PRADC1

Summary

PRADC1 (protease associated domain containing 1, HGNC:16047) is a protein-coding gene on chromosome 2p13.2, encoding Protease-associated domain-containing protein 1 (Q9BSG0). Plays a role in the modulation of physical activity and adiposity.

Located in extracellular region.

Source: NCBI Gene 84279 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 38 total
• MANE Select transcript: NM_032319

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:16047
Approved symbol	PRADC1
Name	protease associated domain containing 1
Location	2p13.2
Locus type	gene with protein product
Status	Approved
Aliases	MGC13004, PAP21, hPAP21
Ensembl gene	ENSG00000135617
Ensembl biotype	protein_coding
OMIM	619674
Entrez	84279

Gene structure

Transcript identifiers

Ensembl transcripts: 4 — 2 protein_coding, 1 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000258083, ENST00000470391, ENST00000480093, ENST00000951454

RefSeq mRNA: 1 — MANE Select: NM_032319 NM_032319

CCDS: CCDS1924

Canonical transcript exons

ENST00000258083 — 5 exons

Exon	Start	End
ENSE00000920792	73228795	73228962
ENSE00000963348	73233094	73233239
ENSE00000963349	73228010	73228574
ENSE00003593890	73230113	73230213
ENSE00003678173	73229461	73229570

Expression profiles

Bgee: expression breadth ubiquitous, 234 present calls, max score 97.70.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 12.8916 / max 113.3905, expressed in 1769 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
29127	12.8916	1769

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
apex of heart	UBERON:0002098	97.70	gold quality
heart left ventricle	UBERON:0002084	95.82	gold quality
hindlimb stylopod muscle	UBERON:0004252	95.70	gold quality
right atrium auricular region	UBERON:0006631	95.60	gold quality
gastrocnemius	UBERON:0001388	95.54	gold quality
cardiac ventricle	UBERON:0002082	95.50	gold quality
cardiac atrium	UBERON:0002081	95.11	gold quality
muscle of leg	UBERON:0001383	94.88	gold quality
left ventricle myocardium	UBERON:0006566	94.17	silver quality
heart	UBERON:0000948	93.91	gold quality
right lobe of liver	UBERON:0001114	93.51	gold quality
mucosa of transverse colon	UBERON:0004991	93.37	gold quality
quadriceps femoris	UBERON:0001377	92.81	gold quality
oocyte	CL:0000023	92.43	gold quality
vastus lateralis	UBERON:0001379	92.42	gold quality
skeletal muscle tissue	UBERON:0001134	92.05	gold quality
right adrenal gland cortex	UBERON:0035827	91.39	gold quality
muscle tissue	UBERON:0002385	91.34	gold quality
deltoid	UBERON:0001476	91.32	gold quality
right adrenal gland	UBERON:0001233	91.12	gold quality
skeletal muscle tissue of rectus abdominis	UBERON:0004511	90.57	gold quality
left adrenal gland	UBERON:0001234	90.46	gold quality
cardiac muscle of right atrium	UBERON:0003379	90.45	silver quality
left adrenal gland cortex	UBERON:0035825	90.37	gold quality
prefrontal cortex	UBERON:0000451	90.35	gold quality
myocardium	UBERON:0002349	90.35	silver quality
biceps brachii	UBERON:0001507	90.32	gold quality
putamen	UBERON:0001874	90.24	gold quality
tibialis anterior	UBERON:0001385	90.13	silver quality
transverse colon	UBERON:0001157	90.06	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

33 targeting PRADC1, 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-574-5P	100.00	66.01	989
HSA-MIR-4747-5P	100.00	67.90	2681
HSA-MIR-5196-5P	100.00	67.98	2761
HSA-MIR-548P	99.98	72.25	3784
HSA-MIR-4267	99.96	66.53	2368
HSA-MIR-515-5P	99.92	69.82	2343
HSA-MIR-519E-5P	99.92	69.62	2358
HSA-MIR-4697-3P	99.89	67.09	1123
HSA-MIR-6783-3P	99.89	67.92	2059
HSA-MIR-1343-3P	99.89	66.78	1815
HSA-MIR-137-3P	99.87	74.74	2401
HSA-MIR-4639-5P	99.81	67.37	1028
HSA-MIR-370-5P	99.78	66.81	706
HSA-MIR-3059-5P	99.70	69.93	2491
HSA-MIR-1287-3P	99.63	66.93	492
HSA-MIR-519D-5P	99.41	69.30	2057
HSA-MIR-889-5P	99.41	68.75	1025
HSA-MIR-4505	99.27	67.81	2678
HSA-MIR-6852-5P	99.17	66.69	2073
HSA-MIR-4292	99.16	65.57	1767
HSA-MIR-6791-5P	99.16	65.92	1844
HSA-MIR-629-5P	98.78	68.72	1032
HSA-MIR-7977	98.65	66.18	2590
HSA-MIR-9500	98.62	66.54	1845
HSA-MIR-6732-3P	98.17	67.52	802
HSA-MIR-6842-3P	98.07	66.33	1325
HSA-MIR-6742-3P	97.95	64.50	1490
HSA-MIR-3652	97.71	65.43	1890
HSA-MIR-493-3P	97.50	66.44	731
HSA-MIR-4430	97.47	65.61	1813

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
mus_musculus	Pradc1	ENSMUSG00000030008
rattus_norvegicus	Pradc1	ENSRNOG00000050483
drosophila_melanogaster	CG9849	FBGN0034803
caenorhabditis_elegans		WBGENE00020322

Protein

Protein identifiers

Protease-associated domain-containing protein 1 — Q9BSG0 (reviewed: Q9BSG0)

Alternative names: Protease-associated domain-containing protein of 21 kDa

All UniProt accessions (1): Q9BSG0

UniProt curated annotations — full annotation on UniProt →

Function. Plays a role in the modulation of physical activity and adiposity.

Subcellular location. Secreted.

Tissue specificity. Highly expressed in skeletal muscle, heart and liver. Expressed at intermediate level in kidney.

Post-translational modifications. N-glycosylated; required for efficient secretion.

RefSeq proteins (1): NP_115695* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR003137	PA_domain	Domain
IPR037323	PRADC1-like_PA	Domain
IPR046450	PA_dom_sf	Homologous_superfamily

Pfam: PF02225

UniProt features (7 total): mutagenesis site 2, signal peptide 1, chain 1, domain 1, site 1, glycosylation site 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9BSG0-F1	86.97	0.69

Functional residue map

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

Catalytic / active sites (1): 121 (not glycosylated)

Glycosylation sites (1): 171

Mutagenesis-validated functional residues (2):

Position	Phenotype
121	does not affect glycosylation state. abolishes n-glycosylation; when associated with q-171.
171	abolishes n-glycosylation. abolishes n-glycosylation; when associated with q-121.

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 121 (showing top): CCAWYNNGAAR_UNKNOWN, ACEVEDO_NORMAL_TISSUE_ADJACENT_TO_LIVER_TUMOR_DN, IVANOVA_HEMATOPOIESIS_LATE_PROGENITOR, MCAATNNNNNGCG_UNKNOWN, WCTCNATGGY_UNKNOWN, NKX22_01, PU1_Q6, VDR_Q3, MARKEY_RB1_ACUTE_LOF_UP, BURTON_ADIPOGENESIS_5, TTCNRGNNNNTTC_HSF_Q6, SCGGAAGY_ELK1_02, MGGAAGTG_GABP_B, GEORGES_TARGETS_OF_MIR192_AND_MIR215, KRIGE_RESPONSE_TO_TOSEDOSTAT_6HR_DN

GO Biological Process (0):

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (1): extracellular region (GO:0005576)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
cellular anatomical structure	1

Protein interactions and networks

STRING

202 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
PRADC1	PRSS37	A4D1T9	622
PRADC1	CCDC18	Q5T9S5	588
PRADC1	UACA	Q9BZF9	582
PRADC1	ZNF490	Q9ULM2	571
PRADC1	SFXN4	Q6P4A7	568
PRADC1	NUDT7	P0C024	490
PRADC1	LRRC56	Q8IYG6	431
PRADC1	KLRG2	A4D1S0	400
PRADC1	DEFB108B	Q8NET1	375
PRADC1	NOTO	A8MTQ0	370
PRADC1	AKR1C4	P17516	370
PRADC1	TWSG1	Q9GZX9	339
PRADC1	PSPH	P78330	338
PRADC1	NIPAL1	Q6NVV3	307
PRADC1	USP53	Q70EK8	305

IntAct

14 interactions, top by confidence:

A	B	Type	Score
PRADC1	VAC14	psi-mi:“MI:0915”(physical association)	0.560
VAC14	PRADC1	psi-mi:“MI:0915”(physical association)	0.560
DEFA5	NUDT19	psi-mi:“MI:0914”(association)	0.530
DEFA1	MANBA	psi-mi:“MI:0914”(association)	0.530
NTAQ1	SBNO1	psi-mi:“MI:0914”(association)	0.350
A2M	PZP	psi-mi:“MI:0914”(association)	0.350
CMTM2	GAPDHS	psi-mi:“MI:0914”(association)	0.350
A2M	BMP7	psi-mi:“MI:0914”(association)	0.350
VRK2	TMEM192	psi-mi:“MI:0914”(association)	0.350
A2M	SRPX2	psi-mi:“MI:0914”(association)	0.350

BioGRID (12): PRADC1 (Two-hybrid), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Proximity Label-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Affinity Capture-MS), PRADC1 (Two-hybrid)

ESM2 similar proteins: A6QLY2, O35217, O75648, O77485, O77487, O77783, O88676, P34059, P49641, P52848, P70428, Q02353, Q32KH5, Q32KH7, Q32KI9, Q32KJ6, Q32KJ8, Q3U129, Q3UHN9, Q4R766, Q571E4, Q5FYB1, Q5H8A4, Q5U4X8, Q5ZIN0, Q64380, Q67FW5, Q6GV29, Q6IS24, Q6P988, Q6ZQ11, Q7TT15, Q8BG28, Q8BRK9, Q8N2K0, Q8NCR0, Q8WNQ7, Q8WWQ2, Q93063, Q96SL4

Diamond homologs: B9FJ61, O81062, Q0DWA9, Q0WMJ8, Q3TD49, Q4V3B8, Q53P98, Q5F383, Q5N808, Q5PQL3, Q5Z413, Q6ZGL9, Q8TCT6, Q8TCT7, Q8W469, Q9BSG0, Q9CUS9, Q9D9N8, Q9MA44, Q9UTA3, Q9W1W9, A2AJ15, B2GUY0, F4HZZ4, O02773, O60476, O94726, P33908, P38888, P39098, P45700, P45701, P53624, Q10R93, Q2HXL6, Q69U49, Q6GQB9, Q8BJT9, Q8H116, Q925U4

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	27
Likely benign	2
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

659 predictions. Top by Δscore:

Variant	Effect	Δscore
2:73228794:CCCGT:C	donor_gain	1.0000
2:73228849:T:TA	donor_gain	1.0000
2:73229459:ACCC:A	donor_gain	1.0000
2:73229460:CCCC:C	donor_gain	1.0000
2:73229485:T:TA	donor_gain	1.0000
2:73230107:A:C	donor_gain	1.0000
2:73230111:A:AC	donor_gain	1.0000
2:73230112:C:CC	donor_gain	1.0000
2:73233088:GCTCA:G	donor_loss	1.0000
2:73233089:CTCA:C	donor_loss	1.0000
2:73233090:TCA:T	donor_loss	1.0000
2:73233091:CA:C	donor_loss	1.0000
2:73233092:A:AC	donor_gain	1.0000
2:73233092:ACC:A	donor_loss	1.0000
2:73233093:C:CA	donor_loss	1.0000
2:73233093:C:CC	donor_gain	1.0000
2:73228958:AGCCC:A	acceptor_gain	0.9900
2:73228960:CCC:C	acceptor_gain	0.9900
2:73228961:CC:C	acceptor_gain	0.9900
2:73228961:CCC:C	acceptor_gain	0.9900
2:73228962:CC:C	acceptor_gain	0.9900
2:73228962:CCT:C	acceptor_loss	0.9900
2:73228963:C:CA	acceptor_loss	0.9900
2:73228963:C:CC	acceptor_gain	0.9900
2:73228972:G:C	acceptor_gain	0.9900
2:73229459:ACC:A	donor_gain	0.9900
2:73229460:CCC:C	donor_gain	0.9900
2:73229462:C:CA	donor_gain	0.9900
2:73229569:TG:T	acceptor_gain	0.9900
2:73229571:C:CC	acceptor_gain	0.9900

AlphaMissense

1237 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
2:73228466:C:A	W185C	1.000
2:73228466:C:G	W185C	1.000
2:73228810:A:G	L144P	1.000
2:73228858:A:G	M128T	1.000
2:73228941:C:A	K100N	1.000
2:73228941:C:G	K100N	1.000
2:73229545:A:G	L65P	1.000
2:73229545:A:T	L65H	1.000
2:73228468:A:G	W185R	0.999
2:73228468:A:T	W185R	0.999
2:73228515:G:T	P169Q	0.999
2:73228522:A:G	S167P	0.999
2:73228524:A:T	I166N	0.999
2:73228531:C:G	A164P	0.999
2:73228554:A:G	L156P	0.999
2:73228566:A:C	I152S	0.999
2:73228566:A:G	I152T	0.999
2:73228566:A:T	I152N	0.999
2:73228795:C:T	G149D	0.999
2:73228796:C:G	G149R	0.999
2:73228798:T:A	D148V	0.999
2:73228804:C:A	G146V	0.999
2:73228804:C:T	G146D	0.999
2:73228805:C:G	G146R	0.999
2:73228812:G:C	F143L	0.999
2:73228812:G:T	F143L	0.999
2:73228814:A:G	F143L	0.999
2:73228814:A:T	F143I	0.999
2:73228819:G:T	A141D	0.999
2:73228850:C:G	D131H	0.999

dbSNP variants (sampled 300 via entrez): RS1000407661 (2:73231335 G>A), RS1000464461 (2:73231245 G>A), RS1000766625 (2:73230861 A>C), RS1001318097 (2:73234918 T>A,C), RS1001522248 (2:73231916 T>C), RS1001768698 (2:73229396 A>G), RS1002073161 (2:73235122 C>T), RS1002572627 (2:73233634 G>C), RS1002727815 (2:73233735 G>A), RS1002741485 (2:73227558 C>T), RS1003125343 (2:73234393 C>T), RS1003587685 (2:73234812 A>T), RS1003752123 (2:73228380 C>G), RS1003852835 (2:73227672 C>T), RS1003905112 (2:73227950 G>A)

Disease associations

OMIM: gene MIM:619674 | 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

23 total (human), top 23 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, increases expression, affects expression, decreases methylation	7
Air Pollutants	decreases expression, increases abundance	2
Cyclosporine	decreases expression	2
Particulate Matter	decreases expression, increases abundance	2
bisphenol A	affects expression	1
arsenite	increases reaction, affects binding	1
tris(1,3-dichloro-2-propyl)phosphate	decreases expression	1
sodium arsenite	increases expression	1
di-n-butylphosphoric acid	affects expression	1
K 7174	decreases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, increases expression	1
ICG 001	decreases expression	1
abrine	decreases expression	1
dorsomorphin	increases expression, affects cotreatment	1
4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic acid	decreases expression	1
Temozolomide	decreases expression	1
Vorinostat	increases expression	1
Leflunomide	decreases expression	1
Diethylhexyl Phthalate	increases expression	1
Doxorubicin	decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Triclosan	decreases expression	1
Copper Sulfate	increases expression	1

Clinical trials (associated diseases)

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