ZNF280B

Summary

ZNF280B (zinc finger protein 280B, HGNC:23022) is a protein-coding gene on chromosome 22q11.22, encoding Zinc finger protein 280B (Q86YH2). May function as a transcription factor.

The protein encoded by this gene is a transcription factor that upregulates expression of MDM2, which negatively regulates p53 expression. This gene is highly expressed in prostate cancer cells, which leads to a reduction in p53 levels and an increase in growth of the cancer cells. Several transcript variants have been found for this gene, but only one of them is protein-coding.

Source: NCBI Gene 140883 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 1 total
• MANE Select transcript: NM_080764

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:23022
Approved symbol	ZNF280B
Name	zinc finger protein 280B
Location	22q11.22
Locus type	gene with protein product
Status	Approved
Aliases	5’OY11.1, ZNF632
Ensembl gene	ENSG00000275004
Ensembl biotype	protein_coding
Entrez	140883

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 2 protein_coding, 1 nonsense_mediated_decay

ENST00000613655, ENST00000619852, ENST00000626650

RefSeq mRNA: 1 — MANE Select: NM_080764 NM_080764

CCDS: CCDS13799

Canonical transcript exons

ENST00000626650 — 4 exons

Exon	Start	End
ENSE00003735702	22507810	22507870
ENSE00003739217	22508659	22508742
ENSE00003744310	22494063	22494180
ENSE00003762088	22484421	22489466

Expression profiles

Bgee: expression breadth ubiquitous, 115 present calls, max score 91.79.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 3.6089 / max 110.6306, expressed in 1035 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
193275	3.3051	1008
193274	0.2935	130
193276	0.0102	3

Top tissues by expression

122 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	91.79	gold quality
testis	UBERON:0000473	82.64	gold quality
right testis	UBERON:0004534	81.90	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.47	gold quality
left testis	UBERON:0004533	80.99	gold quality
superior frontal gyrus	UBERON:0002661	72.90	gold quality
islet of Langerhans	UBERON:0000006	72.71	gold quality
primary visual cortex	UBERON:0002436	71.41	gold quality
prefrontal cortex	UBERON:0000451	70.65	gold quality
hypothalamus	UBERON:0001898	70.12	gold quality
ventricular zone	UBERON:0003053	69.63	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	69.52	gold quality
Brodmann (1909) area 9	UBERON:0013540	69.38	gold quality
cortical plate	UBERON:0005343	69.33	gold quality
stromal cell of endometrium	CL:0002255	68.73	gold quality
anterior cingulate cortex	UBERON:0009835	68.31	gold quality
ganglionic eminence	UBERON:0004023	68.20	gold quality
right adrenal gland cortex	UBERON:0035827	68.19	gold quality
cerebral cortex	UBERON:0000956	67.91	gold quality
frontal cortex	UBERON:0001870	67.78	gold quality
adrenal tissue	UBERON:0018303	66.87	gold quality
adrenal gland	UBERON:0002369	66.66	gold quality
right adrenal gland	UBERON:0001233	66.60	gold quality
left adrenal gland	UBERON:0001234	66.60	gold quality
endometrium	UBERON:0001295	66.43	gold quality
brain	UBERON:0000955	66.11	gold quality
cerebellum	UBERON:0002037	65.65	gold quality
cerebellar cortex	UBERON:0002129	65.63	gold quality
cerebellar hemisphere	UBERON:0002245	65.53	gold quality
amygdala	UBERON:0001876	65.48	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-MTAB-9067	no	6.19
E-ANND-3	no	1.28

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

176 targeting ZNF280B, 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-1277-5P	100.00	73.95	5056
HSA-MIR-30A-5P	100.00	76.31	3233
HSA-MIR-30B-5P	100.00	76.29	3248
HSA-MIR-30C-5P	100.00	76.29	3248
HSA-MIR-30D-5P	100.00	76.32	3233
HSA-MIR-30E-5P	100.00	76.32	3242
HSA-MIR-7110-3P	100.00	73.18	2486
HSA-MIR-6873-3P	100.00	71.42	2626
HSA-MIR-3613-3P	100.00	76.36	7965
HSA-MIR-8485	100.00	77.57	4731
HSA-MIR-3163	100.00	77.23	8605
HSA-MIR-5011-5P	100.00	83.46	5820
HSA-MIR-5692A	100.00	74.40	6850
HSA-MIR-4481	100.00	66.42	1669
HSA-MIR-4500	99.99	72.72	2367
HSA-LET-7A-5P	99.98	72.29	1790
HSA-LET-7B-5P	99.98	72.31	1790
HSA-LET-7C-5P	99.98	72.29	1790
HSA-LET-7E-5P	99.98	72.29	1790
HSA-LET-7F-5P	99.98	72.56	1784
HSA-LET-7G-5P	99.98	72.37	1784
HSA-LET-7I-5P	99.98	72.37	1788
HSA-MIR-98-5P	99.98	72.33	1787
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-12136	99.98	72.81	5713
HSA-MIR-3173-3P	99.98	66.49	1217
HSA-MIR-3148	99.97	75.06	6478
HSA-MIR-607	99.97	73.62	5593
HSA-LET-7D-5P	99.96	71.76	1632
HSA-MIR-4458	99.96	71.64	1650

Literature-anchored findings (GeneRIF, showing 1)

• ZNF280B upregulates GUCY1A3 expression and downregulates TP53 in prostate cancer cells. (PMID:24236047)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp280b	ENSMUSG00000049764
rattus_norvegicus	Zfp280b	ENSRNOG00000028441

Paralogs (28): ZNF280C (ENSG00000056277), ZBTB25 (ENSG00000089775), PRDM13 (ENSG00000112238), BCL6 (ENSG00000113916), FEZF1 (ENSG00000128610), ZBTB46 (ENSG00000130584), PRDM12 (ENSG00000130711), ZNF280D (ENSG00000137871), NACC2 (ENSG00000148411), FEZF2 (ENSG00000153266), ZBTB7B (ENSG00000160685), NACC1 (ENSG00000160877), BCL6B (ENSG00000161940), GFI1 (ENSG00000162676), GFI1B (ENSG00000165702), ZBTB49 (ENSG00000168826), ZNF280A (ENSG00000169548), ZNF581 (ENSG00000171425), ZNF524 (ENSG00000171443), ZBTB26 (ENSG00000171448), ZBTB21 (ENSG00000173276), ZNF683 (ENSG00000176083), ZBTB33 (ENSG00000177485), ZBTB3 (ENSG00000185670), ZBTB6 (ENSG00000186130), ZBTB14 (ENSG00000198081), ZBTB12 (ENSG00000204366), ZNF580 (ENSG00000213015)

Protein

Protein identifiers

Zinc finger protein 280B — Q86YH2 (reviewed: Q86YH2)

Alternative names: 5’OY11.1, Suppressor of hairy wing homolog 2, Zinc finger protein 279, Zinc finger protein 632

All UniProt accessions (2): Q86YH2, A0A0D9SEJ8

UniProt curated annotations — full annotation on UniProt →

Function. May function as a transcription factor.

Subcellular location. Nucleus.

RefSeq proteins (1): NP_542942* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR025243	DUF4195	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR050527

Pfam: PF13836

UniProt features (19 total): zinc finger region 4, compositionally biased region 3, modified residue 3, cross-link 3, region of interest 3, sequence variant 2, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q86YH2-F1	59.83	0.26

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 (6): 1, 68, 70, 173, 247, 261

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 118 (showing top): TGTTTAC_MIR30A5P_MIR30C_MIR30D_MIR30B_MIR30E5P, SENESE_HDAC3_TARGETS_DN, MARSON_BOUND_BY_FOXP3_UNSTIMULATED, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, DELACROIX_RAR_BOUND_ES, JNK_DN.V1_UP, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, GSE10240_CTRL_VS_IL17_STIM_PRIMARY_BRONCHIAL_EPITHELIAL_CELLS_DN, CBX5_TARGET_GENES, HOXD11_TARGET_GENES, MIER1_TARGET_GENES, NAB2_TARGET_GENES, SFMBT1_TARGET_GENES, SNRNP70_TARGET_GENES, ZBTB12_TARGET_GENES

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

GO Molecular Function (5): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), zinc ion binding (GO:0008270), 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
RNA polymerase II transcription regulatory region sequence-specific DNA binding	2
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
regulation of DNA-templated transcription	1
transcription by RNA polymerase II	1
cis-regulatory region sequence-specific DNA binding	1
chromatin	1
DNA-binding transcription factor activity	1
regulation of transcription by RNA polymerase II	1
transition metal ion binding	1
nucleic acid binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

592 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF280B	PRAME	P78395	645
ZNF280B	GGTLC2	Q14390	600
ZNF280B	POM121L1P	Q3SYA9	581
ZNF280B	HSFY1	Q96LI6	578
ZNF280B	TSPY1	P09002	506
ZNF280B	ZNF425	Q6IV72	474
ZNF280B	CDYL	Q9Y232	459
ZNF280B	A6NGT6	A6NGT6	447
ZNF280B	SETD4	Q9NVD3	443
ZNF280B	DYNC1LI1	Q9Y6G9	433
ZNF280B	FBXO16	Q8IX29	432
ZNF280B	RPL23A	P29316	418
ZNF280B	A0A1W2PQ80	A0A1W2PQ80	403
ZNF280B	IGKV2D-29	A0A075B6S2	401
ZNF280B	A0A087WY85	A0A087WY85	393
ZNF280B	CCDC71L	Q8N9Z2	393

IntAct

3 interactions, top by confidence:

A	B	Type	Score
ZNF280A	NUCB2	psi-mi:“MI:0914”(association)	0.350
ZMYM2	ZBTB5	psi-mi:“MI:2364”(proximity)	0.270

BioGRID (7): ZNF280B (Affinity Capture-MS), ZNF280B (Proximity Label-MS), ZNF280B (Proximity Label-MS), ZNF280B (Affinity Capture-MS), ZNF280B (Affinity Capture-RNA), ZNF280B (Affinity Capture-RNA), ZNF280B (Two-hybrid)

ESM2 similar proteins: A0A0R4IYX6, A0A1D5NVS8, A0AVK6, A7MBJ2, A9JRX0, B7ZS37, B8A5Y1, D3ZF42, E1BE02, E1BKK0, E1BLP6, F1LMN3, F1QLG5, F6NSX9, F6YVB9, P59817, Q01954, Q0VEE6, Q2TB10, Q2YDE2, Q3U1C4, Q4R7L6, Q56NI9, Q58FA4, Q5T0L3, Q5ZIX8, Q5ZJ69, Q61464, Q63679, Q68FE8, Q6IQ32, Q6P1H6, Q6P3Y5, Q6PCM1, Q6S7F2, Q70YC5, Q7Z3K3, Q7Z4V0, Q7ZZ00, Q86YH2

Diamond homologs: P59817, Q5PPG4, Q68FE8, Q6N043, Q6P3Y5, Q7Z3K3, Q86YH2, Q8BZH4, Q8ND82, Q99KZ6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

1 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

734 predictions. Top by Δscore:

Variant	Effect	Δscore
22:22494069:T:TA	donor_gain	1.0000
22:22508654:CTT:C	donor_loss	0.9900
22:22508655:TTA:T	donor_loss	0.9900
22:22508656:TACCA:T	donor_loss	0.9900
22:22508657:A:AG	donor_loss	0.9900
22:22508658:CCAGT:C	donor_gain	0.9900
22:22508657:A:AC	donor_gain	0.9800
22:22508658:C:CC	donor_gain	0.9800
22:22507882:C:CT	acceptor_gain	0.9700
22:22491976:A:C	acceptor_gain	0.9500
22:22494058:CAGA:C	donor_loss	0.9500
22:22494059:AGAC:A	donor_loss	0.9500
22:22494060:GAC:G	donor_loss	0.9500
22:22494061:A:AT	donor_loss	0.9500
22:22494062:CC:C	donor_loss	0.9500
22:22494063:C:G	donor_loss	0.9500
22:22508652:T:TA	donor_gain	0.9500
22:22487794:TTTAG:T	donor_gain	0.9400
22:22494180:CCT:C	acceptor_loss	0.9200
22:22494182:T:C	acceptor_loss	0.9200
22:22489467:CTA:C	acceptor_loss	0.9100
22:22489468:T:G	acceptor_loss	0.9100
22:22494176:CCAGC:C	acceptor_gain	0.9100
22:22494177:CAGC:C	acceptor_gain	0.9100
22:22494177:CAGCC:C	acceptor_gain	0.9100
22:22506459:G:T	donor_gain	0.9100
22:22506489:TGGTG:T	donor_gain	0.9100
22:22494054:A:AC	donor_gain	0.9000
22:22494181:C:CC	acceptor_gain	0.8900
22:22508511:C:A	donor_gain	0.8800

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000189032 (22:22498411 A>C), RS1000208161 (22:22492059 T>C), RS1000237709 (22:22500713 G>T), RS1000237927 (22:22492404 G>A,C), RS1000363589 (22:22504276 A>G), RS1000469568 (22:22485377 A>C), RS1000540922 (22:22490593 G>C), RS1000543791 (22:22486359 A>C,T), RS1000622835 (22:22501279 G>A), RS1000780303 (22:22493946 C>T), RS1000870646 (22:22506441 C>T), RS1001242288 (22:22499304 G>C), RS1001473694 (22:22505224 G>C), RS1001542032 (22:22484645 G>A,C,T), RS1001590697 (22:22505469 G>A,C)

Disease associations

OMIM: gene `` | 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

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

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	decreases expression, decreases methylation, affects cotreatment	6
sodium arsenite	affects cotreatment, increases abundance, increases expression	2
Phenylmercuric Acetate	affects cotreatment, decreases expression	2
aristolochic acid I	decreases expression	1
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
FR900359	increases phosphorylation	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
trichostatin A	decreases expression	1
manganese chloride	affects cotreatment, increases abundance, increases expression	1
potassium chromate(VI)	decreases expression	1
nickel sulfate	increases expression	1
di-n-butylphosphoric acid	affects expression	1
pentabromodiphenyl ether	increases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	decreases expression, affects cotreatment	1
dorsomorphin	affects cotreatment, decreases expression	1
Temozolomide	decreases expression	1
Sunitinib	increases expression	1
Acetaminophen	increases expression	1
Air Pollutants	increases abundance, increases expression	1
Arsenic	affects cotreatment, increases abundance, increases expression	1
Benzo(a)pyrene	affects methylation, increases methylation	1
Caffeine	increases phosphorylation	1
Formaldehyde	decreases expression	1
Lead	affects methylation	1
Manganese	affects cotreatment, increases abundance, increases expression	1
Tretinoin	decreases expression	1
Vanadates	increases expression	1
Antirheumatic Agents	decreases expression	1
Particulate Matter	increases abundance, increases expression	1

Cellosaurus cell lines

3 cell lines: 3 embryonic stem cell

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

Cellosaurus	Name	Category	Sex
CVCL_A8G2	SEES3-1V human ZNF280B, clone1	Embryonic stem cell	Male
CVCL_A8G3	SEES3-1V human ZNF280B, clone2	Embryonic stem cell	Male
CVCL_A8G4	SEES3-1V human ZNF280B, clone3	Embryonic stem cell	Male

Clinical trials (associated diseases)

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