RPL35

gene
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Also known as L35uL29

Summary

RPL35 (ribosomal protein L35, HGNC:10344) is a protein-coding gene on chromosome 9q33.3, encoding Large ribosomal subunit protein uL29 (P42766). Component of the large ribosomal subunit. It is a common-essential gene (DepMap: required in 100.0% of cancer cell lines).

Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 60S subunit. The protein belongs to the L29P family of ribosomal proteins. It is located in the cytoplasm. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome.

Source: NCBI Gene 11224 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): Diamond-Blackfan anemia (Supportive, GenCC) — +1 more curated relationship
  • Clinical variants (ClinVar): 87 total — 1 pathogenic
  • Phenotypes (HPO): 59
  • Druggable target: yes — 1 molecules with ChEMBL bioactivity
  • Cancer dependency (DepMap): dependent in 100.0% of screened cell lines (common-essential)
  • MANE Select transcript: NM_007209

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:10344
Approved symbolRPL35
Nameribosomal protein L35
Location9q33.3
Locus typegene with protein product
StatusApproved
AliasesL35, uL29
Ensembl geneENSG00000136942
Ensembl biotypeprotein_coding
OMIM618315
Entrez11224

Gene structure

Transcript identifiers

Ensembl transcripts: 18 — 15 protein_coding, 2 retained_intron, 1 nonsense_mediated_decay

ENST00000348462, ENST00000373570, ENST00000487431, ENST00000493018, ENST00000495728, ENST00000629845, ENST00000932676, ENST00000932677, ENST00000932678, ENST00000932679, ENST00000932680, ENST00000932681, ENST00000932682, ENST00000932683, ENST00000932684, ENST00000932685, ENST00000932686, ENST00000945448

RefSeq mRNA: 1 — MANE Select: NM_007209 NM_007209

CCDS: CCDS6858

Canonical transcript exons

ENST00000348462 — 4 exons

ExonStartEnd
ENSE00000806657124861419124861555
ENSE00001955318124857883124858067
ENSE00003684755124860183124860264
ENSE00003848319124861910124861957

Expression profiles

Bgee: expression breadth ubiquitous, 295 present calls, max score 99.85.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 1057.4635 / max 8011.7434, expressed in 1828 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
1024531041.62761828
10245215.74351777
1024510.092435

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
skin of abdomenUBERON:000141699.85gold quality
skin of legUBERON:000151199.85gold quality
lower esophagus mucosaUBERON:003583499.85gold quality
upper leg skinUBERON:000426299.84gold quality
zone of skinUBERON:000001499.83gold quality
adenohypophysisUBERON:000219699.83gold quality
right testisUBERON:000453499.83gold quality
endometrium epitheliumUBERON:000481199.83gold quality
right uterine tubeUBERON:000130299.82gold quality
left ovaryUBERON:000211999.82gold quality
left testisUBERON:000453399.82gold quality
olfactory segment of nasal mucosaUBERON:000538699.82gold quality
pituitary glandUBERON:000000799.81gold quality
body of pancreasUBERON:000115099.81gold quality
skin of hipUBERON:000155499.81gold quality
right ovaryUBERON:000211899.81gold quality
calcaneal tendonUBERON:000370199.81gold quality
lymph nodeUBERON:000002999.80gold quality
endocervixUBERON:000045899.80gold quality
right lobe of thyroid glandUBERON:000111999.80gold quality
left lobe of thyroid glandUBERON:000112099.80gold quality
periodontal ligamentUBERON:000826699.80gold quality
ectocervixUBERON:001224999.80gold quality
granulocyteCL:000009499.79gold quality
peritoneumUBERON:000235899.79gold quality
adipose tissue of abdominal regionUBERON:000780899.79gold quality
body of uterusUBERON:000985399.79gold quality
omental fat padUBERON:001041499.79gold quality
muscle layer of sigmoid colonUBERON:003580599.79gold quality
mammalian vulvaUBERON:000099799.78gold quality

Single-cell (SCXA)

Detected in 26 experiment(s), a significant marker in 10.

ExperimentMarker?Max mean expression
E-ENAD-17yes894.27
E-MTAB-9801yes396.31
E-MTAB-9221yes54.85
E-CURD-88yes53.09
E-CURD-112yes42.03
E-CURD-122yes20.95
E-MTAB-10042yes13.37
E-HCAD-35yes9.08
E-HCAD-31yes4.37
E-MTAB-8205no5795.47
E-MTAB-8410no5617.43
E-CURD-98no5501.40
E-GEOD-89232no2387.70
E-MTAB-10137no1003.91
E-MTAB-8142no136.81

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): MYC

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 100.0% of screened cell lines, common-essential.

Literature-anchored findings (GeneRIF, showing 2)

  • The eukaryotic expansion segment at the C-terminal end of human ribosomal protein L35 was essential for the nuclear import of L35. (PMID:18523488)
  • This study therefore identifies lncNB1 and its binding protein RPL35 as key factors for promoting E2F1 protein synthesis, N-Myc protein stability and N-Myc-driven oncogenesis, and as therapeutic targets. (PMID:31690716)

Cross-species orthologs

9 orthologs

OrganismSymbolGene ID
danio_reriorpl35ENSDARG00000018334
mus_musculusRpl35ENSMUSG00000062997
mus_musculusRpl35rtENSMUSG00000078193
rattus_norvegicusLOC120093238ENSRNOG00000014272
rattus_norvegicusAABR07031666.1ENSRNOG00000030364
rattus_norvegicusENSRNOG00000071787
rattus_norvegicusENSRNOG00000084827
drosophila_melanogasterRpL35FBGN0029785
caenorhabditis_elegansWBGENE00004449

Paralogs (2): STT3A (ENSG00000134910), STT3B (ENSG00000163527)

Protein

Protein identifiers

Large ribosomal subunit protein uL29P42766 (reviewed: P42766)

Alternative names: 60S ribosomal protein L35

All UniProt accessions (2): P42766, F2Z388

UniProt curated annotations — full annotation on UniProt →

Function. Component of the large ribosomal subunit. The ribosome is a large ribonucleoprotein complex responsible for the synthesis of proteins in the cell.

Subunit / interactions. Component of the large ribosomal subunit.

Subcellular location. Cytoplasm.

Disease relevance. Diamond-Blackfan anemia 19 (DBA19) [MIM:618312] A form of Diamond-Blackfan anemia, a congenital non-regenerative hypoplastic anemia that usually presents early in infancy. Diamond-Blackfan anemia is characterized by a moderate to severe macrocytic anemia, erythroblastopenia, and an increased risk of malignancy. 30 to 40% of Diamond-Blackfan anemia patients present with short stature and congenital anomalies, the most frequent being craniofacial (Pierre-Robin syndrome and cleft palate), thumb and urogenital anomalies. DBA19 inheritance is autosomal dominant. The disease may be caused by variants affecting the gene represented in this entry.

Similarity. Belongs to the universal ribosomal protein uL29 family.

RefSeq proteins (1): NP_009140* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001854Ribosomal_uL29Family
IPR018254Ribosomal_uL29_CSConserved_site
IPR036049Ribosomal_uL29_sfHomologous_superfamily
IPR045059Ribosomal_uL29_eukFamily

Pfam: PF00831

UniProt features (10 total): modified residue 3, initiator methionine 1, chain 1, region of interest 1, compositionally biased region 1, cross-link 1, sequence variant 1, sequence conflict 1

Structure

Experimental structures (PDB)

199 structures, top 30 by resolution.

PDBMethodResolution (Å)
8A3DELECTRON MICROSCOPY1.67
8GLPELECTRON MICROSCOPY1.67
8QYXELECTRON MICROSCOPY1.78
8QOIELECTRON MICROSCOPY1.9
9O3WELECTRON MICROSCOPY1.9
8YOOELECTRON MICROSCOPY2
9C3HELECTRON MICROSCOPY2
9I2DELECTRON MICROSCOPY2.19
9PBEELECTRON MICROSCOPY2.19
8QFDELECTRON MICROSCOPY2.2
8YOPELECTRON MICROSCOPY2.2
9GULELECTRON MICROSCOPY2.2
9O3VELECTRON MICROSCOPY2.2
9O3YELECTRON MICROSCOPY2.2
8JDKELECTRON MICROSCOPY2.26
8G5YELECTRON MICROSCOPY2.29
9S3DELECTRON MICROSCOPY2.32
9RPVELECTRON MICROSCOPY2.35
9S3BELECTRON MICROSCOPY2.38
7OW7ELECTRON MICROSCOPY2.4
8K2CELECTRON MICROSCOPY2.4
8XSXELECTRON MICROSCOPY2.4
9SPFELECTRON MICROSCOPY2.4
9SPIELECTRON MICROSCOPY2.4
8JDLELECTRON MICROSCOPY2.42
9S3CELECTRON MICROSCOPY2.42
8FKVELECTRON MICROSCOPY2.47
9QLOELECTRON MICROSCOPY2.47
8FLEELECTRON MICROSCOPY2.48
9P8BELECTRON MICROSCOPY2.48

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P42766-F194.730.95

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (4): 19, 29, 43, 25

Function

Pathways and Gene Ontology

Reactome pathways

16 pathways

IDPathway
R-HSA-156827L13a-mediated translational silencing of Ceruloplasmin expression
R-HSA-156902Peptide chain elongation
R-HSA-1799339SRP-dependent cotranslational protein targeting to membrane
R-HSA-192823Viral mRNA Translation
R-HSA-2408557Selenocysteine synthesis
R-HSA-6791226Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-72689Formation of a pool of free 40S subunits
R-HSA-72706GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-72764Eukaryotic Translation Termination
R-HSA-9010553Regulation of expression of SLITs and ROBOs
R-HSA-9633012Response of EIF2AK4 (GCN2) to amino acid deficiency
R-HSA-975956Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-HSA-975957Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-HSA-9954709Ribosome Quality Control (RQC) complex extracts and degrades nascent peptide
R-HSA-9954714PELO:HBS1L and ABCE1 dissociate a ribosome on a non-stop mRNA
R-HSA-9954716ZNF598 and the Ribosome-associated Quality Trigger (RQT) complex dissociate a ribosome stalled on a no-go mRNA

MSigDB gene sets: 377 (showing top): GOBP_CYTOPLASMIC_TRANSLATION, GOBP_RIBOSOME_BIOGENESIS, MODULE_151, ENK_UV_RESPONSE_KERATINOCYTE_UP, GCM_NPM1, GRAESSMANN_APOPTOSIS_BY_SERUM_DEPRIVATION_UP, GOBP_STRIATED_MUSCLE_CELL_DIFFERENTIATION, HSIAO_HOUSEKEEPING_GENES, GOBP_MALE_GAMETE_GENERATION, GOBP_NEGATIVE_REGULATION_OF_CELLULAR_COMPONENT_ORGANIZATION, GOBP_TRANSLATION, GOBP_MUSCLE_STRUCTURE_DEVELOPMENT, GOBP_MUSCLE_CONTRACTION, GOBP_REGULATION_OF_SYNCYTIUM_FORMATION_BY_PLASMA_MEMBRANE_FUSION, GOBP_MATURATION_OF_LSU_RRNA

GO Biological Process (3): maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000463), cytoplasmic translation (GO:0002181), translation (GO:0006412)

GO Molecular Function (3): RNA binding (GO:0003723), mRNA binding (GO:0003729), structural constituent of ribosome (GO:0003735)

GO Cellular Component (9): nucleolus (GO:0005730), cytoplasm (GO:0005737), cytosol (GO:0005829), membrane (GO:0016020), cytosolic large ribosomal subunit (GO:0022625), cytosolic ribosome (GO:0022626), ribosome (GO:0005840), large ribosomal subunit (GO:0015934), ribonucleoprotein complex (GO:1990904)

Reactome top-level categories

Rollup of top-11 pathways:

CategoryPathways
Ribosome-associated quality control3
Translation2
Cap-dependent Translation Initiation2
Nonsense-Mediated Decay (NMD)2
Eukaryotic Translation Initiation1
Eukaryotic Translation Elongation1
Influenza Viral RNA Transcription and Replication1
Selenoamino acid metabolism1
rRNA processing in the nucleus and cytosol1
Signaling by ROBO receptors1
Cellular response to starvation1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure3
ribosome2
intracellular membraneless organelle2
maturation of LSU-rRNA1
translation1
peptidyltransferase activity1
translational initiation1
translational elongation1
translational termination1
macromolecule biosynthetic process1
protein metabolic process1
protein biosynthetic process1
nucleic acid binding1
RNA binding1
structural molecule activity1
nuclear lumen1
intracellular anatomical structure1
cytoplasm1
large ribosomal subunit1
cytosolic ribosome1
cytosol1
ribosomal subunit1
protein-containing complex1

Protein interactions and networks

STRING

3783 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
RPL35RPL11P25121868
RPL35RPL31P12947817
RPL35RPL27P08526804
RPL35RPL5P46777802
RPL35RPL26P61254799
RPL35RPS3P23396757
RPL35RPS27P42677746
RPL35RPL38P23411743
RPL35RPL19P14118731
RPL35RPS9P46781731
RPL35RPS26P02383730
RPL35RPL8P25120727
RPL35RPL34P49207726
RPL35RPL23AP29316721
RPL35RPL29P47914718

IntAct

307 interactions, top by confidence:

ABTypeScore
CFTRESYT2psi-mi:“MI:0914”(association)0.710
LIN28AIGF2BP3psi-mi:“MI:0914”(association)0.640
RACK1RPS17psi-mi:“MI:0915”(physical association)0.610
MAPTKIF2Apsi-mi:“MI:0914”(association)0.530
NRBM47psi-mi:“MI:0914”(association)0.530
DDX6MCRIP1psi-mi:“MI:0914”(association)0.510
PA2G4RPL35psi-mi:“MI:0915”(physical association)0.500
CFTRPLEKHG3psi-mi:“MI:0914”(association)0.480
TBPL1RPL35psi-mi:“MI:0915”(physical association)0.400
CFAP47RPL35psi-mi:“MI:0915”(physical association)0.400
C10orf120RPL35psi-mi:“MI:0915”(physical association)0.400
Rpl35RPL36Apsi-mi:“MI:0915”(physical association)0.400
FER1L5psi-mi:“MI:0915”(physical association)0.400
GNAT3psi-mi:“MI:0915”(physical association)0.400
LAMC3RPL35psi-mi:“MI:0915”(physical association)0.370
RPL35ACTN2psi-mi:“MI:0915”(physical association)0.370
ADH4RPL35psi-mi:“MI:0915”(physical association)0.370
RPL35CDKN1Apsi-mi:“MI:0915”(physical association)0.370
RPL10RPS6psi-mi:“MI:0914”(association)0.350
Brwd3WDR91psi-mi:“MI:0914”(association)0.350
TMPOpsi-mi:“MI:0914”(association)0.350
Rrbp1PIPSLpsi-mi:“MI:0914”(association)0.350
Ccdc77TBC1D31psi-mi:“MI:0914”(association)0.350

BioGRID (751): RPL35 (Affinity Capture-MS), RPL35 (Affinity Capture-MS), RPL35 (Affinity Capture-MS), RPL35 (Affinity Capture-MS), PABPC1 (Co-fractionation), RNPS1 (Co-fractionation), RPL10 (Co-fractionation), RPL10A (Co-fractionation), RPL10L (Co-fractionation), RPL11 (Co-fractionation), RPL12 (Co-fractionation), RPL13 (Co-fractionation), RPL13A (Co-fractionation), RPL14 (Co-fractionation), RPL15 (Co-fractionation)

ESM2 similar proteins: A0A1D8PK30, A0A1D8PPE0, A9A4V0, G1SIT5, O74904, O77303, O80626, P0CX84, P0CX85, P0DJ51, P17078, P33192, P34662, P42766, P47772, P52817, Q03334, Q04PU6, Q0W938, Q12TM7, Q29361, Q2FS30, Q2VA69, Q3MHM7, Q4N756, Q4UIF8, Q54J23, Q54PH8, Q5DVH6, Q69CJ9, Q6PBC1, Q6UZF7, Q6ZWV7, Q72NG9, Q8I7D6, Q8I7U0, Q8JHJ1, Q8L805, Q8MUR2, Q8SQQ7

Diamond homologs: A0A1D8PK30, C4ZBS7, G1SIT5, O74904, O80626, P0CX84, P0CX85, P0DJ51, P17078, P34662, P42766, P52817, Q29361, Q2VA69, Q3MHM7, Q4N756, Q4UIF8, Q54J23, Q5DVH6, Q69CJ9, Q6PBC1, Q6UZF7, Q6ZWV7, Q8JHJ1, Q8L805, Q8SQQ7, Q8ST62, Q90YT4, Q98TF7, Q9LZ41, Q9M3D2, Q9M5L0, Q9SF53, A0B9W3, A1VEA8, A3DJI0, A3DNB4, A4FWB5, A4XBN8, A4XLS2

SIGNOR signaling

1 interactions.

AEffectBMechanism
RPL35“form complex”“60S cytosolic large ribosomal subunit”binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 179 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
SRP-dependent cotranslational protein targeting to membrane2115.7×7e-17
Eukaryotic Translation Termination1715.2×1e-13
Peptide chain elongation1615.2×3e-13
Viral mRNA Translation1615.2×3e-13
PELO:HBS1L and ABCE1 dissociate a ribosome on a non-stop mRNA1615.0×4e-13
Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)1714.9×1e-13
Selenocysteine synthesis1614.3×7e-13
GTP hydrolysis and joining of the 60S ribosomal subunit1914.2×2e-14

GO biological processes:

GO termPartnersFoldFDR
cytoplasmic translation2023.0×5e-19
stress granule assembly622.4×6e-05
ribosomal large subunit biogenesis616.5×3e-04
translational initiation613.4×8e-04
positive regulation of interferon-beta production512.2×5e-03
translation1912.1×8e-13
intrinsic apoptotic signaling pathway511.1×7e-03
ribosomal small subunit biogenesis79.9×9e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance34
Likely benign39
Benign7

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
617672NM_007209.4(RPL35):c.231G>C (p.Lys77Asn)Pathogenic

SpliceAI

466 predictions. Top by Δscore:

VariantEffectΔscore
9:124858066:CC:Cacceptor_gain1.0000
9:124858066:CCCTG:Cacceptor_loss1.0000
9:124858067:CC:Cacceptor_gain1.0000
9:124858068:C:CAacceptor_loss1.0000
9:124858069:T:Aacceptor_loss1.0000
9:124860178:CTCA:Cdonor_loss1.0000
9:124860179:TCAC:Tdonor_loss1.0000
9:124860180:CA:Cdonor_loss1.0000
9:124860181:A:ACdonor_gain1.0000
9:124860181:A:AGdonor_loss1.0000
9:124860182:C:CCdonor_gain1.0000
9:124860260:CTCGG:Cacceptor_gain1.0000
9:124860261:TCGG:Tacceptor_gain1.0000
9:124860262:CGG:Cacceptor_gain1.0000
9:124860262:CGGC:Cacceptor_gain1.0000
9:124860263:GG:Gacceptor_gain1.0000
9:124860265:C:CCacceptor_gain1.0000
9:124861414:CTTA:Cdonor_gain1.0000
9:124861415:TTAC:Tdonor_loss1.0000
9:124861416:TA:Tdonor_loss1.0000
9:124861417:A:ACdonor_gain1.0000
9:124861417:ACAT:Adonor_gain1.0000
9:124861418:C:CAdonor_gain1.0000
9:124861418:CA:Cdonor_gain1.0000
9:124861418:CAT:Cdonor_gain1.0000
9:124861418:CATC:Cdonor_gain1.0000
9:124861418:CATCT:Cdonor_gain1.0000
9:124861874:CAGCG:Cdonor_gain1.0000
9:124858063:TTGCC:Tacceptor_gain0.9900
9:124858065:GCC:Gacceptor_gain0.9900

AlphaMissense

778 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
9:124858016:G:TR92S1.000
9:124858042:A:GL83P1.000
9:124860199:A:GL69P1.000
9:124860217:T:GQ63P1.000
9:124860226:A:TV60D1.000
9:124860232:A:GL58P1.000
9:124860241:G:TA55D1.000
9:124860248:A:GS53P1.000
9:124861428:A:TL44H1.000
9:124861437:G:TA41D1.000
9:124861443:C:TG39D1.000
9:124861444:C:GG39R1.000
9:124861459:C:GA34P1.000
9:124861467:A:GL31P1.000
9:124861476:A:GL28P1.000
9:124861488:A:GL24P1.000
9:124861533:A:GL9P1.000
9:124858025:G:TR89S0.999
9:124858042:A:TL83Q0.999
9:124860199:A:TL69H0.999
9:124860207:T:AK66N0.999
9:124860207:T:GK66N0.999
9:124860211:T:GQ65P0.999
9:124860229:G:TT59K0.999
9:124860235:A:TV57D0.999
9:124860238:C:GR56P0.999
9:124860239:G:TR56S0.999
9:124860241:G:AA55V0.999
9:124860242:C:GA55P0.999
9:124860249:T:AK52N0.999

dbSNP variants (sampled 300 via entrez): RS1001371271 (9:124862510 T>A), RS1001506741 (9:124862844 T>A), RS1002335213 (9:124863073 C>T), RS1002377383 (9:124861692 T>G), RS1003259699 (9:124858792 A>T), RS1003741077 (9:124858598 C>A,T), RS1003803613 (9:124859050 C>A), RS1003923274 (9:124861315 C>A,T), RS1003997077 (9:124861136 G>A), RS1004893413 (9:124859681 A>C), RS1005007071 (9:124859791 T>C), RS1005577543 (9:124857541 G>A,C,T), RS1005607520 (9:124862287 G>A), RS1005877995 (9:124863741 T>C), RS1006012861 (9:124858746 C>G,T)

Disease associations

OMIM: gene MIM:618315 | disease phenotypes: MIM:618312

GenCC curated gene-disease

DiseaseClassificationInheritance
Diamond-Blackfan anemiaSupportiveAutosomal dominant
Diamond-Blackfan anemia 19LimitedUnknown

Mondo (2): Diamond-Blackfan anemia 19 (MONDO:0032669), Diamond-Blackfan anemia (MONDO:0015253)

Orphanet (0):

HPO phenotypes

59 total (30 of 59 shown, HPO-id order):

HPOTerm
HP:0000047Hypospadias
HP:0000085Horseshoe kidney
HP:0000104Renal agenesis
HP:0000119Abnormality of the genitourinary system
HP:0000185Cleft soft palate
HP:0000218High palate
HP:0000234Abnormality of the head
HP:0000252Microcephaly
HP:0000286Epicanthus
HP:0000294Low anterior hairline
HP:0000316Hypertelorism
HP:0000347Micrognathia
HP:0000369Low-set ears
HP:0000431Wide nasal bridge
HP:0000465Webbed neck
HP:0000470Short neck
HP:0000486Strabismus
HP:0000508Ptosis
HP:0000519Developmental cataract
HP:0000912Sprengel anomaly
HP:0000980Pallor
HP:0001087Developmental glaucoma
HP:0001199Triphalangeal thumb
HP:0001227Abnormality of the thenar eminence
HP:0001254Lethargy
HP:0001510Growth delay
HP:0001518Small for gestational age
HP:0001627Abnormal heart morphology
HP:0001629Ventricular septal defect
HP:0001631Atrial septal defect

GWAS associations

0 associations (top):

MeSH disease descriptors (1)

DescriptorNameTree numbers
D029503Anemia, Diamond-BlackfanC15.378.050.085.080.090; C15.378.050.750.500; C15.378.190.223.500.500.090; C16.320.077.090

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (2): CHEMBL3987582 (PROTEIN NUCLEIC-ACID COMPLEX), CHEMBL6066900 (SINGLE PROTEIN)

Molecules with ChEMBL bioactivity

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

MoleculeNamePhasePatents
CHEMBL6067484GENTAMICIN SULFATE4

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

ChEMBL bioactivities

48 potent at pChembl≥5 of 54 total, top 47 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
8.11Kd7.714nMCHEMBL5653589
8.11ED507.714nMCHEMBL5653589
6.52IC50300nMCHEMBL4109308
6.42IC50380nMCHEMBL4109308
6.42IC50380nMCHEMBL4574496
6.41IC50390nMCHEMBL4126894
6.39IC50410nMCHEMBL4114159
6.35IC50450nMCHEMBL4126496
6.30IC50500nMCHEMBL4574496
6.30IC50500nMCHEMBL4560206
6.16IC50690nMCHEMBL4130157
6.15IC50710nMCHEMBL4108338
6.11IC50780nMCHEMBL4114159
6.09IC50820nMCHEMBL4109308
6.07IC50850nMCHEMBL4107559
6.07IC50850nMCHEMBL4533299
6.05IC50900nMCHEMBL4126894
6.05IC50900nMCHEMBL4126496
6.04IC50920nMCHEMBL4554909
5.97IC501060nMCHEMBL4128388
5.89IC501290nMCHEMBL4130157
5.86IC501370nMCHEMBL4107559
5.84IC501440nMCHEMBL4108338
5.81IC501540nMCHEMBL4534859
5.76IC501730nMCHEMBL4534859
5.69IC502050nMCHEMBL4566239
5.68IC502080nMCHEMBL4446635
5.66IC502210nMCHEMBL4446635
5.66EC502200nMCHEMBL4464929
5.64IC502270nMCHEMBL4533299
5.63IC502330nMCHEMBL4566239
5.62IC502380nMCHEMBL4128388
5.58IC502630nMCHEMBL4128250
5.55IC502820nMCHEMBL4127458
5.53IC502970nMCHEMBL4127311
5.51IC503080nMCHEMBL4126072
5.46IC503500nMCHEMBL4525277
5.44IC503630nMCHEMBL4469712
5.39IC504100nMCHEMBL4128560
5.37IC504300nMCHEMBL4127016
5.36IC504380nMCHEMBL4527910
5.16IC507000nMCHEMBL4109308
5.13IC507400nMCHLORAMPHENICOL SULFATE SALT
5.09IC508040nMCHEMBL4128250
5.08IC508370nMCHEMBL4128250
5.03IC509320nMCHEMBL4127016
5.03IC509240nMCHEMBL4128560

PubChem BioAssay actives

47 with measured affinity, of 209 total; 27 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide2149264: Binding affinity to human RPL35 incubated for 45 mins by Kinobead based pull down assaykd0.0077uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-4-(triazolo[4,5-b]pyridin-3-yl)benzamide1585498: 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 methodic500.3000uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-3-[4-(triazolo[4,5-b]pyridin-3-yl)phenyl]propanamide1532845: 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 assayic500.3800uM
N-isoquinolin-1-yl-N-[(3R)-piperidin-3-yl]-4-(triazolo[4,5-b]pyridin-3-yl)benzamide1497947: 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 assayic500.3900uM
N-(3-chloro-2-pyridinyl)-4-(6-methyltriazolo[4,5-b]pyridin-3-yl)-N-[(3R)-piperidin-3-yl]benzamide1497947: 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 assayic500.4100uM
N-(3-chloro-2-pyridinyl)-4-(5-methyltriazolo[4,5-b]pyridin-3-yl)-N-[(3R)-piperidin-3-yl]benzamide1497947: 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 assayic500.4500uM
N-(1-methylpyrrolo[2,3-c]pyridin-7-yl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide1532846: 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 assayic500.5000uM
N-isoquinolin-1-yl-N-[(3R)-piperidin-3-yl]-4-pyrazolo[1,5-a]pyrimidin-3-ylbenzamide1497947: 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 assayic500.6900uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-5-(triazolo[4,5-b]pyridin-3-yl)pyridine-2-carboxamide1497947: 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 assayic500.7100uM
N-(3-chloro-2-pyridinyl)-3-[5-(6-methyltriazolo[4,5-b]pyridin-3-yl)-2-pyridinyl]-N-[(3R)-piperidin-3-yl]propanamide1532845: 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 assayic500.8500uM
N-(3-chloro-2-pyridinyl)-5-(6-methyltriazolo[4,5-b]pyridin-3-yl)-N-[(3R)-piperidin-3-yl]pyridine-2-carboxamide1497947: 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 assayic500.8500uM
N-(3-methyl-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-4-pyrazolo[1,5-a]pyrimidin-3-ylpiperidine-1-carboxamide1532846: 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 assayic500.9200uM
N-isoquinolin-1-yl-4-(1-methylpyrazol-4-yl)-N-[(3R)-piperidin-3-yl]benzamide1497947: 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 assayic501.0600uM
N-isoquinolin-1-yl-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide1532846: 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 assayic501.5400uM
N-(3-methyl-2-pyridinyl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide1532845: 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 assayic502.0500uM
N-(3-chloro-2-pyridinyl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide1532846: 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 assayic502.0800uM
N-(5,8-dihydroisoquinolin-1-yl)-3-(4-methoxyphenyl)-N-[(3R)-piperidin-3-yl]propanamide1584424: Inhibition of human 80S ribosome-mediated PCSK9 translation expressed in CHO-K1 cells assessed as reduction in PCSK9 secretionec502.2000uM
N-isoquinolin-1-yl-3-(4-methoxyphenyl)-N-[(3R)-piperidin-3-yl]propanamide1497947: 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 assayic502.6300uM
N-(3-chloro-2-pyridinyl)-4-(6-methylpyrazin-2-yl)-N-[(3R)-piperidin-3-yl]benzamide1497963: Binding affinity to 80S ribosome in human HuH7 cells assessed as inhibition of PCSK9 mRNA translation after overnight incubation by ELISAic502.8200uM
N-(3-chloro-2-pyridinyl)-4-[6-(dimethylamino)pyrazin-2-yl]-N-[(3R)-piperidin-3-yl]benzamide1497963: Binding affinity to 80S ribosome in human HuH7 cells assessed as inhibition of PCSK9 mRNA translation after overnight incubation by ELISAic502.9700uM
N-(3-chloro-2-pyridinyl)-4-[6-(methylamino)pyrazin-2-yl]-N-[(3R)-piperidin-3-yl]benzamide1497963: Binding affinity to 80S ribosome in human HuH7 cells assessed as inhibition of PCSK9 mRNA translation after overnight incubation by ELISAic503.0800uM
N-isoquinolin-1-yl-4-(6-methyl-1,2-benzoxazol-3-yl)-N-[(3R)-piperidin-3-yl]piperazine-1-carboxamide1532845: 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 assayic503.5000uM
N-(3-methylpyrazin-2-yl)-4-phenyl-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide1532846: 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 assayic503.6300uM
N-(3-chloro-2-pyridinyl)-N-[(3R)-piperidin-3-yl]-6-(triazolo[4,5-b]pyridin-3-yl)pyridine-3-carboxamide1497947: 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 assayic504.1000uM
N-isoquinolin-1-yl-N-[(3R)-piperidin-3-yl]-4-pyrazin-2-ylbenzamide1497947: 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 assayic504.3000uM
4-(2-fluorophenyl)-N-(3-methyl-2-pyridinyl)-N-[(3R)-piperidin-3-yl]piperidine-1-carboxamide1532846: 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 assayic504.3800uM
2,2-dichloro-N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]acetamide;sulfuric acid717551: Inhibition of mitochondrial ribosome-mediated protein synthesis in human HeLa cells assessed as {35S]methionine incorporation by autoradiographyic507.4000uM

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
sodium arsenitedecreases expression, increases abundance, increases expression5
bisphenol Adecreases expression, increases expression4
Rotenonedecreases expression, increases expression2
Particulate Matterdecreases expression, increases abundance2
bisphenol Fincreases expression1
deoxynivalenolincreases expression1
pyrogallol 1,3-dimethyl etherdecreases expression, affects cotreatment, affects localization, increases expression1
arseniteaffects binding, increases reaction1
methylparabendecreases expression1
artenimolaffects binding1
methacrylaldehydeaffects cotreatment, increases oxidation1
2,3,5-(triglutathion-S-yl)hydroquinoneincreases ADP-ribosylation1
CD 437increases expression1
chloropicrindecreases expression1
4-chloro-N-((4-(1,1-dimethylethyl)phenyl)methyl)-3-ethyl-1-methyl-1H-pyrazole-5-carboxamideincreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
pyrimidifenincreases expression1
bisphenol Bincreases expression1
abrinedecreases expression1
bisphenol Sincreases expression1
LDN 193189affects cotreatment, decreases expression1
PCI 5002affects cotreatment, increases expression1
bisphenol AFincreases expression1
Sunitinibincreases expression1
Acroleinaffects cotreatment, increases oxidation1
Air Pollutantsdecreases expression, increases abundance1
Antimycin Aincreases expression1
Arsenicincreases abundance, increases expression1
Enzyme Inhibitorsdecreases activity, increases O-linked glycosylation1
Furaldehydeaffects cotreatment, affects localization, increases expression1

ChEMBL screening assays

90 unique, capped per target: 90 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL1920845BindingInduction of ribosome to readthrough in human A-T lymphoblastoid cells assessed as ATM ser1981 autophosphorylation at 30 uM after 4 days by PTT-ELISA assaySynthesis and evaluation of compounds that induce readthrough of premature termination codons. — Bioorg Med Chem Lett

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT00673608PHASE4COMPLETEDMagnetic Resonance Imaging (MRI) Assessments of the Heart and Liver Iron Load in Patients With Transfusion Induced Iron Overload
NCT00235391PHASE3COMPLETEDExpanded Access of Deferasirox to Patients With Congenital Disorders of Red Blood Cells and Chronic Iron Overload
NCT00001962PHASE2TERMINATEDA Study to Determine Whether Therapy With Daclizumab Will Benefit Patients With Bone Marrow Failure
NCT00011505PHASE2COMPLETEDMobilization of Stem Cells With G-CSF for Collection From Patients With Diamond-Blackfan Anemia
NCT00301834PHASE2COMPLETEDAlemtuzumab, Fludarabine, and Busulfan Followed By Donor Stem Cell Transplant in Treating Young Patients With Hematologic Disorders
NCT00957931PHASE2COMPLETEDAllo-HCT MUD for Non-malignant Red Blood Cell (RBC) Disorders: Sickle Cell, Thal, and DBA: Reduced Intensity Conditioning, Co-tx MSCs
NCT01529827PHASE2COMPLETEDFludarabine Phosphate, Melphalan, and Low-Dose Total-Body Irradiation Followed by Donor Peripheral Blood Stem Cell Transplant in Treating Patients With Hematologic Malignancies
NCT02386267PHASE2UNKNOWNL-leucine in Diamond Blackfan Anemia Patients
NCT02512679PHASE2TERMINATEDRelated Hematopoietic Stem Cell Transplantation (HSCT) for Genetic Diseases of Blood Cells
NCT03333486PHASE2TERMINATEDFludarabine Phosphate, Cyclophosphamide, Total Body Irradiation, and Donor Stem Cell Transplant in Treating Patients With Blood Cancer
NCT04099966PHASE2RECRUITINGAlloSCT for Malignant and Non-malignant Hematologic Diseases Utilizing Alpha/Beta T Cell and CD19+ B Cell Depletion
NCT04965597PHASE2COMPLETEDTreosulfan-Based Conditioning Regimen Before a Blood or Bone Marrow Transplant for the Treatment of Bone Marrow Failure Diseases (BMT CTN 1904)
NCT01586455PHASE1COMPLETEDHuman Placental-Derived Stem Cell Transplantation
NCT01917708PHASE1COMPLETEDBone Marrow Transplant With Abatacept for Non-Malignant Diseases
NCT00176852PHASE2/PHASE3COMPLETEDStem Cell Transplant for Hemoglobinopathy
NCT00176878PHASE2/PHASE3COMPLETEDStem Cell Transplant for Bone Marrow Failure Syndromes
NCT00305708PHASE1/PHASE2COMPLETEDBusulfan, Antithymocyte Globulin, and Fludarabine Followed By a Donor Stem Cell Transplant in Treating Young Patients With Blood Disorders, Bone Marrow Disorders, Chronic Myelogenous Leukemia in First Chronic Phase, or Acute Myeloid Leukemia in First Remission
NCT01362595PHASE1/PHASE2COMPLETEDPilot Phase I/II Study of Amino Acid Leucine in Treatment of Patients With Transfusion-Dependent Diamond Blackfan Anemia
NCT01419704PHASE1/PHASE2WITHDRAWNPhase I/II Pilot Study of Mixed Chimerism to Treat Hemoglobinopathies
NCT01464164PHASE1/PHASE2TERMINATEDSafety and Efficacy Study of Sotatercept in Adults With Transfusion Dependent Diamond Blackfan Anemia
NCT01966367PHASE1/PHASE2ACTIVE_NOT_RECRUITINGCD34+ (Non-Malignant) Stem Cell Selection for Patients Receiving Allogeneic Stem Cell Transplantation
NCT02065869PHASE1/PHASE2TERMINATEDSafety Study of Gene Modified Donor T-cells Following TCRαβ+ Depleted Stem Cell Transplant
NCT03513328PHASE1/PHASE2COMPLETEDConditioning Regimen for Allogeneic Hematopoietic Stem-Cell Transplantation
NCT03653338PHASE1/PHASE2RECRUITINGT-Cell Depleted Alternative Donor Bone Marrow Transplant for Sickle Cell Disease (SCD) and Other Anemias
NCT03733249PHASE1/PHASE2TERMINATEDLong Term Follow-up Study for Patients Enrolled on the BP-004 Clinical Study
NCT03966053PHASE1/PHASE2TERMINATEDThe Use of Trifluoperazine in Transfusion Dependent DBA
NCT00027274Not specifiedRECRUITINGCancer in Inherited Bone Marrow Failure Syndromes
NCT00244010Not specifiedCOMPLETEDPartially Matched Stem Cell Transplantation for Patients With Refractory Severe Aplastic Anemia or Refractory Cytopenias
NCT00290628Not specifiedTERMINATEDDonor Umbilical Cord Blood Transplant in Treating Patients With Hematologic Cancer
NCT01114776Not specifiedCOMPLETEDMulti-Center Study of Iron Overload: Pilot Study
NCT01319851Not specifiedTERMINATEDAlefacept and Allogeneic Hematopoietic Stem Cell Transplantation
NCT01758042Not specifiedCOMPLETEDBone Marrow and Kidney Transplant for Patients With Chronic Kidney Disease and Blood Disorders
NCT01913548Not specifiedCOMPLETEDMulti-Center Study of Iron Overload: Survey Study (MCSIO)
NCT02179359Not specifiedTERMINATEDHematopoietic Stem Cell Transplant for High Risk Hemoglobinopathies
NCT02720679Not specifiedRECRUITINGInvestigation of the Genetics of Hematologic Diseases
NCT03050268Not specifiedRECRUITINGFamilial Investigations of Childhood Cancer Predisposition
NCT05687474Not specifiedCOMPLETEDBaby Detect : Genomic Newborn Screening
NCT07186179Not specifiedRECRUITINGMobilization of CD34+ Peripheral Blood Stem Cells in Patients With Diamond Blackfan Anemia Syndrome (DBAS)