ORGANIZATION, GOBP_TRANSLATION, CREB_Q4, YGACNNYACAR_UNKNOWN, GOBP_MUSCLE_STRUCTURE_DEVELOPMENT, GOBP_MUSCLE_CONTRACTION

GO Biological Process (2): cytoplasmic translation (GO:0002181), translation (GO:0006412)

GO Molecular Function (5): RNA binding (GO:0003723), mRNA 3’-UTR binding (GO:0003730), structural constituent of ribosome (GO:0003735), mRNA 5’-UTR binding (GO:0048027), protein binding (GO:0005515)

GO Cellular Component (6): cytoplasm (GO:0005737), endoplasmic reticulum (GO:0005783), cytosol (GO:0005829), cytosolic large ribosomal subunit (GO:0022625), ribosome (GO:0005840), ribonucleoprotein complex (GO:1990904)

Reactome top-level categories

Rollup of top-11 pathways:

Category	Pathways
Translation	3
Ribosome-associated quality control	3
Cap-dependent Translation Initiation	2
Nonsense-Mediated Decay (NMD)	2
Eukaryotic Translation Initiation	1
Eukaryotic Translation Elongation	1
Influenza Viral RNA Transcription and Replication	1
Selenoamino acid metabolism	1
rRNA processing in the nucleus and cytosol	1
Signaling by ROBO receptors	1
Cellular response to starvation	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
mRNA binding	2
cellular anatomical structure	2
cytoplasm	2
translation	1
peptidyltransferase activity	1
translational initiation	1
translational elongation	1
translational termination	1
macromolecule biosynthetic process	1
protein metabolic process	1
protein biosynthetic process	1
nucleic acid binding	1
structural molecule activity	1
ribosome	1
binding	1
intracellular anatomical structure	1
endomembrane system	1
intracellular membrane-bounded organelle	1
large ribosomal subunit	1
cytosolic ribosome	1
intracellular membraneless organelle	1
protein-containing complex	1

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

22 interactions, top by confidence:

A	B	Type	Score
RACK1	RPS17	psi-mi:“MI:0915”(physical association)	0.610
RPL41	SDCBP2	psi-mi:“MI:0915”(physical association)	0.560
RPL41	DAPK1	psi-mi:“MI:0407”(direct interaction)	0.440
RPL41	SRPK2	psi-mi:“MI:0217”(phosphorylation reaction)	0.440
NUPR1	RPL41	psi-mi:“MI:0915”(physical association)	0.370
	RPS17	psi-mi:“MI:0915”(physical association)	0.320
	EIF3F	psi-mi:“MI:0915”(physical association)	0.320
	RPLP0	psi-mi:“MI:0915”(physical association)	0.320
rep		psi-mi:“MI:0915”(physical association)	0.320
RPL41	MAPK14	psi-mi:“MI:0915”(physical association)	0.000
RPL41	SDCBP2	psi-mi:“MI:0915”(physical association)	0.000
PRNP	RPL41	psi-mi:“MI:0407”(direct interaction)	0.000
RPL41	CTNNB1	psi-mi:“MI:0915”(physical association)	0.000
IKBKG	RPL41	psi-mi:“MI:0407”(direct interaction)	0.000

BioGRID (12): RPL41 (Two-hybrid), RPL41 (Reconstituted Complex), RPL41 (Reconstituted Complex), RPL41 (Two-hybrid), RPL41 (Affinity Capture-RNA), RPL41 (Protein-RNA), RPL41 (Affinity Capture-RNA), RPL41 (Reconstituted Complex), RPL41 (Two-hybrid), RPL41 (Reconstituted Complex), APP (Reconstituted Complex), RPL41 (Biochemical Activity)

ESM2 similar proteins: A0A087WNH4, B1NWE8, E2QXF3, G1T0C1, O49224, O82713, P0A5D0, P0CT81, P0CT82, P0CX86, P0CX87, P40590, P47830, P51417, P61313, P61314, P62120, P62121, P62122, P62123, P62124, P62125, P62945, P62946, P62947, P62948, P62949, P78569, P79324, P9WER7, P9WKT4, P9WKT5, Q4R5B2, Q5EAD6, Q5NVE0, Q5RFG9, Q6YLX4, Q71H53, Q75AH3, Q7KF89

SIGNOR signaling

1 interactions.

A	Effect	B	Mechanism
RPL41	“form complex”	“60S cytosolic large ribosomal subunit”	binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 13 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.

GO biological processes:

GO term	Partners	Fold	FDR
intracellular signal transduction	5	15.9×	1e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

321 predictions. Top by Δscore:

Variant	Effect	Δscore
12:56117159:A:AG	acceptor_gain	1.0000
12:56116658:GG:G	donor_gain	0.9900
12:56116659:GG:G	donor_gain	0.9900
12:56116815:T:TA	donor_gain	0.9900
12:56116816:A:AA	donor_gain	0.9900
12:56117160:A:G	acceptor_gain	0.9900
12:56117161:T:G	acceptor_gain	0.9900
12:56117163:A:AG	acceptor_gain	0.9900
12:56117163:ATCT:A	acceptor_gain	0.9900
12:56117164:T:G	acceptor_gain	0.9900
12:56117166:T:TA	acceptor_gain	0.9900
12:56117188:G:GA	acceptor_gain	0.9900
12:56116656:TTGGG:T	donor_loss	0.9800
12:56116657:TGGG:T	donor_loss	0.9800
12:56116658:GGGT:G	donor_loss	0.9800
12:56116659:GGT:G	donor_loss	0.9800
12:56116660:G:C	donor_loss	0.9800
12:56116661:T:A	donor_loss	0.9800
12:56116797:AAG:A	donor_loss	0.9800
12:56116799:GG:G	donor_loss	0.9800
12:56116801:T:A	donor_loss	0.9800
12:56117476:TTTCA:T	acceptor_loss	0.9800
12:56117478:TCAG:T	acceptor_loss	0.9800
12:56117479:CAGG:C	acceptor_loss	0.9800
12:56117480:A:AG	acceptor_gain	0.9800
12:56117480:AGGC:A	acceptor_loss	0.9800
12:56117481:G:GG	acceptor_gain	0.9800
12:56117481:GGCT:G	acceptor_gain	0.9800
12:56116660:G:GG	donor_gain	0.9700
12:56116662:GAGTG:G	donor_loss	0.9700

AlphaMissense

160 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
12:56117194:G:C	R6S	0.904
12:56117194:G:T	R6S	0.904
12:56117497:A:C	R17S	0.846
12:56117497:A:T	R17S	0.846
12:56117490:G:C	R15P	0.838
12:56117494:A:C	K16N	0.835
12:56117494:A:T	K16N	0.835
12:56117193:G:C	R6T	0.820
12:56117191:G:C	W5C	0.819
12:56117191:G:T	W5C	0.819
12:56117189:T:A	W5R	0.804
12:56117189:T:C	W5R	0.804
12:56116793:A:C	R2S	0.795
12:56116793:A:T	R2S	0.795
12:56117493:A:T	K16I	0.787
12:56117488:G:C	K14N	0.774
12:56117488:G:T	K14N	0.774
12:56117193:G:T	R6M	0.771
12:56117202:G:C	R9P	0.770
12:56117208:G:C	R11P	0.760
12:56117207:C:A	R11S	0.746
12:56117489:C:A	R15S	0.745
12:56117493:A:C	K16T	0.721
12:56117500:A:C	R18S	0.721
12:56117500:A:T	R18S	0.721
12:56117496:G:C	R17T	0.716
12:56116792:G:T	R2I	0.679
12:56117492:A:G	K16E	0.671
12:56117484:T:C	L13P	0.668
12:56117509:G:C	R21S	0.664

dbSNP variants (sampled 300 via entrez): RS1000210094 (12:56115412 C>A,T), RS1000303257 (12:56115764 C>T), RS1001181999 (12:56118101 T>C,G), RS1001226144 (12:56115317 C>T), RS1001692193 (12:56117959 T>C), RS1003447300 (12:56115201 CAAAA>C,CA,CAA), RS1003499716 (12:56115548 C>G), RS1004198045 (12:56116090 G>A), RS1004333921 (12:56116265 G>C), RS1004628577 (12:56118308 G>A), RS1005873643 (12:56114688 G>A), RS1006010029 (12:56114998 T>C), RS1006913707 (12:56114732 GCAGATCAC>G), RS1007918516 (12:56116211 AAAGAAAGAAAG>A), RS1010383857 (12:56115133 T>C)

Disease associations

OMIM: gene MIM:613315 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

5 associations (top):

Study	Trait	p-value
GCST001156_8	Systemic sclerosis	6.000000e-08
GCST004367_1	Anorexia nervosa	4.000000e-09
GCST007563_23	Allergic disease (asthma, hay fever or eczema)	4.000000e-10
GCST007564_9	Asthma or allergic disease (pleiotropy)	1.000000e-13
GCST008916_124	Asthma	1.000000e-16

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL3987582 (PROTEIN NUCLEIC-ACID COMPLEX)

Molecules with ChEMBL bioactivity

1 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds).

Molecule	Name	Phase	Patents
CHEMBL6067484	GENTAMICIN SULFATE	4

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

ChEMBL bioactivities

46 potent at pChembl≥5 of 50 total, top 45 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChembl	Type	Value	Unit	Molecule
6.52	IC50	300	nM	CHEMBL4109308
6.42	IC50	380	nM	CHEMBL4109308
6.42	IC50	380	nM	CHEMBL4574496
6.41	IC50	390	nM	CHEMBL4126894
6.39	IC50	410	nM	CHEMBL4114159
6.35	IC50	450	nM	CHEMBL4126496
6.30	IC50	500	nM	CHEMBL4574496
6.30	IC50	500	nM	CHEMBL4560206
6.16	IC50	690	nM	CHEMBL4130157
6.15	IC50	710	nM	CHEMBL4108338
6.11	IC50	780	nM	CHEMBL4114159
6.09	IC50	820	nM	CHEMBL4109308
6.07	IC50	850	nM	CHEMBL4107559
6.07	IC50	850	nM	CHEMBL4533299
6.05	IC50	900	nM	CHEMBL4126894
6.05	IC50	900	nM	CHEMBL4126496
6.04	IC50	920	nM	CHEMBL4554909
5.97	IC50	1060	nM	CHEMBL4128388
5.89	IC50	1290	nM	CHEMBL4130157
5.86	IC50	1370	nM	CHEMBL4107559
5.84	IC50	1440	nM	CHEMBL4108338
5.81	IC50	1540	nM	CHEMBL4534859
5.76	IC50	1730	nM	CHEMBL4534859
5.69	IC50	2050	nM	CHEMBL4566239
5.68	IC50	2080	nM	CHEMBL4446635
5.66	IC50	2210	nM	CHEMBL4446635
5.66	EC50	2200	nM	CHEMBL4464929
5.64	IC50	2270	nM	CHEMBL4533299
5.63	IC50	2330	nM	CHEMBL4566239
5.62	IC50	2380	nM	CHEMBL4128388
5.58	IC50	2630	nM	CHEMBL4128250
5.55	IC50	2820	nM	CHEMBL4127458
5.53	IC50	2970	nM	CHEMBL4127311
5.51	IC50	3080	nM	CHEMBL4126072
5.46	IC50	3500	nM	CHEMBL4525277
5.44	IC50	3630	nM	CHEMBL4469712
5.39	IC50	4100	nM	CHEMBL4128560
5.37	IC50	4300	nM	CHEMBL4127016
5.36	IC50	4380	nM	CHEMBL4527910
5.16	IC50	7000	nM	CHEMBL4109308
5.13	IC50	7400	nM	CHLORAMPHENICOL SULFATE SALT
5.09	IC50	8040	nM	CHEMBL4128250
5.08	IC50	8370	nM	CHEMBL4128250
5.03	IC50	9320	nM	CHEMBL4127016
5.03	IC50	9240	nM	CHEMBL4128560

PubChem BioAssay actives

46 with measured affinity, of 205 total; 26 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

Compound	Assay	Type	Value	Unit
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-4-(triazolo[4,5-b]pyridin-3-yl)benzamide	1585498: Binding affinity to 80S ribosome in human HuH7 cells expressing human C-terminal V5/6-His-tagged PCSK9 assessed as inhibition of PCSK9 secretion after 16 to 24 hrs by AlphaLISA method	ic50	0.3000	uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-3-[4-(triazolo[4,5-b]pyridin-3-yl)phenyl]propanamide	1532845: Binding affinity to 80S ribosome in human HuH7 cells harboring human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.3800	uM
N-isoquinolin-1-yl-N-[(3R)-piperidin-3-yl]-4-(triazolo[4,5-b]pyridin-3-yl)benzamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.3900	uM
N-(3-chloro-2-pyridinyl)-4-(6-methyltriazolo[4,5-b]pyridin-3-yl)-N-[(3R)-piperidin-3-yl]benzamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.4100	uM
N-(3-chloro-2-pyridinyl)-4-(5-methyltriazolo[4,5-b]pyridin-3-yl)-N-[(3R)-piperidin-3-yl]benzamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.4500	uM
N-(1-methylpyrrolo[2,3-c]pyridin-7-yl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide	1532846: Binding affinity to 80S ribosome in human HeLa cells lysates using human full length PCSK9 encoding mRNAs assessed as inhibition of PCSK9 mRNA translation after 45 mins by Steady-Glo luciferase reporter gene assay	ic50	0.5000	uM
N-isoquinolin-1-yl-N-[(3R)-piperidin-3-yl]-4-pyrazolo[1,5-a]pyrimidin-3-ylbenzamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.6900	uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-5-(triazolo[4,5-b]pyridin-3-yl)pyridine-2-carboxamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.7100	uM
N-(3-chloro-2-pyridinyl)-3-[5-(6-methyltriazolo[4,5-b]pyridin-3-yl)-2-pyridinyl]-N-[(3R)-piperidin-3-yl]propanamide	1532845: Binding affinity to 80S ribosome in human HuH7 cells harboring human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.8500	uM
N-(3-chloro-2-pyridinyl)-5-(6-methyltriazolo[4,5-b]pyridin-3-yl)-N-[(3R)-piperidin-3-yl]pyridine-2-carboxamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	0.8500	uM
N-(3-methyl-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-4-pyrazolo[1,5-a]pyrimidin-3-ylpiperidine-1-carboxamide	1532846: Binding affinity to 80S ribosome in human HeLa cells lysates using human full length PCSK9 encoding mRNAs assessed as inhibition of PCSK9 mRNA translation after 45 mins by Steady-Glo luciferase reporter gene assay	ic50	0.9200	uM
N-isoquinolin-1-yl-4-(1-methylpyrazol-4-yl)-N-[(3R)-piperidin-3-yl]benzamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	1.0600	uM
N-isoquinolin-1-yl-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide	1532846: Binding affinity to 80S ribosome in human HeLa cells lysates using human full length PCSK9 encoding mRNAs assessed as inhibition of PCSK9 mRNA translation after 45 mins by Steady-Glo luciferase reporter gene assay	ic50	1.5400	uM
N-(3-methyl-2-pyridinyl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide	1532845: Binding affinity to 80S ribosome in human HuH7 cells harboring human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	2.0500	uM
N-(3-chloro-2-pyridinyl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide	1532846: Binding affinity to 80S ribosome in human HeLa cells lysates using human full length PCSK9 encoding mRNAs assessed as inhibition of PCSK9 mRNA translation after 45 mins by Steady-Glo luciferase reporter gene assay	ic50	2.0800	uM
N-(5,8-dihydroisoquinolin-1-yl)-3-(4-methoxyphenyl)-N-[(3R)-piperidin-3-yl]propanamide	1584424: Inhibition of human 80S ribosome-mediated PCSK9 translation expressed in CHO-K1 cells assessed as reduction in PCSK9 secretion	ec50	2.2000	uM
N-isoquinolin-1-yl-3-(4-methoxyphenyl)-N-[(3R)-piperidin-3-yl]propanamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	2.6300	uM
N-(3-chloro-2-pyridinyl)-4-(6-methylpyrazin-2-yl)-N-[(3R)-piperidin-3-yl]benzamide	1497963: Binding affinity to 80S ribosome in human HuH7 cells assessed as inhibition of PCSK9 mRNA translation after overnight incubation by ELISA	ic50	2.8200	uM
N-(3-chloro-2-pyridinyl)-4-[6-(dimethylamino)pyrazin-2-yl]-N-[(3R)-piperidin-3-yl]benzamide	1497963: Binding affinity to 80S ribosome in human HuH7 cells assessed as inhibition of PCSK9 mRNA translation after overnight incubation by ELISA	ic50	2.9700	uM
N-(3-chloro-2-pyridinyl)-4-[6-(methylamino)pyrazin-2-yl]-N-[(3R)-piperidin-3-yl]benzamide	1497963: Binding affinity to 80S ribosome in human HuH7 cells assessed as inhibition of PCSK9 mRNA translation after overnight incubation by ELISA	ic50	3.0800	uM
N-isoquinolin-1-yl-4-(6-methyl-1,2-benzoxazol-3-yl)-N-[(3R)-piperidin-3-yl]piperazine-1-carboxamide	1532845: Binding affinity to 80S ribosome in human HuH7 cells harboring human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	3.5000	uM
N-(3-methylpyrazin-2-yl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide	1532846: Binding affinity to 80S ribosome in human HeLa cells lysates using human full length PCSK9 encoding mRNAs assessed as inhibition of PCSK9 mRNA translation after 45 mins by Steady-Glo luciferase reporter gene assay	ic50	3.6300	uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-6-(triazolo[4,5-b]pyridin-3-yl)pyridine-3-carboxamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	4.1000	uM
N-isoquinolin-1-yl-N-[(3R)-piperidin-3-yl]-4-pyrazin-2-ylbenzamide	1497947: Binding affinity to 80S ribosome in human HuH7 cells harboring pCMV-truncated human PCSK9 (1 to 152 residues)-proLuc assessed as inhibition of PCSK9 mRNA translation after overnight incubation by luciferase reporter gene assay	ic50	4.3000	uM
4-(2-fluorophenyl)-N-(3-methyl-2-pyridinyl)-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide	1532846: Binding affinity to 80S ribosome in human HeLa cells lysates using human full length PCSK9 encoding mRNAs assessed as inhibition of PCSK9 mRNA translation after 45 mins by Steady-Glo luciferase reporter gene assay	ic50	4.3800	uM
2,2-dichloro-N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]acetamide;sulfuric acid	717551: Inhibition of mitochondrial ribosome-mediated protein synthesis in human HeLa cells assessed as {35S]methionine incorporation by autoradiography	ic50	7.4000	uM

CTD chemical–gene interactions

31 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
bisphenol A	affects expression, decreases expression	2
Estradiol	decreases expression, decreases reaction, increases reaction	2
Valproic Acid	increases expression, increases methylation, affects cotreatment	2
dicrotophos	decreases expression	1
triphenyl phosphate	affects expression	1
tris(2-butoxyethyl) phosphate	increases expression	1
beta-lapachone	increases expression	1
arsenite	increases reaction, affects binding	1
methylparaben	decreases expression	1
3,3’-diindolylmethane	decreases expression, decreases reaction	1
CGP 52608	affects binding, increases reaction	1
chloropicrin	decreases expression	1
3-(4’-hydroxy-3’-adamantylbiphenyl-4-yl)acrylic acid	decreases expression	1
jinfukang	affects cotreatment, increases expression	1
Resveratrol	affects cotreatment, decreases expression, increases expression	1
Artesunate	decreases response to substance	1
Air Pollutants	decreases expression, increases abundance	1
Arsenic	affects methylation	1
Cisplatin	affects cotreatment, increases expression	1
Enzyme Inhibitors	decreases activity, increases O-linked glycosylation	1
Hydralazine	affects cotreatment, increases expression	1
Plant Extracts	affects cotreatment, decreases expression, increases expression	1
Potassium Dichromate	increases expression	1
Smoke	decreases expression, increases abundance	1
Tetrachlorodibenzodioxin	decreases expression, increases reaction	1
Dronabinol	decreases expression	1
Tobacco Smoke Pollution	increases methylation	1
Aflatoxin B1	decreases methylation	1
Copper Sulfate	decreases expression	1
Lactic Acid	increases expression	1

ChEMBL screening assays

89 unique, capped per target: 89 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL1920845	Binding	Induction of ribosome to readthrough in human A-T lymphoblastoid cells assessed as ATM ser1981 autophosphorylation at 30 uM after 4 days by PTT-ELISA assay	Synthesis and evaluation of compounds that induce readthrough of premature termination codons. — Bioorg Med Chem Lett

Clinical trials (associated diseases)

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