ZNF85

Summary

ZNF85 (zinc finger protein 85, HGNC:13160) is a protein-coding gene on chromosome 19p12, encoding Zinc finger protein 85 (Q03923). May be a transcriptional repressor.

Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of DNA-templated transcription. Located in nucleoplasm.

Source: NCBI Gene 7639 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 100 total
• MANE Select transcript: NM_003429

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:13160
Approved symbol	ZNF85
Name	zinc finger protein 85
Location	19p12
Locus type	gene with protein product
Status	Approved
Aliases	HPF4, HTF1
Ensembl gene	ENSG00000105750
Ensembl biotype	protein_coding
OMIM	603899
Entrez	7639

Gene structure

Transcript identifiers

Ensembl transcripts: 17 — 12 protein_coding, 5 protein_coding_CDS_not_defined

ENST00000300540, ENST00000328178, ENST00000345030, ENST00000595742, ENST00000595854, ENST00000596476, ENST00000596534, ENST00000597314, ENST00000598862, ENST00000599064, ENST00000599885, ENST00000601023, ENST00000601284, ENST00000601924, ENST00000871848, ENST00000916283, ENST00000916284

RefSeq mRNA: 4 — MANE Select: NM_003429 NM_001256171, NM_001256172, NM_001256173, NM_003429

CCDS: CCDS32977, CCDS58657

Canonical transcript exons

ENST00000328178 — 4 exons

Exon	Start	End
ENSE00002307178	20948744	20950697
ENSE00003219799	20923251	20923403
ENSE00003529105	20934949	20935047
ENSE00003671363	20934024	20934150

Expression profiles

Bgee: expression breadth ubiquitous, 134 present calls, max score 90.91.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 9.5032 / max 247.2464, expressed in 1585 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
174871	6.5165	1521
174872	2.9867	1192

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	90.91	gold quality
ganglionic eminence	UBERON:0004023	85.60	gold quality
right testis	UBERON:0004534	84.35	gold quality
left testis	UBERON:0004533	83.94	gold quality
testis	UBERON:0000473	83.84	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	82.99	gold quality
ventricular zone	UBERON:0003053	82.39	gold quality
cortical plate	UBERON:0005343	81.64	gold quality
adrenal tissue	UBERON:0018303	81.34	gold quality
endometrium	UBERON:0001295	81.18	gold quality
body of pancreas	UBERON:0001150	81.15	gold quality
pancreas	UBERON:0001264	80.49	gold quality
islet of Langerhans	UBERON:0000006	80.15	gold quality
calcaneal tendon	UBERON:0003701	79.59	gold quality
lymph node	UBERON:0000029	78.64	gold quality
placenta	UBERON:0001987	77.84	gold quality
right adrenal gland	UBERON:0001233	76.92	gold quality
right adrenal gland cortex	UBERON:0035827	76.91	gold quality
adrenal gland	UBERON:0002369	76.83	gold quality
left adrenal gland	UBERON:0001234	76.58	gold quality
body of stomach	UBERON:0001161	76.24	gold quality
stomach	UBERON:0000945	75.94	gold quality
bone marrow	UBERON:0002371	75.75	gold quality
ovary	UBERON:0000992	75.70	gold quality
left ovary	UBERON:0002119	75.44	gold quality
left adrenal gland cortex	UBERON:0035825	75.43	gold quality
right lobe of thyroid gland	UBERON:0001119	75.26	gold quality
tonsil	UBERON:0002372	75.16	gold quality
smooth muscle tissue	UBERON:0001135	74.97	gold quality
thyroid gland	UBERON:0002046	74.93	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.55

Regulation

Is transcription factor: yes

Downstream targets (CollecTRI)

1 targets.

Target	Regulation
PRDX5

JASPAR motifs

Motif	Name	Family
MA1720.1	ZNF85	More than 3 adjacent zinc fingers
MA1720.2	ZNF85	More than 3 adjacent zinc fingers

JASPAR matrix evidence (PMIDs): PMID:28273063

miRNA regulators (miRDB)

35 targeting ZNF85, 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-3925-3P	100.00	69.95	1237
HSA-MIR-3064-3P	100.00	70.09	1254
HSA-MIR-4776-3P	100.00	68.73	1340
HSA-MIR-6833-3P	100.00	70.63	3197
HSA-MIR-4768-5P	100.00	69.49	2861
HSA-MIR-3692-3P	99.98	70.27	2139
HSA-MIR-1229-3P	99.97	66.49	906
HSA-MIR-9-3P	99.96	70.88	2068
HSA-MIR-23A-3P	99.95	74.24	3163
HSA-MIR-23B-3P	99.95	74.24	3163
HSA-MIR-23C	99.95	73.92	3192
HSA-MIR-8087	99.90	69.55	1351
HSA-MIR-627-3P	99.90	71.42	3316
HSA-MIR-7162-3P	99.89	68.16	1682
HSA-MIR-5003-3P	99.85	69.29	2517
HSA-MIR-200A-5P	99.76	69.10	949
HSA-MIR-200B-5P	99.76	69.05	948
HSA-MIR-7161-5P	99.68	68.92	1592
HSA-MIR-548U	99.65	67.78	1463
HSA-MIR-4325	99.49	72.20	1342
HSA-MIR-4762-3P	99.43	69.72	2363
HSA-MIR-155-5P	99.35	70.16	1509
HSA-MIR-1264	99.25	66.81	1317
HSA-MIR-8077	99.17	66.67	862
HSA-MIR-4504	99.10	69.14	1328
HSA-MIR-143-5P	98.98	68.87	946
HSA-MIR-5701	98.97	69.54	1502
HSA-MIR-4477A	98.83	69.75	2952
HSA-MIR-11399	98.71	65.69	869
HSA-MIR-6755-3P	98.61	66.90	834

Literature-anchored findings (GeneRIF, showing 1)

• Is Molecular Mimicry between hPF4 and SARS-CoV-2 Spike Protein a Potential Basis for Autoimmune Responses in Vaccinated and Naturally Infected Patients? (PMID:35021248)

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp738	ENSMUSG00000048280
mus_musculus	Zfp457	ENSMUSG00000055341
mus_musculus	Zfp595	ENSMUSG00000057842
mus_musculus	Zfp953	ENSMUSG00000098905
rattus_norvegicus	AABR07009105.1	ENSRNOG00000053325

Paralogs (176): ZNF195 (ENSG00000005801), ZNF112 (ENSG00000062370), ZNF275 (ENSG00000063587), ZNF37A (ENSG00000075407), ZNF510 (ENSG00000081386), ZNF506 (ENSG00000081665), ZNF268 (ENSG00000090612), MZF1 (ENSG00000099326), ZNF629 (ENSG00000102870), ZNF175 (ENSG00000105497), ZFP30 (ENSG00000120784), ZNF45 (ENSG00000124459), ZNF391 (ENSG00000124613), ZNF436 (ENSG00000125945), ZNF484 (ENSG00000127081), ZNF835 (ENSG00000127903), ZNF780B (ENSG00000128000), ZSCAN10 (ENSG00000130182), ZNF317 (ENSG00000130803), ZNF331 (ENSG00000130844), ZNF227 (ENSG00000131115), ZNF141 (ENSG00000131127), ZNF132 (ENSG00000131849), ZNF189 (ENSG00000136870), ZIM3 (ENSG00000141946), ZFP14 (ENSG00000142065), ZNF514 (ENSG00000144026), ZNF300 (ENSG00000145908), RBAK (ENSG00000146587), ZNF157 (ENSG00000147117), ZNF182 (ENSG00000147118), ZNF41 (ENSG00000147124), ZNF7 (ENSG00000147789), ZNF117 (ENSG00000152926), ZNF221 (ENSG00000159905), ZNF235 (ENSG00000159917), ZNF714 (ENSG00000160352), ZNF577 (ENSG00000161551), ZNF12 (ENSG00000164631), ZNF3 (ENSG00000166526)

Protein

Protein identifiers

Zinc finger protein 85 — Q03923 (reviewed: Q03923)

Alternative names: Zinc finger protein HPF4, Zinc finger protein HTF1

All UniProt accessions (7): Q03923, M0QXL2, M0QZ75, M0QZN6, M0R0J7, M0R0V3, Q96HE0

UniProt curated annotations — full annotation on UniProt →

Function. May be a transcriptional repressor.

Subcellular location. Nucleus.

Tissue specificity. Widely expressed, including in testis.

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

Isoforms (3)

UniProt ID	Names	Canonical?
Q03923-1	1	yes
Q03923-2	2
Q03923-3	3

RefSeq proteins (4): NP_001243100, NP_001243101, NP_001243102, NP_003420* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001909	KRAB	Domain
IPR013087	Znf_C2H2_type	Domain
IPR036051	KRAB_dom_sf	Homologous_superfamily
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR050752	C2H2-ZF_domain	Family

Pfam: PF00096, PF01352

UniProt features (29 total): zinc finger region 16, sequence variant 7, splice variant 3, chain 1, domain 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q03923-F1	76.02	0.23

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 78 (showing top): chr19p12, MODULE_98, FISCHER_DREAM_TARGETS, DANG_BOUND_BY_MYC, MULLIGHAN_MLL_SIGNATURE_2_DN, BENPORATH_MYC_MAX_TARGETS, GEORGES_TARGETS_OF_MIR192_AND_MIR215, HAMAI_APOPTOSIS_VIA_TRAIL_UP, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, YAGI_AML_WITH_T_8_21_TRANSLOCATION, TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C, GOBP_NEGATIVE_REGULATION_OF_TRANSCRIPTION_BY_RNA_POLYMERASE_II, GOBP_NEGATIVE_REGULATION_OF_NUCLEOBASE_CONTAINING_COMPOUND_METABOLIC_PROCESS, AMUNDSON_RESPONSE_TO_ARSENITE, GOMF_DNA_BINDING_TRANSCRIPTION_REPRESSOR_ACTIVITY

GO Biological Process (3): regulation of DNA-templated transcription (GO:0006355), negative regulation of transcription by RNA polymerase II (GO:0000122), regulation of transcription by RNA polymerase II (GO:0006357)

GO Molecular Function (7): RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978), DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981), DNA-binding transcription repressor activity, RNA polymerase II-specific (GO:0001227), zinc ion binding (GO:0008270), DNA binding (GO:0003677), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (2): nucleus (GO:0005634), nucleoplasm (GO:0005654)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
RNA polymerase II transcription regulatory region sequence-specific DNA binding	3
regulation of transcription by RNA polymerase II	2
transcription by RNA polymerase II	2
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
negative regulation of DNA-templated transcription	1
regulation of DNA-templated transcription	1
cis-regulatory region sequence-specific DNA binding	1
chromatin	1
DNA-binding transcription factor activity	1
negative regulation of transcription by RNA polymerase II	1
DNA-binding transcription factor activity, RNA polymerase II-specific	1
DNA-binding transcription repressor activity	1
transition metal ion binding	1
nucleic acid binding	1
binding	1
cation binding	1
intracellular membrane-bounded organelle	1
nuclear lumen	1
cellular anatomical structure	1

Protein interactions and networks

STRING

388 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF85	F10	P00742	624
ZNF85	F3	P13726	606
ZNF85	SFXN3	Q9BWM7	456
ZNF85	CREG2	Q8IUH2	450
ZNF85	SREK1IP1	Q8N9Q2	449
ZNF85	GNG12	Q9UBI6	407
ZNF85	WIPF1	O43516	405
ZNF85	PMP2	P02689	403
ZNF85	LEMD3	Q9Y2U8	398
ZNF85	P2RX1	P51575	380
ZNF85	F7	P08709	367
ZNF85	PDE6B	P35913	353
ZNF85	ITGA2B	P08514	349
ZNF85	MFGE8	Q08431	340
ZNF85	SIX4	Q9UIU6	335

IntAct

4 interactions, top by confidence:

A	B	Type	Score
TRIM28	ZNF320	psi-mi:“MI:0914”(association)	0.530

BioGRID (9): CEP76 (Two-hybrid), ZNF85 (Affinity Capture-MS), ZNF85 (Synthetic Lethality), ZNF85 (Two-hybrid), ZNF85 (Two-hybrid), FHL2 (Two-hybrid), SET (Two-hybrid), ZNF417 (Two-hybrid), ZNF85 (Affinity Capture-MS)

ESM2 similar proteins: A6NK75, A6NNF4, A6NP11, A8MTY0, A8MUV8, B4DXR9, C9JN71, O75346, O75373, O95780, P0CJ79, P0DKX0, P0DPD5, P17019, P17035, P35789, Q03923, Q03938, Q08AN1, Q14593, Q15928, Q3SXZ3, Q3ZCX4, Q5MCW4, Q5R9S5, Q5RER9, Q68DY1, Q6JLC9, Q6ZMV8, Q6ZN06, Q6ZN08, Q6ZNA1, Q76KX8, Q86T29, Q86V71, Q8IYN0, Q8N4W9, Q8N7M2, Q8NEM1, Q8TD23

Diamond homologs: A0A1W2PQL4, A6NK75, A6NN14, A6NNF4, A6NP11, A8MQ14, A8MTY0, A8MUV8, A8MXY4, B4DX44, B4DXR9, E9PYI1, O14628, O43345, O75290, O75346, O75373, O75437, O95780, P0CB33, P0DKX0, P0DPD5, P16373, P17019, P17038, P21506, P35789, P52736, P52738, P52744, Q03923, Q03924, Q03936, Q03938, Q05481, Q14586, Q14593, Q14929, Q15928, Q3KNS6

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	87
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1020 predictions. Top by Δscore:

Variant	Effect	Δscore
19:20946387:G:GT	donor_gain	1.0000
19:20946390:G:GG	donor_gain	1.0000
19:20948742:A:AG	acceptor_gain	1.0000
19:20948743:G:GA	acceptor_gain	1.0000
19:20948743:GT:G	acceptor_gain	1.0000
19:20948743:GTT:G	acceptor_gain	1.0000
19:20948743:GTTA:G	acceptor_gain	1.0000
19:20948743:GTTAT:G	acceptor_gain	1.0000
19:20923369:C:G	donor_gain	0.9900
19:20923402:TGGTG:T	donor_loss	0.9900
19:20923404:G:GG	donor_gain	0.9900
19:20923404:G:T	donor_loss	0.9900
19:20948740:TCA:T	acceptor_loss	0.9900
19:20948742:A:AT	acceptor_loss	0.9900
19:20923390:G:GT	donor_gain	0.9800
19:20932217:A:T	donor_gain	0.9800
19:20935043:CACAG:C	donor_loss	0.9800
19:20935044:ACAG:A	donor_loss	0.9800
19:20935046:AG:A	donor_loss	0.9800
19:20935047:GG:G	donor_loss	0.9800
19:20935048:G:A	donor_loss	0.9800
19:20935049:T:A	donor_loss	0.9800
19:20946384:TTAG:T	donor_gain	0.9800
19:20946387:GAA:G	donor_gain	0.9800
19:20923406:G:GG	donor_loss	0.9700
19:20923407:A:T	donor_gain	0.9700
19:20932216:G:GT	donor_gain	0.9700
19:20934149:GG:G	donor_gain	0.9700
19:20934150:GG:G	donor_gain	0.9700
19:20946363:G:GT	donor_gain	0.9700

AlphaMissense

3968 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
19:20949565:T:C	F351L	0.981
19:20949567:T:A	F351L	0.981
19:20949567:T:G	F351L	0.981
19:20950153:T:C	F547L	0.980
19:20950155:T:A	F547L	0.980
19:20950155:T:G	F547L	0.980
19:20949817:T:C	F435L	0.978
19:20949819:T:A	F435L	0.978
19:20949819:T:G	F435L	0.978
19:20949229:T:C	F239L	0.977
19:20949231:T:A	F239L	0.977
19:20949231:T:G	F239L	0.977
19:20950069:T:C	F519L	0.974
19:20950071:T:A	F519L	0.974
19:20950071:T:G	F519L	0.974
19:20949985:T:C	F491L	0.973
19:20949987:T:A	F491L	0.973
19:20949987:T:G	F491L	0.973
19:20949901:T:C	F463L	0.971
19:20949903:T:A	F463L	0.971
19:20949903:T:G	F463L	0.971
19:20949649:T:C	F379L	0.968
19:20949651:T:A	F379L	0.968
19:20949651:T:G	F379L	0.968
19:20949313:T:C	F267L	0.965
19:20949315:T:A	F267L	0.965
19:20949315:T:G	F267L	0.965
19:20949397:T:C	F295L	0.964
19:20949399:T:A	F295L	0.964
19:20949399:T:G	F295L	0.964

dbSNP variants (sampled 300 via entrez): RS1000023550 (19:20945251 G>A), RS1000178116 (19:20942900 C>T), RS1000195288 (19:20940198 T>G), RS1000230490 (19:20922122 C>A,G), RS1000337557 (19:20928564 G>A,C), RS1000420157 (19:20950930 C>T), RS1000643930 (19:20939924 C>A,T), RS1000677704 (19:20935918 A>G), RS1000788473 (19:20941595 G>A), RS1000791895 (19:20935665 T>A), RS1000822494 (19:20945895 T>C), RS1000854261 (19:20939964 T>C), RS1000888553 (19:20934627 G>A), RS1000982159 (19:20924416 T>G), RS1001086270 (19:20946110 G>A)

Disease associations

OMIM: gene MIM:603899 | 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

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

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects expression, decreases expression	3
sodium arsenite	affects cotreatment, increases abundance, increases expression	2
Cadmium Chloride	decreases expression, increases expression	2
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
bisphenol F	affects cotreatment, decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	decreases expression	1
manganese chloride	increases abundance, increases expression, affects cotreatment	1
potassium chromate(VI)	affects cotreatment, decreases expression	1
epigallocatechin gallate	affects cotreatment, decreases expression	1
perfluorooctane sulfonic acid	decreases expression	1
bisphenol S	affects cotreatment, decreases expression	1
2,3,5-trichloro-6-phenyl-(1,4)benzoquinone	increases expression	1
Resveratrol	affects cotreatment, increases expression	1
Sunitinib	decreases expression	1
Leflunomide	increases expression	1
Arsenic	affects cotreatment, increases abundance, increases expression	1
Benzo(a)pyrene	affects methylation	1
Dexamethasone	decreases expression, affects cotreatment	1
Formaldehyde	decreases expression	1
Indomethacin	decreases expression, affects cotreatment	1
Lead	affects expression	1
Manganese	increases abundance, increases expression, affects cotreatment	1
Methyl Methanesulfonate	increases expression	1
Plant Extracts	increases expression, affects cotreatment	1
Selenium	affects cotreatment, decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Vitamin E	affects cotreatment, decreases expression	1
1-Methyl-3-isobutylxanthine	affects cotreatment, decreases expression	1
1-Methyl-4-phenylpyridinium	decreases expression	1

Clinical trials (associated diseases)

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