BTBD1

gene
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Summary

BTBD1 (BTB domain containing 1, HGNC:1120) is a protein-coding gene on chromosome 15q25.2, encoding BTB/POZ domain-containing protein 1 (Q9H0C5). Probable substrate-specific adapter of an E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

The C-terminus of the protein encoded by this gene binds topoisomerase I. The N-terminus contains a proline-rich region and a BTB/POZ domain (broad-complex, Tramtrack and bric a brac/Pox virus and Zinc finger), both of which are typically involved in protein-protein interactions. Subcellularly, the protein localizes to cytoplasmic bodies. Alternative splicing results in multiple transcript variants encoding different isoforms.

Source: NCBI Gene 53339 — RefSeq curated summary.

At a glance

  • GWAS associations: 3
  • Clinical variants (ClinVar): 61 total — 1 pathogenic
  • MANE Select transcript: NM_025238

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:1120
Approved symbolBTBD1
NameBTB domain containing 1
Location15q25.2
Locus typegene with protein product
StatusApproved
Ensembl geneENSG00000064726
Ensembl biotypeprotein_coding
OMIM608530
Entrez53339

Gene structure

Transcript identifiers

Ensembl transcripts: 15 — 12 protein_coding, 1 retained_intron, 1 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

ENST00000261721, ENST00000379403, ENST00000558344, ENST00000559652, ENST00000560015, ENST00000876368, ENST00000876369, ENST00000876370, ENST00000876371, ENST00000929299, ENST00000929300, ENST00000944296, ENST00000944297, ENST00000944298, ENST00000944299

RefSeq mRNA: 2 — MANE Select: NM_025238 NM_001011885, NM_025238

CCDS: CCDS10322, CCDS32313

Canonical transcript exons

ENST00000261721 — 8 exons

ExonStartEnd
ENSE000011035468305007383050178
ENSE000011035528306675183067252
ENSE000011035568305638983056545
ENSE000016634548301642383018225
ENSE000034649838302067583020762
ENSE000035824368301870783018853
ENSE000035861868303013683030328
ENSE000035938268304172883041925

Expression profiles

Bgee: expression breadth ubiquitous, 290 present calls, max score 99.42.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 24.1711 / max 187.9417, expressed in 1816 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter IDTPM avgSamples expressed
15129321.51531813
1512921.1134536
1512900.8989442
1512910.6436294

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
skeletal muscle tissue of rectus abdominisUBERON:000451199.42gold quality
vastus lateralisUBERON:000137999.23gold quality
quadriceps femorisUBERON:000137799.16gold quality
biceps brachiiUBERON:000150799.16gold quality
body of tongueUBERON:001187698.99gold quality
diaphragmUBERON:000110398.96gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450298.95gold quality
deltoidUBERON:000147698.89gold quality
skeletal muscle tissueUBERON:000113498.84gold quality
tibialis anteriorUBERON:000138598.73gold quality
gluteal muscleUBERON:000200098.73gold quality
tongueUBERON:000172398.52gold quality
myocardiumUBERON:000234998.47gold quality
muscle organUBERON:000163098.45gold quality
skeletal muscle organUBERON:001489298.45gold quality
cardiac muscle of right atriumUBERON:000337998.43gold quality
endothelial cellCL:000011598.42gold quality
triceps brachiiUBERON:000150998.42gold quality
gastrocnemiusUBERON:000138898.40gold quality
muscle tissueUBERON:000238598.28gold quality
superior surface of tongueUBERON:000737198.24gold quality
muscle of legUBERON:000138398.23gold quality
left ventricle myocardiumUBERON:000656698.19gold quality
heart right ventricleUBERON:000208098.17gold quality
jejunumUBERON:000211598.14gold quality
orbitofrontal cortexUBERON:000416798.03gold quality
palpebral conjunctivaUBERON:000181297.97gold quality
mucosa of sigmoid colonUBERON:000499397.90gold quality
Brodmann (1909) area 23UBERON:001355497.87gold quality
jejunal mucosaUBERON:000039997.83gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes3.57
E-MTAB-6386no47.07

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

125 targeting BTBD1, 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-5011-5P100.0083.465820
HSA-MIR-190A-3P100.0080.355520
HSA-MIR-3163100.0077.238605
HSA-MIR-340-5P100.0072.504437
HSA-MIR-3924100.0072.092394
HSA-LET-7A-3P100.0074.033932
HSA-LET-7B-3P100.0074.083913
HSA-LET-7F-1-3P100.0074.023928
HSA-MIR-98-3P100.0074.083907
HSA-MIR-126-5P100.0072.713180
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-4768-5P100.0069.492861
HSA-MIR-6833-3P100.0070.633197
HSA-MIR-196A-1-3P99.9972.152772
HSA-MIR-477599.9875.006394
HSA-MIR-56899.9869.862084
HSA-MIR-314899.9775.066478
HSA-MIR-590-3P99.9674.346478
HSA-MIR-391099.9571.132227
HSA-MIR-141-3P99.9472.792421
HSA-MIR-200A-3P99.9472.682420
HSA-MIR-9983-3P99.9471.483631
HSA-MIR-381-3P99.9371.872854
HSA-MIR-3682-5P99.9367.971163
HSA-MIR-338-5P99.9272.342951
HSA-MIR-30099.9271.762856
HSA-MIR-568099.9169.833421
HSA-MIR-6809-3P99.9171.453814
HSA-MIR-4753-3P99.9071.033786
HSA-MIR-627-3P99.9071.423316

Literature-anchored findings (GeneRIF, showing 3)

  • subcellular colocalization of BTBD1 and BTBD2 to cytoplasmic bodies; TRIM5delta colocalized with BTBD1/2 and appeared to serve as a scaffold for the assembly of endogenous BTBD1/2 proteins (PMID:12878161)
  • BTBD1 is essential for myogenic differentiation (PMID:15486563)
  • Interaction of BTBD1 and BTBD2 with TOP1 requires TOP1 residues 236 and 237, the same residues required to enhance the infectivity of progeny virions when TOP1 is expressed in African Green Monkey producer cells. (PMID:21092135)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusBtbd1ENSMUSG00000025103
rattus_norvegicusBtbd1ENSRNOG00000019529

Paralogs (11): ABTB1 (ENSG00000114626), SPOP (ENSG00000121067), KBTBD4 (ENSG00000123444), BTBD3 (ENSG00000132640), BTBD2 (ENSG00000133243), SPOPL (ENSG00000144228), ABTB3 (ENSG00000151136), ABTB2 (ENSG00000166016), KLHL11 (ENSG00000178502), BTBD9 (ENSG00000183826), BTBD6 (ENSG00000184887)

Protein

Protein identifiers

BTB/POZ domain-containing protein 1Q9H0C5 (reviewed: Q9H0C5)

Alternative names: Hepatitis C virus NS5A-transactivated protein 8

All UniProt accessions (2): Q9H0C5, H0YL89

UniProt curated annotations — full annotation on UniProt →

Function. Probable substrate-specific adapter of an E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins. Seems to regulate expression levels and/or subnuclear distribution of TOP1, via an unknown mechanism. May play a role in mesenchymal differentiation where it promotes myogenic differentiation and suppresses adipogenesis.

Subunit / interactions. Interacts (via C-terminus) with TOP1. Interacts with TRIM5 isoform Delta. Interacts with CUL3.

Subcellular location. Cytoplasm.

Tissue specificity. Ubiquitous; highest levels in testes, heart and skeletal muscle.

Pathway. Protein modification; protein ubiquitination.

Isoforms (2)

UniProt IDNamesCanonical?
Q9H0C5-11yes
Q9H0C5-22

RefSeq proteins (2): NP_001011885, NP_079514* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR000210BTB/POZ_domDomain
IPR011333SKP1/BTB/POZ_sfHomologous_superfamily
IPR011705BACKDomain
IPR012983PHRDomain
IPR038648PHR_sfHomologous_superfamily

Pfam: PF00651, PF07707, PF08005

UniProt features (12 total): sequence conflict 3, domain 2, compositionally biased region 2, splice variant 2, chain 1, region of interest 1, modified residue 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9H0C5-F187.990.75

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 (1): 79

Function

Pathways and Gene Ontology

Reactome pathways

7 pathways

IDPathway
R-HSA-8951664Neddylation
R-HSA-983168Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-1280218Adaptive Immune System
R-HSA-168256Immune System
R-HSA-392499Metabolism of proteins
R-HSA-597592Post-translational protein modification
R-HSA-983169Class I MHC mediated antigen processing & presentation

MSigDB gene sets: 182 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_COLON_TUMORAL_MACROPHAGE_DN, GOBP_REGULATION_OF_PROTEIN_BINDING, REACTOME_ADAPTIVE_IMMUNE_SYSTEM, REACTOME_CLASS_I_MHC_MEDIATED_ANTIGEN_PROCESSING_PRESENTATION, REACTOME_ANTIGEN_PROCESSING_UBIQUITINATION_PROTEASOME_DEGRADATION, GOBP_NEUROGENESIS, STAT3_01, GOBP_MUSCLE_STRUCTURE_DEVELOPMENT, MILI_PSEUDOPODIA_HAPTOTAXIS_UP, GOBP_POST_TRANSLATIONAL_PROTEIN_MODIFICATION, NAKAMURA_TUMOR_ZONE_PERIPHERAL_VS_CENTRAL_DN, ACTTTAT_MIR1425P, MARKEY_RB1_ACUTE_LOF_UP, DANG_BOUND_BY_MYC, HOWLIN_CITED1_TARGETS_1_DN

GO Biological Process (5): muscle organ development (GO:0007517), protein ubiquitination (GO:0016567), neurogenesis (GO:0022008), regulation of protein binding (GO:0043393), cell differentiation (GO:0030154)

GO Molecular Function (3): identical protein binding (GO:0042802), cullin family protein binding (GO:0097602), protein binding (GO:0005515)

GO Cellular Component (6): P-body (GO:0000932), nucleoplasm (GO:0005654), cytosol (GO:0005829), protein-containing complex (GO:0032991), cytoplasmic ribonucleoprotein granule (GO:0036464), cytoplasm (GO:0005737)

Reactome top-level categories

Rollup of top-5 pathways:

CategoryPathways
Post-translational protein modification1
Class I MHC mediated antigen processing & presentation1
Immune System1
Metabolism of proteins1
Adaptive Immune System1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
protein binding3
cellular anatomical structure3
cytoplasm2
animal organ development1
muscle structure development1
protein modification by small protein conjugation1
nervous system development1
cell differentiation1
regulation of binding1
cellular developmental process1
binding1
cytoplasmic ribonucleoprotein granule1
nuclear lumen1
cellular_component1
ribonucleoprotein granule1
intracellular anatomical structure1

Protein interactions and networks

STRING

778 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
BTBD1TRIM5Q9C035903
BTBD1TOP1P11387823
BTBD1UBE2D2P51669589
BTBD1TRIM34Q9BYJ4494
BTBD1TRIM6Q9C030492
BTBD1LRR1Q96L50479
BTBD1TRIM22Q8IYM9429
BTBD1C15orf40Q8WUR7428
BTBD1AP3B2Q13367427
BTBD1PPP1R26Q5T8A7419
BTBD1TRAT1Q6PIZ9412
BTBD1GPR152Q8TDT2412
BTBD1PAN3Q58A45397
BTBD1NACC2Q96BF6379
BTBD1PTRH1Q86Y79374

IntAct

197 interactions, top by confidence:

ABTypeScore
CUL3KLHL12psi-mi:“MI:0914”(association)0.920
COPS5COPS2psi-mi:“MI:0914”(association)0.910
PNMA1ZCCHC12psi-mi:“MI:0914”(association)0.890
CUL3BTBD1psi-mi:“MI:0915”(physical association)0.880
COPS2GPS1psi-mi:“MI:0914”(association)0.860
COPS8COPS2psi-mi:“MI:0914”(association)0.850
NHERF2PODXLpsi-mi:“MI:0914”(association)0.770
COPS6RHOBTB1psi-mi:“MI:0914”(association)0.730
NTAQ1BTBD1psi-mi:“MI:0915”(physical association)0.670
EIF4EBP1EIF4E1Bpsi-mi:“MI:0914”(association)0.670
FXR2CSNK2A2psi-mi:“MI:0914”(association)0.640
FAM98AHERC2psi-mi:“MI:0914”(association)0.640
CARNMT1NUP42psi-mi:“MI:0914”(association)0.640
GLMNFKBP5psi-mi:“MI:0914”(association)0.640
ZNF414AHCYL1psi-mi:“MI:0914”(association)0.640
OTUD6BBTBD1psi-mi:“MI:0915”(physical association)0.620
BTBD1BTBD2psi-mi:“MI:0403”(colocalization)0.620
BTBD2BTBD1psi-mi:“MI:0403”(colocalization)0.620
HSP90AA1BTBD1psi-mi:“MI:0915”(physical association)0.610
MPP3BTBD1psi-mi:“MI:0915”(physical association)0.560
PSMD5BTBD1psi-mi:“MI:0915”(physical association)0.560

BioGRID (189): BTBD1 (Affinity Capture-Western), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS), BTBD1 (Affinity Capture-MS)

ESM2 similar proteins: A2TF48, A5HNF6, A8QMS7, B3SRQ2, B3Y678, B3Y679, B3Y680, B3Y681, B3Y682, B3Y683, B6CJX2, C8BKC7, D3ZUM2, F1QWA8, I3L5V6, O02697, O88879, P0CI65, P22366, P48736, P52735, P58544, Q00653, Q13158, Q1M161, Q28DJ2, Q3V3E1, Q4LBC6, Q599T9, Q5FWM2, Q5XJ85, Q60992, Q61160, Q645M6, Q6AZT7, Q6PDS3, Q6SZW1, Q6Y1S1, Q7TNH6, Q7Z494

Diamond homologs: A0JMG1, A1YEX3, B0WWP2, B3DIV9, B3M9V8, B3NDN0, B4GRJ2, B4HIK1, B4J045, B4L0G9, B4LIG6, B4MXW3, B4PD06, B4QLQ2, B7U179, D3Z8N4, D4A2K4, E0CZ16, E7F6F9, F1LZF0, F1MBP6, O14682, O22286, O35709, O43791, O81432, O95198, P0DMR5, P0DMR6, P24278, P28575, P34568, P58544, P58545, Q08DK3, Q08DS0, Q0D2A9, Q0IHH9, Q0VCW1, Q16RL8

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 183 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
DNA Damage Recognition in GG-NER1025.5×3e-09
Formation of TC-NER Pre-Incision Complex917.0×9e-07
Cargo recognition for clathrin-mediated endocytosis109.3×2e-05
Neddylation156.3×3e-06

GO biological processes:

GO termPartnersFoldFDR
regulation of protein neddylation847.1×1e-09
protein neddylation835.3×1e-08
TOR signaling524.1×4e-04
intrinsic apoptotic signaling pathway511.3×1e-02
proteasome-mediated ubiquitin-dependent protein catabolic process134.3×2e-03
protein ubiquitination153.9×1e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance45
Likely benign1
Benign0

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
2685526GRCh37/hg19 15q25.2(chr15:83220107-84811774)x1Pathogenic

SpliceAI

1283 predictions. Top by Δscore:

VariantEffectΔscore
15:83018705:A:ACdonor_gain1.0000
15:83018706:C:CCdonor_gain1.0000
15:83018850:TGAT:Tacceptor_gain1.0000
15:83020761:AT:Aacceptor_gain1.0000
15:83020762:TC:Tacceptor_loss1.0000
15:83020763:C:CAacceptor_loss1.0000
15:83020763:C:CCacceptor_gain1.0000
15:83030131:GATA:Gdonor_loss1.0000
15:83030132:ATAC:Adonor_loss1.0000
15:83030133:TACCT:Tdonor_loss1.0000
15:83030134:ACC:Adonor_loss1.0000
15:83030327:ACC:Aacceptor_loss1.0000
15:83030328:CCTG:Cacceptor_loss1.0000
15:83041722:CCTTA:Cdonor_loss1.0000
15:83041723:CTTA:Cdonor_loss1.0000
15:83041724:TTAC:Tdonor_loss1.0000
15:83041725:TACCT:Tdonor_loss1.0000
15:83041726:ACCT:Adonor_loss1.0000
15:83041727:CCTG:Cdonor_gain1.0000
15:83041921:TGTAT:Tacceptor_gain1.0000
15:83041922:GTAT:Gacceptor_gain1.0000
15:83041923:TAT:Tacceptor_gain1.0000
15:83041924:AT:Aacceptor_gain1.0000
15:83041925:TCTA:Tacceptor_loss1.0000
15:83041926:C:CCacceptor_gain1.0000
15:83041926:C:Tacceptor_loss1.0000
15:83041933:C:CTacceptor_gain1.0000
15:83041934:A:Tacceptor_gain1.0000
15:83050066:AACTT:Adonor_loss1.0000
15:83050067:ACTTA:Adonor_loss1.0000

AlphaMissense

3136 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
15:83018094:T:AQ474H1.000
15:83018094:T:GQ474H1.000
15:83018098:C:AG473V1.000
15:83018098:C:TG473E1.000
15:83018099:C:GG473R1.000
15:83018099:C:TG473R1.000
15:83018113:G:AT468I1.000
15:83018116:C:AG467V1.000
15:83018116:C:TG467D1.000
15:83018117:C:AG467C1.000
15:83018117:C:GG467R1.000
15:83018117:C:TG467S1.000
15:83018118:A:CN466K1.000
15:83018118:A:TN466K1.000
15:83018119:T:AN466I1.000
15:83018120:T:CN466D1.000
15:83018197:C:TG440E1.000
15:83018198:C:GG440R1.000
15:83018198:C:TG440R1.000
15:83018206:C:AG437V1.000
15:83018206:C:TG437D1.000
15:83018207:C:GG437R1.000
15:83018210:A:CY436D1.000
15:83018215:G:AS434F1.000
15:83018215:G:TS434Y1.000
15:83018216:A:GS434P1.000
15:83018224:C:TG431D1.000
15:83018225:C:GG431R1.000
15:83018723:G:TA425E1.000
15:83020715:C:AG368V1.000

dbSNP variants (sampled 300 via entrez): RS1000014226 (15:83063034 A>G), RS1000082086 (15:83027666 C>G,T), RS1000177491 (15:83016348 A>G), RS1000211390 (15:83033942 G>A), RS1000270717 (15:83046234 A>G), RS1000319730 (15:83045887 A>G), RS1000324989 (15:83065578 A>T), RS1000472990 (15:83041479 G>A), RS1000481462 (15:83059455 G>C), RS1000670421 (15:83016149 C>G), RS1000789804 (15:83051587 A>G), RS1000811611 (15:83058124 A>G), RS1000839923 (15:83069038 G>A), RS1000850761 (15:83052971 T>C), RS1000856051 (15:83022025 A>G)

Disease associations

OMIM: gene MIM:608530 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

3 associations (top):

StudyTraitp-value
GCST000962_1Kawasaki disease7.000000e-06
GCST007692_37Chronic obstructive pulmonary disease8.000000e-09
GCST008058_284Estimated glomerular filtration rate1.000000e-11

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

10 total (human), top 10 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Aciddecreases methylation, increases expression2
dicrotophosdecreases expression1
triphenyl phosphateaffects expression1
CGP 52608affects binding, increases reaction1
jinfukangdecreases expression1
Air Pollutantsdecreases expression, increases abundance1
Doxorubicindecreases expression1
Leadaffects expression1
Methylmercury Compoundsdecreases expression1
Particulate Matterdecreases expression, increases abundance1

Cellosaurus cell lines

1 cell lines: 1 transformed cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_B2T4Abcam HEK293T BTBD1 KOTransformed cell lineFemale

Clinical trials (associated diseases)

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