DPT

Summary

DPT (dermatopontin, HGNC:3011) is a protein-coding gene on chromosome 1q24.2, encoding Dermatopontin (Q07507). Seems to mediate adhesion by cell surface integrin binding.

Dermatopontin is an extracellular matrix protein with possible functions in cell-matrix interactions and matrix assembly. The protein is found in various tissues and many of its tyrosine residues are sulphated. Dermatopontin is postulated to modify the behavior of TGF-beta through interaction with decorin.

Source: NCBI Gene 1805 — RefSeq curated summary.

At a glance

• GWAS associations: 10
• Clinical variants (ClinVar): 44 total — 1 pathogenic
• MANE Select transcript: NM_001937

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:3011
Approved symbol	DPT
Name	dermatopontin
Location	1q24.2
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000143196
Ensembl biotype	protein_coding
OMIM	125597
Entrez	1805

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 5 protein_coding

ENST00000367817, ENST00000886480, ENST00000886481, ENST00000953565, ENST00000953566

RefSeq mRNA: 1 — MANE Select: NM_001937 NM_001937

CCDS: CCDS1275

Canonical transcript exons

ENST00000367817 — 4 exons

Exon	Start	End
ENSE00000958599	168714221	168714346
ENSE00000958600	168701017	168701124
ENSE00001445682	168695468	168696615
ENSE00001445683	168728870	168729206

Expression profiles

Bgee: expression breadth ubiquitous, 123 present calls, max score 98.45.

FANTOM5 (CAGE): breadth broad, TPM avg 8.9782 / max 823.8868, expressed in 329 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
15825	8.9782	329

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
smooth muscle tissue	UBERON:0001135	98.45	gold quality
colonic epithelium	UBERON:0000397	98.32	gold quality
muscle layer of sigmoid colon	UBERON:0035805	98.32	gold quality
omental fat pad	UBERON:0010414	98.24	gold quality
right atrium auricular region	UBERON:0006631	98.17	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	98.11	gold quality
adipose tissue	UBERON:0001013	98.10	gold quality
subcutaneous adipose tissue	UBERON:0002190	97.96	gold quality
thoracic mammary gland	UBERON:0005200	97.77	gold quality
lower esophagus muscularis layer	UBERON:0035833	97.62	gold quality
left uterine tube	UBERON:0001303	97.61	gold quality
lower esophagus	UBERON:0013473	97.58	gold quality
gall bladder	UBERON:0002110	97.33	gold quality
mucosa of stomach	UBERON:0001199	96.80	gold quality
fundus of stomach	UBERON:0001160	96.68	gold quality
apex of heart	UBERON:0002098	96.62	gold quality
ascending aorta	UBERON:0001496	96.56	gold quality
thoracic aorta	UBERON:0001515	96.48	gold quality
left coronary artery	UBERON:0001626	96.15	gold quality
descending thoracic aorta	UBERON:0002345	96.07	gold quality
endocervix	UBERON:0000458	95.85	gold quality
vagina	UBERON:0000996	94.95	gold quality
heart	UBERON:0000948	94.86	gold quality
rectum	UBERON:0001052	94.77	gold quality
myometrium	UBERON:0001296	94.47	gold quality
colon	UBERON:0001155	94.33	gold quality
popliteal artery	UBERON:0002250	94.17	gold quality
tibial artery	UBERON:0007610	94.17	gold quality
fallopian tube	UBERON:0003889	94.06	gold quality
hindlimb stylopod muscle	UBERON:0004252	93.95	gold quality

Single-cell (SCXA)

Detected in 10 experiment(s), a significant marker in 9.

Experiment	Marker?	Max mean expression
E-MTAB-8410	yes	6475.71
E-CURD-126	yes	1512.48
E-MTAB-9906	yes	1449.81
E-HCAD-11	yes	1006.65
E-MTAB-8142	yes	107.89
E-ANND-3	yes	38.01
E-MTAB-10287	yes	20.31
E-GEOD-81547	yes	8.46
E-MTAB-10553	yes	6.66
E-MTAB-10290	no	274.15

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): VDR

miRNA regulators (miRDB)

35 targeting DPT, 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-1252-5P	100.00	69.80	2774
HSA-MIR-4267	99.96	66.53	2368
HSA-MIR-539-5P	99.93	70.30	2855
HSA-MIR-4639-5P	99.81	67.37	1028
HSA-MIR-5002-5P	99.76	70.84	1763
HSA-MIR-494-3P	99.70	71.45	2795
HSA-MIR-6887-3P	99.66	67.83	1778
HSA-MIR-1260A	99.61	66.67	1098
HSA-MIR-1260B	99.61	66.67	1098
HSA-MIR-1290	99.59	69.90	2079
HSA-MIR-17-3P	99.55	66.77	1311
HSA-MIR-6833-5P	99.50	68.93	1161
HSA-MIR-216A-5P	99.50	68.02	1288
HSA-MIR-4441	99.49	66.56	3216
HSA-MIR-6740-3P	99.48	68.49	1392
HSA-MIR-6081	99.48	66.07	1446
HSA-MIR-1286	99.09	66.23	1046
HSA-MIR-4270	99.02	66.26	1987
HSA-MIR-4709-3P	98.88	68.04	1594
HSA-MIR-382-3P	98.83	67.10	1074
HSA-MIR-4297	98.77	66.95	2013
HSA-MIR-4752	98.71	68.04	833
HSA-MIR-6754-5P	98.60	65.54	1627
HSA-MIR-92A-1-5P	98.28	64.51	631
HSA-MIR-4518	98.12	66.82	1030
HSA-MIR-4438	97.96	63.70	947
HSA-MIR-5571-3P	97.80	66.07	640
HSA-MIR-1266-5P	97.71	66.92	1052
HSA-MIR-4715-5P	97.62	67.47	506
HSA-MIR-665	97.60	65.64	1781

Literature-anchored findings (GeneRIF, showing 18)

• roles of dermatopontin and histamine receptor H1 genes as downstream targets for the VDR were confirmed by gel electromotility shift and chromatin immunoprecipitation assays that showed the presence of VDR complex binding sequences (PMID:17547532)
• suggests that dermatopontin can play various roles in different tissues and might be a molecule related to carcinogenesis and the progression of HCC via possible interaction with TGF-beta1 and other potential mechanisms (PMID:19916908)
• DPT has an accelerating role in fibroblast cell adhesion to the provisional matrix in the initial stage of wound healing. (PMID:21398523)
• data provided strong evidence that downregulation of DPT is a characteristic event in human oral squamous cell carcinoma and that DPT was correlated with cellular adhesion and invasiveness. (PMID:21796630)
• These results indicate that DPT can modify certain biological functions of fibrin, and thus a another function of this extracellular matrix protein was revealed. (PMID:23877568)
• dermatopontin functional peptide produces fibrinogen fibrils and modifies its biological activity (PMID:25082449)
• This study essentially deals with assessing the expression and integrity of an extracellular matrix protein, Dermatopontin (DPT), in chronic cutaneous wounds. (PMID:25260909)
• Lumican, decorin and dermatopontin are differentially expressed and may serve as biomarkers for metastatic and recurrent Giant cell tumor of bone (PMID:25304290)
• The obtained results indicate that the changes in gene expression in bone marrow progenitor cells can be involved into space flight-induced osteopenia. (PMID:25509878)
• Novel mutation in DPT segregates with the complete phenotype with variable expressivity in two pedigrees with autosomal dominant familial Meniere’s disease. (PMID:27876815)
• DPT gene silencing could effectively reduce the proliferation of MG-63 cells, slow down the cell cycle progression and promote cell apoptosis. (PMID:29115446)
• DPT regulates CDK4, CDK6 and p21, through MEK-ERK-MYC signaling to repress papillary thyroid cancer proliferation. (PMID:30391671)
• Cloning, expression and purification of recombinant dermatopontin in Escherichia coli. (PMID:33253286)
• A Potential Four-Gene Signature and Nomogram for Predicting the Overall Survival of Papillary Thyroid Cancer. (PMID:36193505)
• DNMT3a-dermatopontin axis suppresses breast cancer malignancy via inactivating YAP. (PMID:36774339)
• Clinical importance and PI3K/Akt pathway-dependent anti-proliferative role of PALMD and DPT in breast cancer. (PMID:37556876)
• Downregulation of dermatopontin in cholangiocarcinoma cells suppresses CCL19 secretion of macrophages and immune infiltration. (PMID:38300311)
• Identification of HTRA1, DPT and MXRA5 as potential biomarkers associated with osteoarthritis progression and immune infiltration. (PMID:39148085)

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
danio_rerio	dpt	ENSDARG00000056178
mus_musculus	Dpt	ENSMUSG00000026574
rattus_norvegicus	Dpt	ENSRNOG00000002947

Protein

Protein identifiers

Dermatopontin — Q07507 (reviewed: Q07507)

Alternative names: Tyrosine-rich acidic matrix protein

All UniProt accessions (1): Q07507

UniProt curated annotations — full annotation on UniProt →

Function. Seems to mediate adhesion by cell surface integrin binding. May serve as a communication link between the dermal fibroblast cell surface and its extracellular matrix environment. Enhances TGFB1 activity. Inhibits cell proliferation. Accelerates collagen fibril formation, and stabilizes collagen fibrils against low-temperature dissociation.

Subunit / interactions. Interacts with TGFB1, DCN and collagen.

Subcellular location. Secreted. Extracellular space. Extracellular matrix.

Tissue specificity. Expressed in fibroblasts, heart, skeletal muscle, brain and pancreas. Expressed at an intermediate level in lung and kidney, and at a low level in liver and placenta. Expressed at a lower level in fibroblasts from hypertrophic scar lesional skin and in fibroblasts from patients with systemic sclerosis than in normal skin fibroblasts.

Post-translational modifications. Sulfated on tyrosine residue(s).

Induction. Induced by TGFB1, repressed by IL4/interleukin-4.

Similarity. Belongs to the dermatopontin family.

RefSeq proteins (1): NP_001928* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR026645	Dermatopontin	Family

Pfam: PF14704

UniProt features (24 total): modified residue 7, disulfide bond 5, repeat 5, sequence conflict 2, region of interest 2, signal peptide 1, chain 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q07507-F1	85.21	0.76

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 (7): 23, 162, 164, 166, 167, 194, 19

Disulfide bonds (5): 50–77, 90–132, 106–133, 139–196, 143–189

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 0 (showing top):

GO Biological Process (3): cell adhesion (GO:0007155), negative regulation of cell population proliferation (GO:0008285), collagen fibril organization (GO:0030199)

GO Molecular Function (2): extracellular matrix structural constituent (GO:0005201), protein binding (GO:0005515)

GO Cellular Component (3): obsolete extracellular space (GO:0005615), extracellular matrix (GO:0031012), extracellular region (GO:0005576)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cellular process	1
cell population proliferation	1
regulation of cell population proliferation	1
negative regulation of cellular process	1
extracellular matrix organization	1
structural molecule activity	1
extracellular matrix	1
binding	1
external encapsulating structure	1
cellular anatomical structure	1

Protein interactions and networks

STRING

738 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
DPT	DCN	P07585	767
DPT	LUM	P51884	740
DPT	COX6C	P09669	718
DPT	CCNB1IP1	Q9NPC3	715
DPT	PRELP	P51888	714
DPT	POSTN	Q15063	657
DPT	FH	P07954	648
DPT	TGFB3	P10600	627
DPT	SPP1	P10451	588
DPT	FN1	P02751	587
DPT	RAD51B	O15315	583
DPT	ELN	P15502	569
DPT	ALDH2	P05091	549
DPT	F5H6H0	F5H6H0	547
DPT	FBLN5	Q9UBX5	535

IntAct

8 interactions, top by confidence:

A	B	Type	Score
LOX	DPT	psi-mi:“MI:0407”(direct interaction)	0.560
APP	DPT	psi-mi:“MI:0407”(direct interaction)	0.440
HERC2	ZBTB5	psi-mi:“MI:0914”(association)	0.350
HERC2	FTL	psi-mi:“MI:0914”(association)	0.350
HERC2	SET	psi-mi:“MI:0914”(association)	0.350
DPT	BAG6	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (3): BAG6 (Two-hybrid), DPT (Affinity Capture-MS), DPT (Reconstituted Complex)

ESM2 similar proteins: A0A0N7KBN8, A0A5J6KCM0, A7X3S0, A8QZJ5, B5AJT2, C9X4K7, G0W2I1, G3V686, P02675, P02676, P02679, P02680, P04115, P09335, P09336, P09338, P0C8G6, P0C8G7, P0DMY4, P0DQO9, P0DQR2, P12799, P14480, P17634, P19427, P19616, P20302, P45846, P69930, P83553, Q00801, Q00802, Q01528, Q02020, Q07507, Q20170, Q54F49, Q76CA3, Q8K0E8, Q8K426

Diamond homologs: P19427, P45846, Q07507, Q9QZZ6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	1
Likely pathogenic	0
Uncertain significance	29
Likely benign	8
Benign	6

Top pathogenic / likely-pathogenic (1)

Variant ID	HGVS	Classification
224834	NM_001937.5(DPT):c.544C>T (p.Arg182Cys)	Pathogenic

SpliceAI

739 predictions. Top by Δscore:

Variant	Effect	Δscore
1:168701011:TCTCA:T	donor_loss	0.9900
1:168701012:CTCAC:C	donor_loss	0.9900
1:168701013:T:TA	donor_loss	0.9900
1:168701014:C:CA	donor_loss	0.9900
1:168701015:A:AG	donor_loss	0.9900
1:168701124:CCTA:C	acceptor_gain	0.9900
1:168701125:C:CC	acceptor_gain	0.9900
1:168714220:CCAG:C	donor_gain	0.9900
1:168714345:ACCT:A	acceptor_loss	0.9900
1:168714347:CTG:C	acceptor_loss	0.9900
1:168728864:CCTTA:C	donor_loss	0.9900
1:168728865:CTTA:C	donor_loss	0.9900
1:168728866:TTA:T	donor_loss	0.9900
1:168728867:TACCA:T	donor_loss	0.9900
1:168728868:ACCAT:A	donor_loss	0.9900
1:168728869:C:CA	donor_loss	0.9900
1:168728869:CCATT:C	donor_gain	0.9900
1:168701123:GCCTA:G	acceptor_loss	0.9800
1:168701124:CC:C	acceptor_loss	0.9800
1:168714213:AGACT:A	donor_loss	0.9800
1:168714214:GACT:G	donor_loss	0.9800
1:168714215:ACT:A	donor_loss	0.9800
1:168714216:C:CG	donor_loss	0.9800
1:168714217:TC:T	donor_loss	0.9800
1:168714218:CACCA:C	donor_loss	0.9800
1:168714219:A:AC	donor_gain	0.9800
1:168714219:A:C	donor_loss	0.9800
1:168714220:C:CC	donor_gain	0.9800
1:168728868:A:AC	donor_gain	0.9800
1:168728869:C:CC	donor_gain	0.9800

AlphaMissense

1341 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
1:168714268:C:A	W128C	1.000
1:168714268:C:G	W128C	1.000
1:168714270:A:G	W128R	1.000
1:168714270:A:T	W128R	1.000
1:168728956:C:A	W73C	1.000
1:168728956:C:G	W73C	1.000
1:168728958:A:G	W73R	1.000
1:168728958:A:T	W73R	1.000
1:168696588:G:C	C189W	0.999
1:168696603:C:A	W184C	0.999
1:168696603:C:G	W184C	0.999
1:168696605:A:G	W184R	0.999
1:168696605:A:T	W184R	0.999
1:168696611:G:T	R182S	0.999
1:168701031:G:C	F175L	0.999
1:168701031:G:T	F175L	0.999
1:168701033:A:G	F175L	0.999
1:168714275:C:G	R126P	0.999
1:168714278:T:A	D125V	0.999
1:168714279:C:G	D125H	0.999
1:168714301:G:C	S117R	0.999
1:168714301:G:T	S117R	0.999
1:168714303:T:G	S117R	0.999
1:168714334:G:C	C106W	0.999
1:168714335:C:T	C106Y	0.999
1:168728899:C:A	W92C	0.999
1:168728899:C:G	W92C	0.999
1:168728992:G:C	S61R	0.999
1:168728992:G:T	S61R	0.999
1:168728994:T:G	S61R	0.999

dbSNP variants (sampled 300 via entrez): RS1000136838 (1:168728037 A>G), RS1000159762 (1:168707747 A>G), RS1000162577 (1:168707497 A>G), RS1000212793 (1:168713800 T>C), RS1000290205 (1:168702591 C>A,T), RS1000372935 (1:168696769 G>A), RS1000545339 (1:168712204 A>G), RS1000611167 (1:168696366 A>C,T), RS1000615322 (1:168706796 C>T), RS1000626091 (1:168701229 C>A), RS1000678574 (1:168707931 A>C,G), RS1000741493 (1:168701541 T>A,C), RS1000747789 (1:168727548 T>C,G), RS1000860027 (1:168717232 T>G), RS1000885055 (1:168701943 T>C)

Disease associations

OMIM: gene MIM:125597 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

10 associations (top):

Study	Trait	p-value
GCST000103_1	Morbidity-free survival	2.000000e-09
GCST002875_153	Diisocyanate-induced asthma	8.000000e-06
GCST005790_81	Rosacea symptom severity	6.000000e-06
GCST006585_2557	Blood protein levels	7.000000e-34
GCST010320_59	PR interval	2.000000e-07
GCST010321_178	PR interval	3.000000e-08
GCST010796_2681	Electrocardiogram morphology (amplitude at temporal datapoints)	8.000000e-67
GCST010796_2682	Electrocardiogram morphology (amplitude at temporal datapoints)	5.000000e-68
GCST010796_2683	Electrocardiogram morphology (amplitude at temporal datapoints)	5.000000e-68
GCST011010_11	Electrocardiographic traits (multivariate)	2.000000e-10

EFO canonical traits (5, from GWAS)

EFO ID	Trait name
EFO:0000409	disease free survival
EFO:0006995	response to diisocyanate
EFO:0009180	rosacea severity measurement
EFO:0004462	PR interval
EFO:0004327	electrocardiography

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

PharmGKB variants

1 variants.

Variant	Genes	Level	Score	#Clin annots	Drugs
rs529949	DPT		0.00	0

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Nickel	decreases expression	2
testosterone enanthate	affects expression	1
ethylbenzene	affects cotreatment, decreases methylation, increases expression	1
6-hydroxy-5-((p- sulfophenyl)azo)-2-naphthalenesulfonic acid disodium salt	affects cotreatment, decreases expression	1
bisphenol A	decreases expression	1
2,5,2’,5’-tetrachlorobiphenyl	decreases expression	1
diisononyl phthalate	affects cotreatment, decreases expression	1
lead nitrate	affects cotreatment, decreases expression	1
benzo(e)pyrene	increases methylation	1
butylbenzyl phthalate	decreases expression, affects cotreatment	1
CGP 52608	affects binding, increases reaction	1
entinostat	increases expression	1
bisphenol S	decreases expression	1
incobotulinumtoxinA	increases expression	1
Air Pollutants	increases expression	1
Air Pollutants, Occupational	decreases methylation, increases expression	1
Arsenic	affects methylation	1
Benzo(a)pyrene	affects methylation	1
Calcitriol	decreases expression	1
Chenodeoxycholic Acid	affects cotreatment, decreases expression	1
Deoxycholic Acid	affects cotreatment, decreases expression	1
Dexamethasone	affects cotreatment, increases expression	1
Diethylhexyl Phthalate	affects cotreatment, decreases expression	1
Folic Acid	affects expression	1
Glycochenodeoxycholic Acid	affects cotreatment, decreases expression	1
Glycocholic Acid	affects cotreatment, decreases expression	1
Glycodeoxycholic Acid	affects cotreatment, decreases expression	1
Indomethacin	affects cotreatment, increases expression	1
Mercury	affects cotreatment, decreases expression	1
Methapyrilene	increases methylation	1

Clinical trials (associated diseases)

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