HSFX3

Summary

HSFX3 (heat shock transcription factor family, X-linked member 3, HGNC:52395) is a protein-coding gene on chromosome Xq28, encoding Heat shock transcription factor, X-linked member 3 (A0A1B0GWH4).

Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in chromatin.

Source: NCBI Gene 101928917 — RefSeq curated summary.

At a glance

• MANE Select transcript: NM_001323079

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:52395
Approved symbol	HSFX3
Name	heat shock transcription factor family, X-linked member 3
Location	Xq28
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000283697
Ensembl biotype	protein_coding
OMIM	301151
Entrez	101928917

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000431993

RefSeq mRNA: 1 — MANE Select: NM_001323079 NM_001323079

CCDS: CCDS83499

Canonical transcript exons

ENST00000431993 — 2 exons

Exon	Start	End
ENSE00001613123	149548210	149548910
ENSE00001785790	149549370	149549924

Expression profiles

Bgee: expression breadth broad, 53 present calls, max score 86.45.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	86.45	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	82.93	gold quality
left testis	UBERON:0004533	77.32	gold quality
testis	UBERON:0000473	77.04	gold quality
right testis	UBERON:0004534	76.15	gold quality
apex of heart	UBERON:0002098	51.37	gold quality
mucosa of transverse colon	UBERON:0004991	51.16	gold quality
cortical plate	UBERON:0005343	43.19	gold quality
colonic epithelium	UBERON:0000397	43.17	gold quality
heart left ventricle	UBERON:0002084	42.54	gold quality
adenohypophysis	UBERON:0002196	40.67	gold quality
right adrenal gland	UBERON:0001233	40.18	gold quality
ventricular zone	UBERON:0003053	39.80	gold quality
liver	UBERON:0002107	39.56	silver quality
right lobe of liver	UBERON:0001114	39.14	gold quality
bone marrow cell	CL:0002092	38.76	gold quality
tonsil	UBERON:0002372	37.37	gold quality
hindlimb stylopod muscle	UBERON:0004252	37.15	silver quality
heart	UBERON:0000948	36.57	gold quality
prostate gland	UBERON:0002367	36.37	gold quality
adrenal gland	UBERON:0002369	35.99	gold quality
ganglionic eminence	UBERON:0004023	35.49	gold quality
endometrium	UBERON:0001295	35.40	silver quality
pituitary gland	UBERON:0000007	35.11	gold quality
right adrenal gland cortex	UBERON:0035827	34.99	gold quality
left adrenal gland	UBERON:0001234	34.49	gold quality
bone marrow	UBERON:0002371	34.29	gold quality
prefrontal cortex	UBERON:0000451	33.91	silver quality
blood	UBERON:0000178	33.61	gold quality
gall bladder	UBERON:0002110	33.34	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.64

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

19 targeting HSFX3, 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-4795-3P	100.00	74.62	4024
HSA-MIR-126-5P	100.00	72.71	3180
HSA-MIR-499A-5P	99.98	70.79	1323
HSA-MIR-6499-3P	99.90	66.38	1212
HSA-MIR-5197-5P	99.64	69.08	1494
HSA-MIR-891B	99.59	69.81	1083
HSA-MIR-6758-3P	99.57	67.55	1078
HSA-MIR-3164	99.02	68.39	1071
HSA-MIR-6820-3P	99.02	68.50	1035
HSA-MIR-4477A	98.83	69.75	2952
HSA-MIR-6516-5P	98.42	70.19	1551
HSA-MIR-6500-3P	97.42	67.20	867
HSA-MIR-4726-5P	97.24	65.67	1299
HSA-MIR-134-5P	97.11	66.52	976
HSA-MIR-3118	97.11	66.58	984
HSA-MIR-6508-3P	96.73	65.48	576
HSA-MIR-208A-3P	95.87	66.51	397
HSA-MIR-208B-3P	95.87	66.56	396
HSA-MIR-3677-5P	93.16	64.62	393

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
drosophila_melanogaster	Hsf	FBGN0001222
caenorhabditis_elegans	hsf-1	WBGENE00002004

Paralogs (9): HSF2 (ENSG00000025156), HSF4 (ENSG00000102878), HSFY2 (ENSG00000169953), HSFX1 (ENSG00000171116), HSFY1 (ENSG00000172468), HSF5 (ENSG00000176160), HSF1 (ENSG00000185122), HSFX2 (ENSG00000268738), HSFX4 (ENSG00000283463)

Protein

Protein identifiers

Heat shock transcription factor, X-linked member 3 — A0A1B0GWH4 (reviewed: A0A1B0GWH4)

All UniProt accessions (1): A0A1B0GWH4

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Nucleus.

Similarity. Belongs to the HSF family.

RefSeq proteins (1): NP_001310008* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000232	HSF_DNA-bd	Domain
IPR036388	WH-like_DNA-bd_sf	Homologous_superfamily
IPR036390	WH_DNA-bd_sf	Homologous_superfamily

Pfam: PF00447

UniProt features (7 total): compositionally biased region 3, region of interest 2, chain 1, DNA-binding region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A0A1B0GWH4-F1	65.49	0.28

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 10 (showing top): GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, chrXq28, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, MIR4795_3P, MIR3164, MIR6820_3P, GOMF_DNA_BINDING_TRANSCRIPTION_FACTOR_ACTIVITY, GOMF_CIS_REGULATORY_REGION_SEQUENCE_SPECIFIC_DNA_BINDING, GOMF_RNA_POLYMERASE_II_TRANSCRIPTION_REGULATORY_REGION_SEQUENCE_SPECIFIC_DNA_BINDING, GOCC_CHROMATIN

GO Biological Process (2): regulation of DNA-templated transcription (GO:0006355), regulation of transcription by RNA polymerase II (GO:0006357)

GO Molecular Function (4): DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), sequence-specific DNA binding (GO:0043565), DNA binding (GO:0003677), DNA-binding transcription factor activity (GO:0003700)

GO Cellular Component (2): chromatin (GO:0000785), nucleus (GO:0005634)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
regulation of DNA-templated transcription	2
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
transcription by RNA polymerase II	1
chromatin	1
RNA polymerase II transcription regulatory region sequence-specific DNA binding	1
DNA-binding transcription factor activity	1
regulation of transcription by RNA polymerase II	1
DNA binding	1
nucleic acid binding	1
transcription cis-regulatory region binding	1
transcription regulator activity	1
chromosome	1
cellular anatomical structure	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

234 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
HSFX3	AKAP10	O43572	166
HSFX3	HRC	P23327	166
HSFX3	HSPA9	P30036	166
HSFX3	ZNF354C	Q86Y25	166
HSFX3	CLPB	Q9H078	165
HSFX3	CAT	P04040	163
HSFX3	HSPD1	P10809	161
HSFX3	HSP90B1	P14625	154
HSFX3	HYOU1	Q9Y4L1	142
HSFX3	EEF1A2	P54266	136
HSFX3	EEF1A1	P04719	136
HSFX3	HSPA5	P11021	135
HSFX3	ANKRD45	Q5TZF3	135
HSFX3	WASHC3	Q9Y3C0	129
HSFX3	DNAJB1	P25685	127
HSFX3	DNAJB13	P59910	127

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: A0A1B0GTS1, A0A1B0GWH4, A1A4L6, A1YGI6, A6NDR6, B8QB46, F1MJR8, F1QDF8, O35892, O35893, P09015, P15036, P15037, P23497, P52729, P59598, Q32NH9, Q3KRF1, Q3UM89, Q4G112, Q4V7E1, Q5M7N6, Q5ND04, Q5XIV2, Q5ZHX5, Q66IG8, Q6P1R3, Q6PCX9, Q6PJQ5, Q708W2, Q76I76, Q76I79, Q76N89, Q7M6U3, Q8AXQ4, Q8BVK9, Q8IUE0, Q8IUE1, Q8IWB6, Q8IXJ9

Diamond homologs: A0A1B0GTS1, A0A1B0GWH4, B7XIV9, C4V6H6, D0VYS2, G0SB31, G5EFT5, J9VHZ9, O14283, O49403, P10961, P22121, P22335, P22813, P38529, P38530, P38531, P38532, P38533, P41151, P41153, P41154, Q00613, Q02953, Q03933, Q08DJ8, Q10PR4, Q1HGE8, Q1PDN3, Q338B0, Q40152, Q4G112, Q5A4X5, Q5AQ33, Q5CZP2, Q5KMX8, Q5ND04, Q652B0, Q67TP9, Q6F388

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 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

0 predictions. Top by Δscore:

AlphaMissense

2219 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
X:149549415:G:C	F146L	0.987
X:149549415:G:T	F146L	0.987
X:149549417:A:G	F146L	0.987
X:149548890:A:C	F168L	0.983
X:149548890:A:T	F168L	0.983
X:149548892:A:G	F168L	0.983
X:149549604:G:C	F83L	0.965
X:149549604:G:T	F83L	0.965
X:149549606:A:G	F83L	0.965
X:149548891:A:G	F168S	0.962
X:149549466:G:C	F129L	0.954
X:149549466:G:T	F129L	0.954
X:149549468:A:G	F129L	0.954
X:149549416:A:G	F146S	0.950
X:149549442:G:C	F137L	0.942
X:149549442:G:T	F137L	0.942
X:149549444:A:G	F137L	0.942
X:149549550:C:A	W101C	0.936
X:149549550:C:G	W101C	0.936
X:149549552:A:G	W101R	0.934
X:149549552:A:T	W101R	0.934
X:149548891:A:C	F168C	0.931
X:149549508:G:C	F115L	0.931
X:149549508:G:T	F115L	0.931
X:149549510:A:G	F115L	0.931
X:149549509:A:G	F115S	0.918
X:149549565:G:C	F96L	0.913
X:149549565:G:T	F96L	0.913
X:149549567:A:G	F96L	0.913
X:149549589:C:A	W88C	0.902

dbSNP variants (sampled 300 via entrez): RS1156515141 (X:149549729 A>C,G), RS1157372949 (X:149548349 T>C), RS1158231439 (X:149550680 C>A,G,T), RS1159369105 (X:149550497 A>G), RS1160069831 (X:149549023 G>A,C), RS1162516542 (X:149550233 T>C), RS1162735349 (X:149548992 A>G), RS1163640467 (X:149551891 A>C), RS1164865331 (X:149548339 G>A,C), RS1166073635 (X:149551062 G>A), RS1166302506 (X:149549608 G>A), RS1166805303 (X:149548788 A>T), RS1167976328 (X:149550069 C>T), RS1168720606 (X:149548614 C>T), RS1169823914 (X:149550088 G>T)

Disease associations

OMIM: gene MIM:301151 | 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

2 total (human), top 2 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
ferrous chloride	decreases expression	1
Sodium Dodecyl Sulfate	increases expression	1

Clinical trials (associated diseases)

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