ZNF45

Summary

ZNF45 (zinc finger protein 45, HGNC:13111) is a protein-coding gene on chromosome 19q13.31, encoding Zinc finger protein 45 (Q02386). May be involved in transcriptional regulation.

Predicted to enable DNA-binding transcription factor activity. Predicted to be involved in regulation of DNA-templated transcription. Located in nucleoplasm.

Source: NCBI Gene 7596 — RefSeq curated summary.

At a glance

• GWAS associations: 3
• Clinical variants (ClinVar): 94 total
• MANE Select transcript: NM_003425

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:13111
Approved symbol	ZNF45
Name	zinc finger protein 45
Location	19q13.31
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000124459
Ensembl biotype	protein_coding
OMIM	194554
Entrez	7596

Gene structure

Transcript identifiers

Ensembl transcripts: 69 — 67 protein_coding, 2 protein_coding_CDS_not_defined

ENST00000269973, ENST00000588140, ENST00000588432, ENST00000589703, ENST00000590655, ENST00000615985, ENST00000864604, ENST00000864605, ENST00000864606, ENST00000864607, ENST00000864608, ENST00000864609, ENST00000864610, ENST00000864611, ENST00000864612, ENST00000864613, ENST00000864614, ENST00000864615, ENST00000864616, ENST00000864617, ENST00000864618, ENST00000864619, ENST00000864620, ENST00000864621, ENST00000864622, ENST00000864623, ENST00000864624, ENST00000864625, ENST00000864626, ENST00000864627, ENST00000864628, ENST00000864629, ENST00000864630, ENST00000864631, ENST00000864632, ENST00000864633, ENST00000864634, ENST00000864635, ENST00000864636, ENST00000864637, ENST00000915921, ENST00000915922, ENST00000915923, ENST00000915924, ENST00000915925, ENST00000915926, ENST00000915927, ENST00000915928, ENST00000915929, ENST00000915930, ENST00000915931, ENST00000915932, ENST00000915933, ENST00000915934, ENST00000915935, ENST00000915936, ENST00000915937, ENST00000915938, ENST00000948819, ENST00000948820, ENST00000948821, ENST00000948822, ENST00000948823, ENST00000948824, ENST00000948825, ENST00000948826, ENST00000948827, ENST00000948828, ENST00000948829

RefSeq mRNA: 1 — MANE Select: NM_003425 NM_003425

CCDS: CCDS12632

Canonical transcript exons

ENST00000269973 — 10 exons

Exon	Start	End
ENSE00001048213	43922171	43922217
ENSE00001048215	43912624	43915200
ENSE00001160541	43918870	43918962
ENSE00001304060	43924238	43924310
ENSE00001510224	43924402	43924561
ENSE00001510225	43925325	43925458
ENSE00001510226	43932604	43932690
ENSE00001510227	43934426	43934694
ENSE00001510228	43934924	43935282
ENSE00002430544	43919573	43919699

Expression profiles

Bgee: expression breadth ubiquitous, 272 present calls, max score 86.94.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 5.8563 / max 48.7986, expressed in 1700 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
181381	3.0299	1496
181382	2.8264	1435

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
germinal epithelium of ovary	UBERON:0001304	86.94	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	86.69	gold quality
parietal pleura	UBERON:0002400	86.31	gold quality
visceral pleura	UBERON:0002401	86.03	gold quality
pleura	UBERON:0000977	86.00	gold quality
amniotic fluid	UBERON:0000173	85.68	gold quality
pancreatic ductal cell	CL:0002079	84.21	gold quality
ventricular zone	UBERON:0003053	83.87	gold quality
ganglionic eminence	UBERON:0004023	83.30	gold quality
epithelial cell of pancreas	CL:0000083	83.28	gold quality
calcaneal tendon	UBERON:0003701	83.06	gold quality
cortical plate	UBERON:0005343	82.84	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	81.96	gold quality
granulocyte	CL:0000094	81.82	gold quality
gall bladder	UBERON:0002110	81.51	gold quality
stromal cell of endometrium	CL:0002255	81.45	gold quality
rectum	UBERON:0001052	81.38	gold quality
tibia	UBERON:0000979	81.34	gold quality
palpebral conjunctiva	UBERON:0001812	81.32	gold quality
adrenal tissue	UBERON:0018303	80.96	gold quality
islet of Langerhans	UBERON:0000006	80.48	gold quality
monocyte	CL:0000576	80.08	gold quality
leukocyte	CL:0000738	79.99	gold quality
renal glomerulus	UBERON:0000074	79.90	gold quality
tendon	UBERON:0000043	79.83	gold quality
right adrenal gland cortex	UBERON:0035827	79.76	gold quality
skin of hip	UBERON:0001554	79.72	gold quality
mononuclear cell	CL:0000842	79.69	gold quality
tonsil	UBERON:0002372	79.41	gold quality
left adrenal gland	UBERON:0001234	79.39	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	3.26

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

45 targeting ZNF45, 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-518D-5P	100.00	67.51	979
HSA-MIR-518E-5P	100.00	67.66	954
HSA-MIR-518F-5P	100.00	67.51	979
HSA-MIR-519A-5P	100.00	67.66	954
HSA-MIR-519B-5P	100.00	67.66	954
HSA-MIR-519C-5P	100.00	67.66	954
HSA-MIR-520C-5P	100.00	67.51	979
HSA-MIR-522-5P	100.00	67.66	954
HSA-MIR-523-5P	100.00	67.66	954
HSA-MIR-526A-5P	100.00	67.51	979
HSA-MIR-607	99.97	73.62	5593
HSA-MIR-3671	99.90	73.04	3897
HSA-MIR-95-5P	99.89	72.17	3973
HSA-MIR-5582-3P	99.86	72.48	4221
HSA-MIR-4668-5P	99.79	70.58	3782
HSA-MIR-577	99.78	69.13	2479
HSA-MIR-4645-3P	99.76	69.33	993
HSA-MIR-1303	99.65	69.77	1662
HSA-MIR-548AV-5P	99.60	70.84	2107
HSA-MIR-548K	99.60	70.84	2107
HSA-MIR-217-5P	99.49	69.93	1419
HSA-MIR-8054	99.48	70.81	2084
HSA-MIR-142-5P	99.48	70.92	2416
HSA-MIR-5590-3P	99.48	70.91	2429
HSA-MIR-12132	99.47	68.90	1341
HSA-MIR-508-5P	99.41	64.25	1248
HSA-MIR-4316	99.37	65.75	1360
HSA-MIR-3614-5P	99.30	65.25	837
HSA-MIR-4291	99.20	68.88	2969
HSA-MIR-29A-5P	99.08	68.59	1813

Literature-anchored findings (GeneRIF, showing 1)

• our study discovered 3 novel population-specific functional genetic variants (rs6913677, rs2078267, rs8100011) in 2 novel (SLC22A11 and ZNF45) and 1 earlier reported gene (BAI3) for BMI in Indians. Our study decodes key genomic loci underlying obesity phenotype in Indians that may serve as prospective drug targets in future (PMID:32363570)

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
mus_musculus	Zfp94	ENSMUSG00000074282
rattus_norvegicus	Zfp94l1	ENSRNOG00000055608
rattus_norvegicus	Zfp94	ENSRNOG00000065649

Paralogs (176): ZNF195 (ENSG00000005801), ZNF112 (ENSG00000062370), ZNF275 (ENSG00000063587), ZNF37A (ENSG00000075407), ZNF510 (ENSG00000081386), ZNF506 (ENSG00000081665), ZNF268 (ENSG00000090612), MZF1 (ENSG00000099326), ZNF629 (ENSG00000102870), ZNF175 (ENSG00000105497), ZNF85 (ENSG00000105750), ZFP30 (ENSG00000120784), 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 45 — Q02386 (reviewed: Q02386)

Alternative names: BRC1744, Zinc finger protein 13, Zinc finger protein KOX5

All UniProt accessions (2): Q02386, K7EPV5

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 (1): NP_003416* (*=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
IPR050589	Ikaros_C2H2-ZF	Family

Pfam: PF00096, PF01352

UniProt features (29 total): zinc finger region 18, sequence variant 5, cross-link 2, chain 1, domain 1, region of interest 1, sequence conflict 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q02386-F1	67.36	0.16

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 (2): 117, 249

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

ID	Pathway
R-HSA-212436	Generic Transcription Pathway

MSigDB gene sets: 63 (showing top): BROWNE_HCMV_INFECTION_16HR_UP, DODD_NASOPHARYNGEAL_CARCINOMA_UP, FISCHER_DREAM_TARGETS, SPIELMAN_LYMPHOBLAST_EUROPEAN_VS_ASIAN_DN, CHEN_HOXA5_TARGETS_9HR_UP, GEORGES_TARGETS_OF_MIR192_AND_MIR215, STEIN_ESRRA_TARGETS_DN, YOSHIMURA_MAPK8_TARGETS_UP, VERHAAK_GLIOBLASTOMA_CLASSICAL, HIRSCH_CELLULAR_TRANSFORMATION_SIGNATURE_UP, OISHI_CHOLANGIOMA_STEM_CELL_LIKE_UP, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, E2F5_TARGET_GENES, GUCY1B1_TARGET_GENES, UBN1_TARGET_GENES

GO Biological Process (1): regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (4): DNA binding (GO:0003677), DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), metal ion binding (GO:0046872)

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

Reactome top-level categories

Rollup of top-1 pathways:

Category	Pathways
RNA Polymerase II Transcription	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
DNA-templated transcription	1
regulation of gene expression	1
regulation of RNA biosynthetic process	1
nucleic acid binding	1
transcription cis-regulatory region binding	1
regulation of DNA-templated transcription	1
transcription regulator activity	1
transition metal ion binding	1
cation binding	1
nuclear lumen	1
cellular anatomical structure	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

10 interactions, top by confidence:

A	B	Type	Score
ZNF169	ZNF316	psi-mi:“MI:0914”(association)	0.530
TRIM28	ZNF320	psi-mi:“MI:0914”(association)	0.530
M		psi-mi:“MI:0914”(association)	0.350
CBX5	ZNF568	psi-mi:“MI:0914”(association)	0.350
ZNF45	IPO8	psi-mi:“MI:0914”(association)	0.350
MAGEA9	CIBAR1	psi-mi:“MI:0914”(association)	0.350
FBLN5	ZNF320	psi-mi:“MI:0914”(association)	0.350
EPHA1	ZNF45	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (10): ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS), ZNF45 (Affinity Capture-MS)

ESM2 similar proteins: A6NDX5, A6NK75, A6NNF4, A6NP11, B4DXR9, B7Z6K7, C9JN71, O43361, O75290, O75373, P0CJ79, P0DKX0, P17019, P17021, P17035, P17039, P35789, Q02386, Q03938, Q08AN1, Q13106, Q15928, Q3ZCX4, Q5R9F0, Q5SXM1, Q68EA5, Q6P9A1, Q6PDB4, Q6ZN06, Q6ZN08, Q6ZNG1, Q76KX8, Q86V71, Q86XN6, Q8IYB9, Q8N4W9, Q8NEP9, Q8TBZ8, Q8TC21, Q8TF32

Diamond homologs: A0A1W2PQL4, A0JNB1, A0JPL0, A6NK53, A6QLU5, A6QPT6, A7MBI1, A8MT65, A8MUV8, A8MWA4, B2RXC5, B4DU55, B4DX44, E9PYI1, O14628, O75346, P0CH99, P0CI00, P17014, P17030, P17032, P17098, P51786, P85977, Q02386, Q06730, Q06732, Q0VAW7, Q12901, Q13360, Q14586, Q14588, Q14590, Q16587, Q2M3X9, Q2VY69, Q32M78, Q3ZCX4, Q49AA0, Q4R6J4

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	85
Likely benign	3
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1484 predictions. Top by Δscore:

Variant	Effect	Δscore
19:43918864:CCTCA:C	donor_loss	1.0000
19:43918865:CTCA:C	donor_loss	1.0000
19:43918866:TCA:T	donor_loss	1.0000
19:43918867:CAC:C	donor_loss	1.0000
19:43918868:A:C	donor_loss	1.0000
19:43918958:ATGCC:A	acceptor_gain	1.0000
19:43918959:TGCC:T	acceptor_gain	1.0000
19:43918960:GCC:G	acceptor_gain	1.0000
19:43918961:CC:C	acceptor_gain	1.0000
19:43918961:CCCTG:C	acceptor_gain	1.0000
19:43918962:CC:C	acceptor_gain	1.0000
19:43918963:C:A	acceptor_loss	1.0000
19:43918963:C:CC	acceptor_gain	1.0000
19:43918964:T:A	acceptor_loss	1.0000
19:43918965:G:C	acceptor_gain	1.0000
19:43918965:G:GC	acceptor_gain	1.0000
19:43918974:C:CT	acceptor_gain	1.0000
19:43919568:CTCAC:C	donor_loss	1.0000
19:43919569:TCA:T	donor_loss	1.0000
19:43919571:A:AC	donor_gain	1.0000
19:43919571:A:AG	donor_loss	1.0000
19:43919571:AC:A	donor_gain	1.0000
19:43919572:C:A	donor_loss	1.0000
19:43919572:C:CC	donor_gain	1.0000
19:43919572:CC:C	donor_gain	1.0000
19:43919572:CCCA:C	donor_gain	1.0000
19:43919575:A:AC	donor_gain	1.0000
19:43919576:C:CC	donor_gain	1.0000
19:43919586:ATT:A	donor_gain	1.0000
19:43919588:T:TA	donor_gain	1.0000

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000043360 (19:43935756 G>A), RS1000151727 (19:43926366 C>T), RS1000200746 (19:43929315 G>T), RS1000261936 (19:43935985 A>G), RS1000445114 (19:43921519 C>T), RS1000698786 (19:43930045 G>A), RS1000720677 (19:43928968 A>G), RS1000787013 (19:43922921 GCTCAAGCGATCCTCCCAC>G), RS1000919525 (19:43915066 T>C), RS1001128923 (19:43930348 A>T), RS1001326230 (19:43917725 A>G), RS1001590701 (19:43918103 G>T), RS1001830143 (19:43916671 T>C), RS1002004374 (19:43923245 A>C,G), RS1002043203 (19:43923331 T>C)

Disease associations

OMIM: gene MIM:194554 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

3 associations (top):

Study	Trait	p-value
GCST002522_1	Reading or mathematical ability	8.000000e-09
GCST010146_16	Serum immune biomarker levels	3.000000e-08
GCST010721_3	Body mass index	1.000000e-07

EFO canonical traits (4, from GWAS)

EFO ID	Trait name
EFO:0005229	reading
EFO:0004869	YKL40 measurement
EFO:0004872	inflammatory biomarker measurement
EFO:0004340	body mass index

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Air Pollutants	affects cotreatment, decreases expression, increases abundance, increases oxidation, affects expression	3
Valproic Acid	affects cotreatment, increases expression, affects expression, decreases expression	3
Methyl Methanesulfonate	decreases expression, increases expression	2
Ozone	decreases expression, increases oxidation, increases abundance, affects expression, affects cotreatment	2
3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide	decreases expression	1
GSK-J4	decreases expression	1
TAK-243	increases sumoylation	1
triphenyl phosphate	affects expression	1
alpha-pinene	decreases expression, increases oxidation, increases abundance, affects cotreatment	1
arsenite	decreases reaction, affects binding	1
sodium arsenite	increases expression	1
methacrylaldehyde	affects cotreatment, decreases expression, increases oxidation, increases abundance	1
CGP 52608	increases reaction, affects binding	1
abrine	increases expression	1
bisphenol S	decreases methylation	1
MT19c compound	increases expression	1
Resveratrol	affects cotreatment, increases expression	1
Sunitinib	decreases expression	1
Leflunomide	decreases expression	1
Acrolein	increases abundance, affects cotreatment, decreases expression, increases oxidation	1
Adenine	decreases expression	1
Atrazine	decreases expression	1
Cisplatin	decreases expression	1
Colchicine	decreases expression	1
Doxorubicin	decreases expression	1
Ethyl Methanesulfonate	decreases expression	1
Etoposide	decreases expression	1
Formaldehyde	decreases expression	1
Hydralazine	increases expression, affects cotreatment	1
Hydrogen Peroxide	increases expression	1

Clinical trials (associated diseases)

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