ZNF787

Summary

ZNF787 (zinc finger protein 787, HGNC:26998) is a protein-coding gene on chromosome 19q13.43, encoding Zinc finger protein 787 (Q6DD87). May be involved in transcriptional regulation.

Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus.

Source: NCBI Gene 126208 — RefSeq curated summary.

At a glance

• GWAS associations: 4
• Clinical variants (ClinVar): 56 total
• Druggable target: yes
• MANE Select transcript: NM_001002836

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:26998
Approved symbol	ZNF787
Name	zinc finger protein 787
Location	19q13.43
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000142409
Ensembl biotype	protein_coding
Entrez	126208

Gene structure

Transcript identifiers

Ensembl transcripts: 10 — 10 protein_coding

ENST00000586787, ENST00000587279, ENST00000610935, ENST00000969467, ENST00000969468, ENST00000969469, ENST00000969470, ENST00000969471, ENST00000969472, ENST00000969473

RefSeq mRNA: 2 — MANE Select: NM_001002836 NM_001002836, NM_001351682

CCDS: CCDS42634, CCDS86810

Canonical transcript exons

ENST00000610935 — 3 exons

Exon	Start	End
ENSE00003711520	56103139	56103227
ENSE00003711686	56121172	56121295
ENSE00003740286	56087366	56089092

Expression profiles

Bgee: expression breadth ubiquitous, 237 present calls, max score 91.59.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 25.5028 / max 490.8687, expressed in 1816 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
182864	23.9840	1815
182865	1.5189	876

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
hindlimb stylopod muscle	UBERON:0004252	91.59	gold quality
mucosa of transverse colon	UBERON:0004991	91.50	gold quality
right uterine tube	UBERON:0001302	90.86	gold quality
apex of heart	UBERON:0002098	90.54	gold quality
gastrocnemius	UBERON:0001388	90.21	gold quality
right lobe of liver	UBERON:0001114	89.56	gold quality
muscle of leg	UBERON:0001383	89.03	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	88.84	gold quality
granulocyte	CL:0000094	88.62	gold quality
monocyte	CL:0000576	88.33	gold quality
mononuclear cell	CL:0000842	87.98	gold quality
leukocyte	CL:0000738	87.82	gold quality
transverse colon	UBERON:0001157	87.26	gold quality
lower esophagus mucosa	UBERON:0035834	87.11	gold quality
body of stomach	UBERON:0001161	87.00	gold quality
body of pancreas	UBERON:0001150	86.75	gold quality
muscle layer of sigmoid colon	UBERON:0035805	86.13	gold quality
lower esophagus muscularis layer	UBERON:0035833	86.05	gold quality
lower esophagus	UBERON:0013473	86.04	gold quality
blood	UBERON:0000178	85.91	gold quality
left adrenal gland cortex	UBERON:0035825	85.86	gold quality
left adrenal gland	UBERON:0001234	85.83	gold quality
heart left ventricle	UBERON:0002084	85.73	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	85.51	gold quality
cardiac ventricle	UBERON:0002082	85.14	gold quality
left uterine tube	UBERON:0001303	85.10	gold quality
spleen	UBERON:0002106	84.93	gold quality
right adrenal gland cortex	UBERON:0035827	84.85	gold quality
right atrium auricular region	UBERON:0006631	84.81	gold quality
right adrenal gland	UBERON:0001233	84.80	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.72
E-MTAB-6075	no	28.76

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

19 targeting ZNF787, 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-371A-3P	99.99	66.77	91
HSA-MIR-4656	98.79	66.22	1306
HSA-MIR-330-5P	98.73	67.63	1788
HSA-MIR-3180	98.46	64.68	348
HSA-MIR-3180-3P	98.46	64.68	348
HSA-MIR-6816-5P	98.46	64.35	364
HSA-MIR-1910-3P	98.44	67.51	1695
HSA-MIR-326	98.25	66.44	1565
HSA-MIR-6511A-5P	98.13	67.47	1770
HSA-MIR-33B-3P	97.92	67.39	529
HSA-MIR-515-3P	97.92	67.98	506
HSA-MIR-519E-3P	97.92	68.25	508
HSA-MIR-3920	97.75	69.02	1168
HSA-MIR-6787-5P	97.54	63.85	457
HSA-MIR-10396B-5P	94.99	63.57	358
HSA-MIR-1908-5P	94.99	63.41	352
HSA-MIR-663A	94.99	63.54	378
HSA-MIR-371B-3P	94.48	66.59	345
HSA-MIR-25-5P	87.02	64.95	84

Literature-anchored findings (GeneRIF, showing 1)

• ZNF787 and HDAC1 Mediate Blood-Brain Barrier Permeability in an In Vitro Model of Alzheimer’s Disease Microenvironment. (PMID:38329647)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp787	ENSMUSG00000046792
rattus_norvegicus	Zfp787	ENSRNOG00000015456

Paralogs (1): ZNF316 (ENSG00000205903)

Protein

Protein identifiers

Zinc finger protein 787 — Q6DD87 (reviewed: Q6DD87)

Alternative names: TTF-I-interacting peptide 20

All UniProt accessions (3): Q6DD87, K7EKJ5, M0R0X7

UniProt curated annotations — full annotation on UniProt →

Function. May be involved in transcriptional regulation.

Subcellular location. Nucleus.

Similarity. Belongs to the krueppel C2H2-type zinc-finger protein family.

RefSeq proteins (2): NP_001002836, NP_001338611 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR050527

Pfam: PF00096, PF13465, PF13912

UniProt features (19 total): zinc finger region 7, modified residue 3, cross-link 2, sequence conflict 2, region of interest 2, chain 1, compositionally biased region 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q6DD87-F1	65.10	0.00

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 (5): 117, 122, 132, 191, 211

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 53 (showing top): YAGI_AML_WITH_INV_16_TRANSLOCATION, DARWICHE_SKIN_TUMOR_PROMOTER_DN, DARWICHE_PAPILLOMA_RISK_LOW_DN, DARWICHE_PAPILLOMA_RISK_HIGH_DN, DARWICHE_SQUAMOUS_CELL_CARCINOMA_DN, DARWICHE_PAPILLOMA_PROGRESSION_RISK, RASHI_RESPONSE_TO_IONIZING_RADIATION_5, GRADE_COLON_AND_RECTAL_CANCER_DN, IVANOVA_HEMATOPOIESIS_EARLY_PROGENITOR, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, CYCLIN_D1_KE_.V1_UP, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, ELF2_TARGET_GENES, SNIP1_TARGET_GENES, UBN1_TARGET_GENES

GO Biological Process (1): regulation of transcription by RNA polymerase II (GO:0006357)

GO Molecular Function (6): DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), zinc ion binding (GO:0008270), sequence-specific DNA binding (GO:0043565), sequence-specific double-stranded DNA binding (GO:1990837), DNA binding (GO:0003677), metal ion binding (GO:0046872)

GO Cellular Component (1): nucleus (GO:0005634)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
regulation of DNA-templated transcription	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
transition metal ion binding	1
DNA binding	1
double-stranded DNA binding	1
sequence-specific DNA binding	1
nucleic acid binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

888 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF787	BNIP1	Q12981	953
ZNF787	ZW10	O43264	945
ZNF787	RINT1	Q6NUQ1	819
ZNF787	STX18	Q9P2W9	789
ZNF787	COG4	Q9H9E3	725
ZNF787	VPS53	Q5VIR6	702
ZNF787	USE1	Q9NZ43	687
ZNF787	COG3	Q96JB2	664
ZNF787	EXOC3	O60645	592
ZNF787	ANKDD1B	A6NHY2	519
ZNF787	EXOC7	Q9UPT5	512
ZNF787	VPS54	Q9P1Q0	507
ZNF787	COG2	Q14746	507
ZNF787	COG1	Q8WTW3	506
ZNF787	VPS51	Q9UID3	481

IntAct

32 interactions, top by confidence:

A	B	Type	Score
CDK5RAP3	UFL1	psi-mi:“MI:0914”(association)	0.870
MOB1B	LATS1	psi-mi:“MI:0914”(association)	0.840
STBD1	GABARAP	psi-mi:“MI:0914”(association)	0.760
SMARCE1	SMARCA2	psi-mi:“MI:0914”(association)	0.730
P4HA3	FAM171A2	psi-mi:“MI:0914”(association)	0.640
RPL10A	RRP8	psi-mi:“MI:0914”(association)	0.640
PNLIP	LAMC1	psi-mi:“MI:0914”(association)	0.530
MAGEB2	GTPBP10	psi-mi:“MI:0914”(association)	0.530
ESR1	ESYT2	psi-mi:“MI:0914”(association)	0.350
ORF4a	MPHOSPH10	psi-mi:“MI:0914”(association)	0.350
SOX2	CBX4	psi-mi:“MI:0914”(association)	0.350
NOTCH2	ZNF320	psi-mi:“MI:0914”(association)	0.350
TMEM63C	GPR89A	psi-mi:“MI:0914”(association)	0.350
	ESYT2	psi-mi:“MI:0914”(association)	0.350
	PES1	psi-mi:“MI:0914”(association)	0.350
	POLR3A	psi-mi:“MI:0914”(association)	0.350
	POLRMT	psi-mi:“MI:0914”(association)	0.350
	SUPT5H	psi-mi:“MI:0914”(association)	0.350
	GTPBP10	psi-mi:“MI:0914”(association)	0.350
	DDX3X	psi-mi:“MI:0914”(association)	0.350
FGFBP1		psi-mi:“MI:0914”(association)	0.350
ZNF460	TOMM40	psi-mi:“MI:0914”(association)	0.350
H1-1	POLRMT	psi-mi:“MI:0914”(association)	0.350
SLC11A1	TRAFD1	psi-mi:“MI:0914”(association)	0.350

BioGRID (55): ZNF787 (Affinity Capture-RNA), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-RNA), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-MS), ZNF787 (Proximity Label-MS), ZNF787 (Proximity Label-MS), ZNF787 (Proximity Label-MS), ZNF787 (Proximity Label-MS), ZNF787 (Affinity Capture-MS), ZNF787 (Affinity Capture-MS)

ESM2 similar proteins: A2CE44, A6NFI3, A6NM28, A8K8V0, O15370, O70218, O95201, P0CJ78, P10075, P10754, P28698, P70338, Q04890, Q07120, Q14V87, Q19A40, Q569E7, Q58DK7, Q5DWN0, Q5FWU5, Q5RJR4, Q5T619, Q5TEC3, Q6DD87, Q6IQX8, Q6PD29, Q6PGE4, Q6ZMY9, Q7Z7K2, Q80VM4, Q8BIF9, Q8JZL0, Q8N8E2, Q8NAF0, Q8NCA9, Q8TD94, Q8WUU4, Q96C55, Q96H86, Q96MX3

Diamond homologs: A1L2U9, A2A884, A2ANX9, A7Y7X5, B0X9H6, B0YDH7, B1WAZ8, B1WBU4, E9PW05, E9PZZ1, G5EBU4, O15391, O60315, O62836, O75362, O77459, O95863, P08048, P0CS62, P0CS63, P10925, P15822, P17010, P17012, P20662, P22227, P25490, P28166, P31509, P31629, P36197, P52739, P52746, P56270, P56670, P56671, P60319, P80944, Q00899, Q00900

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	49
Likely benign	5
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1190 predictions. Top by Δscore:

Variant	Effect	Δscore
19:56089088:GTCCA:G	acceptor_gain	1.0000
19:56089089:TCCA:T	acceptor_gain	1.0000
19:56089090:CCA:C	acceptor_gain	1.0000
19:56089090:CCAC:C	acceptor_gain	1.0000
19:56089091:CA:C	acceptor_gain	1.0000
19:56089091:CAC:C	acceptor_gain	1.0000
19:56089091:CACTG:C	acceptor_loss	1.0000
19:56089092:ACTG:A	acceptor_loss	1.0000
19:56089093:C:CC	acceptor_gain	1.0000
19:56089094:T:A	acceptor_loss	1.0000
19:56103133:GCTCA:G	donor_loss	1.0000
19:56103134:CTCA:C	donor_loss	1.0000
19:56103135:TCA:T	donor_loss	1.0000
19:56103136:CA:C	donor_loss	1.0000
19:56103137:ACCTG:A	donor_loss	1.0000
19:56103226:CC:C	acceptor_gain	1.0000
19:56103227:CC:C	acceptor_gain	1.0000
19:56103228:C:CC	acceptor_gain	1.0000
19:56103231:T:C	acceptor_gain	1.0000
19:56103231:T:TC	acceptor_gain	1.0000
19:56121173:T:TA	donor_gain	1.0000
19:56089101:C:CT	acceptor_gain	0.9900
19:56089102:A:T	acceptor_gain	0.9900
19:56103223:GGTCC:G	acceptor_gain	0.9900
19:56103224:GTCC:G	acceptor_gain	0.9900
19:56103225:TCC:T	acceptor_gain	0.9900
19:56103226:CCC:C	acceptor_gain	0.9900
19:56103228:C:T	acceptor_gain	0.9900
19:56103230:G:C	acceptor_gain	0.9900
19:56103241:A:C	acceptor_gain	0.9900

AlphaMissense

2483 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:56088611:G:C	F187L	1.000
19:56088611:G:T	F187L	1.000
19:56088613:A:G	F187L	1.000
19:56088695:G:C	F159L	1.000
19:56088695:G:T	F159L	1.000
19:56088697:A:G	F159L	1.000
19:56088779:G:C	F131L	1.000
19:56088779:G:T	F131L	1.000
19:56088781:A:G	F131L	1.000
19:56088863:G:C	F103L	1.000
19:56088863:G:T	F103L	1.000
19:56088865:A:G	F103L	1.000
19:56088908:G:C	H88Q	1.000
19:56088908:G:T	H88Q	1.000
19:56088947:A:C	F75L	1.000
19:56088947:A:T	F75L	1.000
19:56088949:A:G	F75L	1.000
19:56088194:G:C	F326L	0.999
19:56088194:G:T	F326L	0.999
19:56088196:A:G	F326L	0.999
19:56088612:A:G	F187S	0.999
19:56088634:A:G	C180R	0.999
19:56088696:A:G	F159S	0.999
19:56088707:G:C	C155W	0.999
19:56088718:A:G	C152R	0.999
19:56088740:G:C	H144Q	0.999
19:56088740:G:T	H144Q	0.999
19:56088742:G:C	H144D	0.999
19:56088747:C:G	R142P	0.999
19:56088750:T:G	Q141P	0.999

dbSNP variants (sampled 300 via entrez): RS1000075019 (19:56087734 C>G,T), RS1000214491 (19:56112197 A>G), RS1000228939 (19:56116063 T>C), RS1000293411 (19:56122175 A>G), RS1000302446 (19:56089558 G>A), RS1000402355 (19:56090085 G>A), RS1000407915 (19:56103319 G>A,T), RS1000447711 (19:56116898 T>G), RS1000537634 (19:56102713 T>C,G), RS1000621886 (19:56098012 G>A,T), RS1000622612 (19:56112585 T>C), RS1000662205 (19:56098760 T>TG), RS1000714751 (19:56107607 G>A), RS1000768406 (19:56102322 C>G,T), RS1000831436 (19:56093458 C>G,T)

Disease associations

OMIM: gene `` | disease phenotypes: MIM:157900

GenCC curated gene-disease

Mondo (1): Mobius syndrome (MONDO:0008006)

Orphanet (1): Moebius syndrome (Orphanet:570)

HPO phenotypes

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

GWAS associations

4 associations (top):

Study	Trait	p-value
GCST005194_209	Coronary artery disease	4.000000e-06
GCST005991_73	Platelet count	2.000000e-17
GCST012282_10	BMI x environmental factors (excluding physical activity) interaction	3.000000e-06
GCST012283_6	BMI x environmental factors (including physical activity) interaction	2.000000e-06

EFO canonical traits (9, from GWAS)

EFO ID	Trait name
EFO:0004309	platelet count
EFO:0004340	body mass index
EFO:0006527	smoking status measurement
EFO:0009374	energy intake measurement
EFO:0009695	household income
EFO:0010810	protein intake measurement
EFO:0010811	carbohydrate intake measurement
EFO:0011015	educational attainment
EFO:0008002	physical activity measurement

MeSH disease descriptors (1)

Descriptor	Name	Tree numbers
D020331	Mobius Syndrome	C07.465.299.825; C10.292.319.825; C10.292.562.700.375.750; C11.590.436.400.750; C16.131.077.578; C16.614.595

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL6067428 (SINGLE PROTEIN)

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

ChEMBL bioactivities

2 potent at pChembl≥5 of 2 total, top 2 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChembl	Type	Value	Unit	Molecule
7.50	Kd	31.75	nM	CHEMBL5653589
7.50	ED50	31.75	nM	CHEMBL5653589

PubChem BioAssay actives

1 with measured affinity, of 2 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

Compound	Assay	Type	Value	Unit
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide	2149817: Binding affinity to human ZNF787 incubated for 45 mins by Kinobead based pull down assay	kd	0.0318	uM

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
bisphenol F	increases expression, affects cotreatment	2
sodium arsenite	decreases expression, increases expression	2
Air Pollutants	increases abundance, increases expression, affects expression	2
Tobacco Smoke Pollution	increases expression, increases methylation	2
Valproic Acid	decreases expression, increases methylation	2
FR900359	affects phosphorylation	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
propylparaben	increases expression	1
lead acetate	increases expression	1
trichostatin A	affects expression	1
zinc chromate	increases abundance, decreases expression	1
benzo(e)pyrene	decreases methylation	1
cupric chloride	increases expression	1
chromium hexavalent ion	decreases expression, increases abundance	1
nutlin 3	affects cotreatment, increases secretion	1
ICG 001	increases expression	1
abrine	increases expression	1
2-methyl-2H-pyrazole-3-carboxylic acid (2-methyl-4-o-tolylazophenyl)amide	decreases expression, affects cotreatment	1
(+)-JQ1 compound	decreases expression	1
Bortezomib	increases expression	1
Arsenic	affects methylation	1
Benzo(a)pyrene	affects methylation, increases methylation	1
Cisplatin	decreases expression	1
Dactinomycin	affects cotreatment, increases secretion	1
Dexamethasone	affects cotreatment, increases expression	1
Doxorubicin	decreases expression	1
Indomethacin	increases expression, affects cotreatment	1
Ivermectin	decreases expression	1
Methapyrilene	decreases methylation	1

ChEMBL screening assays

1 unique, capped per target: 1 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL5652859	Binding	Binding affinity to human ZNF787 incubated for 45 mins by Kinobead based pull down assay	NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem

Clinical trials (associated diseases)

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

Trial	Phase	Status	Title
NCT03059420	Not specified	RECRUITING	Genetic Studies of Strabismus, Congenital Cranial Dysinnervation Disorders (CCDDs), and Their Associated Anomalies