ZNF511

Summary

ZNF511 (zinc finger protein 511, HGNC:28445) is a protein-coding gene on chromosome 10q26.3, encoding Zinc finger protein 511 (Q8NB15). May be involved in transcriptional regulation. It is a selective cancer dependency (DepMap: 16.1% of cell lines).

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

Source: NCBI Gene 118472 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 6 total
• Cancer dependency (DepMap): dependent in 16.1% of screened cell lines
• MANE Select transcript: NM_145806

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28445
Approved symbol	ZNF511
Name	zinc finger protein 511
Location	10q26.3
Locus type	gene with protein product
Status	Approved
Aliases	MGC30006, Zfp511
Ensembl gene	ENSG00000198546
Ensembl biotype	protein_coding
Entrez	118472

Gene structure

Transcript identifiers

Ensembl transcripts: 9 — 7 protein_coding, 1 protein_coding_CDS_not_defined, 1 retained_intron

ENST00000359035, ENST00000361518, ENST00000463816, ENST00000482153, ENST00000855626, ENST00000855627, ENST00000919017, ENST00000969094, ENST00000969095

RefSeq mRNA: 1 — MANE Select: NM_145806 NM_145806

CCDS: CCDS7677

Canonical transcript exons

ENST00000361518 — 6 exons

Exon	Start	End
ENSE00001410456	133312788	133313161
ENSE00001909764	133308914	133309096
ENSE00003580665	133309390	133309463
ENSE00003722206	133309776	133309977
ENSE00003738342	133311716	133311841
ENSE00003754556	133310164	133310288

Expression profiles

Bgee: expression breadth ubiquitous, 253 present calls, max score 94.40.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 31.9038 / max 125.1835, expressed in 1816 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
107785	31.9038	1816

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
hindlimb stylopod muscle	UBERON:0004252	94.40	gold quality
apex of heart	UBERON:0002098	94.38	gold quality
pancreatic ductal cell	CL:0002079	93.65	gold quality
right lobe of liver	UBERON:0001114	93.11	gold quality
mucosa of transverse colon	UBERON:0004991	92.77	gold quality
muscle of leg	UBERON:0001383	92.40	gold quality
gastrocnemius	UBERON:0001388	92.26	gold quality
muscle layer of sigmoid colon	UBERON:0035805	91.46	gold quality
kidney epithelium	UBERON:0004819	91.45	silver quality
upper arm skin	UBERON:0004263	91.12	gold quality
epithelial cell of pancreas	CL:0000083	91.06	silver quality
left uterine tube	UBERON:0001303	91.06	gold quality
granulocyte	CL:0000094	90.99	gold quality
heart left ventricle	UBERON:0002084	90.92	gold quality
right ovary	UBERON:0002118	90.91	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	90.86	gold quality
left ovary	UBERON:0002119	90.80	gold quality
cardiac ventricle	UBERON:0002082	90.71	gold quality
body of uterus	UBERON:0009853	90.69	gold quality
lower esophagus	UBERON:0013473	90.58	gold quality
lower esophagus muscularis layer	UBERON:0035833	90.57	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	90.40	gold quality
vastus lateralis	UBERON:0001379	90.24	gold quality
quadriceps femoris	UBERON:0001377	90.23	gold quality
body of tongue	UBERON:0011876	90.23	gold quality
transverse colon	UBERON:0001157	90.12	gold quality
right atrium auricular region	UBERON:0006631	90.09	gold quality
cardiac atrium	UBERON:0002081	89.97	gold quality
vena cava	UBERON:0004087	89.94	gold quality
heart	UBERON:0000948	89.86	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	9.84
E-MTAB-6142	no	248.04

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

7 targeting ZNF511, 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-4262	100.00	73.26	3931
HSA-MIR-6825-5P	99.96	69.81	3431
HSA-MIR-205-3P	99.92	69.92	3165
HSA-MIR-6734-3P	99.15	66.27	1627
HSA-MIR-7160-5P	99.11	67.17	2207
HSA-MIR-10226	98.25	66.50	811
HSA-MIR-3928-3P	97.61	66.53	1096

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 16.1% of screened cell lines.

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
danio_rerio	znf511	ENSDARG00000000760
mus_musculus	Zfp511	ENSMUSG00000025470
rattus_norvegicus	Zfp511	ENSRNOG00000018272
drosophila_melanogaster	l(2)k10201	FBGN0016970

Protein

Protein identifiers

Zinc finger protein 511 — Q8NB15 (reviewed: Q8NB15)

All UniProt accessions (1): Q8NB15

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.

Isoforms (2)

UniProt ID	Names	Canonical?
Q8NB15-2	2	yes
Q8NB15-1	1

RefSeq proteins (1): NP_665805* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR013087	Znf_C2H2_type	Domain
IPR036236	Znf_C2H2_sf	Homologous_superfamily
IPR039258	ZNF511	Family

UniProt features (7 total): zinc finger region 3, chain 1, region of interest 1, modified residue 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8NB15-F1	73.90	0.44

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 (1): 240

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 51 (showing top): STARK_PREFRONTAL_CORTEX_22Q11_DELETION_DN, ACEVEDO_NORMAL_TISSUE_ADJACENT_TO_LIVER_TUMOR_DN, WEI_MYCN_TARGETS_WITH_E_BOX, VECCHI_GASTRIC_CANCER_EARLY_UP, SHEPARD_CRASH_AND_BURN_MUTANT_DN, GOMF_TRANSCRIPTION_REGULATOR_ACTIVITY, COBLL1_TARGET_GENES, FOXJ2_TARGET_GENES, NAB2_TARGET_GENES, ZNF2_TARGET_GENES, ZNF407_TARGET_GENES, ZNF561_TARGET_GENES, ZSCAN31_TARGET_GENES, MIR6734_3P, GSE11924_TFH_VS_TH1_CD4_TCELL_DN

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

GO Molecular Function (5): DNA binding (GO:0003677), DNA-binding transcription factor activity (GO:0003700), zinc ion binding (GO:0008270), protein binding (GO:0005515), 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
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
binding	1
cation binding	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

324 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
ZNF511	FAM219A	Q8IW50	566
ZNF511	LYPD5	Q6UWN5	541
ZNF511	FUOM	A2VDF0	507
ZNF511	ZNF662	Q6ZS27	507
ZNF511	ADAM7	Q9H2U9	497
ZNF511	CWC15	Q9P013	491
ZNF511	ZNF768	Q9H5H4	485
ZNF511	ADAMDEC1	O15204	474
ZNF511	OLFML2A	Q68BL7	474
ZNF511	LRRC39	Q96DD0	448
ZNF511	SRSF3	P23152	446
ZNF511	ZFAND2B	Q8WV99	442
ZNF511	ZNF621	Q6ZSS3	435
ZNF511	PAPLN	O95428	418
ZNF511	YWHAB	P31946	414

IntAct

65 interactions, top by confidence:

A	B	Type	Score
LSM3	LSM1	psi-mi:“MI:0914”(association)	0.950
ZNF511	ISL1	psi-mi:“MI:0915”(physical association)	0.780
ISL1	ZNF511	psi-mi:“MI:0915”(physical association)	0.780
ZNF511	TMCO6	psi-mi:“MI:0915”(physical association)	0.740
LSM5	LSM1	psi-mi:“MI:0914”(association)	0.640
LMO1	ZNF511	psi-mi:“MI:0915”(physical association)	0.600
ZNF511	LMO1	psi-mi:“MI:0915”(physical association)	0.600
HSF2BP	ZNF511	psi-mi:“MI:0915”(physical association)	0.560
LHX2	ZNF511	psi-mi:“MI:0915”(physical association)	0.560
BOLA2-SMG1P6	ZNF511	psi-mi:“MI:0915”(physical association)	0.560
ZNF511	SCNM1	psi-mi:“MI:0915”(physical association)	0.560
CFAP206	ZNF511	psi-mi:“MI:0915”(physical association)	0.560
ZNF511	SMARCD1	psi-mi:“MI:0915”(physical association)	0.560
ZNF511	MAD2L2	psi-mi:“MI:0915”(physical association)	0.560
CLCNKA	ZNF511	psi-mi:“MI:0915”(physical association)	0.560
ZNF511	ENKD1	psi-mi:“MI:0915”(physical association)	0.560
ZNF511	NTAQ1	psi-mi:“MI:0915”(physical association)	0.560
ZNF511	KAT5	psi-mi:“MI:0915”(physical association)	0.560
LSM6	PRMT5	psi-mi:“MI:0914”(association)	0.530
XAGE1A	THAP12	psi-mi:“MI:0914”(association)	0.530
LSM4	PRMT5	psi-mi:“MI:0914”(association)	0.530
LSM4	RABGAP1L	psi-mi:“MI:0914”(association)	0.350
LSM7	GEMIN2	psi-mi:“MI:0914”(association)	0.350
ZNF511	CYFIP1	psi-mi:“MI:0914”(association)	0.350
LSM7	SART1	psi-mi:“MI:0914”(association)	0.350

BioGRID (65): ZNF511 (Two-hybrid), NCKAP1 (Affinity Capture-MS), KLHL15 (Affinity Capture-MS), CYFIP2 (Affinity Capture-MS), CYFIP1 (Affinity Capture-MS), RAD50 (Affinity Capture-MS), WASF2 (Affinity Capture-MS), ABI2 (Affinity Capture-MS), ABI1 (Affinity Capture-MS), TMCO6 (Affinity Capture-MS), WASF1 (Affinity Capture-MS), ZNF511 (Affinity Capture-MS), ZNF511 (Affinity Capture-MS), WASF1 (Affinity Capture-MS), WASF2 (Affinity Capture-MS)

ESM2 similar proteins: A0A0U1RR11, A0A0U1RRI6, A1A5B6, A6NNE9, A6P320, B7E321, D3YXK1, E9Q0B3, F5H4A9, O35926, O75808, P0DPI3, P55107, P55108, P78358, P83369, P97737, Q08DX6, Q12962, Q13319, Q14657, Q147X3, Q1W6H9, Q24JY6, Q2TBI2, Q3TZ87, Q5RC37, Q5VV17, Q6DVA0, Q6K461, Q80TE3, Q86YJ5, Q8CBH7, Q8K0H5, Q8NB15, Q92932, Q96SQ7, Q99MX7, Q9BE71, Q9BXQ6

Diamond homologs: Q6P0X2, Q7ZZ00, Q8NB15, Q9V574

SIGNOR signaling

1 interactions.

A	Effect	B	Mechanism
Ub:E2	“up-regulates activity”	ZNF511	ubiquitination

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 29 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

Pathway	Partners	Fold	FDR
mRNA decay by 5’ to 3’ exoribonuclease	6	240.4×	3e-12
mRNA Splicing	6	34.7×	4e-07
Processing of Capped Intron-Containing Pre-mRNA	6	25.9×	2e-06
Metabolism of RNA	8	17.6×	3e-07
mRNA Splicing - Major Pathway	6	17.3×	2e-05

GO biological processes:

GO term	Partners	Fold	FDR
mRNA splicing, via spliceosome	6	20.4×	5e-05
RNA splicing	5	16.3×	1e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

1274 predictions. Top by Δscore:

Variant	Effect	Δscore
10:133309464:G:GG	donor_gain	1.0000
10:133309774:AG:A	acceptor_gain	1.0000
10:133309775:GG:G	acceptor_gain	1.0000
10:133310162:A:AG	acceptor_gain	1.0000
10:133310163:G:GG	acceptor_gain	1.0000
10:133310163:GT:G	acceptor_gain	1.0000
10:133311714:A:AC	acceptor_loss	1.0000
10:133311714:A:AG	acceptor_gain	1.0000
10:133311715:G:GG	acceptor_gain	1.0000
10:133311715:G:GT	acceptor_gain	1.0000
10:133311715:GC:G	acceptor_gain	1.0000
10:133311715:GCC:G	acceptor_gain	1.0000
10:133311715:GCCC:G	acceptor_gain	1.0000
10:133311715:GCCCA:G	acceptor_gain	1.0000
10:133309094:GAG:G	donor_gain	0.9900
10:133309097:GTGC:G	donor_gain	0.9900
10:133309385:TGCA:T	acceptor_loss	0.9900
10:133309386:GCAG:G	acceptor_loss	0.9900
10:133309388:A:AG	acceptor_gain	0.9900
10:133309388:A:AT	acceptor_loss	0.9900
10:133309388:AG:A	acceptor_gain	0.9900
10:133309388:AGGAT:A	acceptor_gain	0.9900
10:133309389:G:GC	acceptor_loss	0.9900
10:133309389:G:GG	acceptor_gain	0.9900
10:133309389:GG:G	acceptor_gain	0.9900
10:133309389:GGAT:G	acceptor_gain	0.9900
10:133309389:GGATG:G	acceptor_gain	0.9900
10:133309459:CCCAG:C	donor_gain	0.9900
10:133309464:GTAAG:G	donor_loss	0.9900
10:133309465:T:A	donor_loss	0.9900

AlphaMissense

1659 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
10:133309948:T:C	F134L	0.997
10:133309950:C:A	F134L	0.997
10:133309950:C:G	F134L	0.997
10:133310216:G:C	R161P	0.996
10:133310263:T:C	F177L	0.996
10:133310265:T:A	F177L	0.996
10:133310265:T:G	F177L	0.996
10:133309923:C:A	H125Q	0.995
10:133309923:C:G	H125Q	0.995
10:133310170:T:C	C146R	0.995
10:133309873:T:C	C109R	0.994
10:133309883:G:A	C112Y	0.994
10:133309921:C:G	H125D	0.994
10:133309938:C:A	H130Q	0.994
10:133309938:C:G	H130Q	0.994
10:133310245:T:G	Y171D	0.994
10:133309936:C:G	H130D	0.993
10:133309937:A:T	H130L	0.993
10:133310170:T:A	C146S	0.993
10:133310171:G:C	C146S	0.993
10:133310241:C:A	H169Q	0.993
10:133310241:C:G	H169Q	0.993
10:133312807:T:C	F234L	0.993
10:133312809:T:A	F234L	0.993
10:133312809:T:G	F234L	0.993
10:133310257:T:C	F175L	0.992
10:133310259:C:A	F175L	0.992
10:133310259:C:G	F175L	0.992
10:133309875:C:G	C109W	0.991
10:133309882:T:C	C112R	0.991

dbSNP variants (sampled 300 via entrez): RS1000341421 (10:133310463 G>A), RS1001109928 (10:133307195 C>T), RS1003761055 (10:133313547 C>T), RS1003766338 (10:133313208 A>C,G), RS1003999859 (10:133308677 CCA>C), RS1004542835 (10:133309611 TCCA>T), RS1004557158 (10:133313057 A>G), RS1004580983 (10:133308879 G>C), RS1004612104 (10:133308755 G>C), RS1004928100 (10:133313228 T>G), RS1005221354 (10:133310954 G>A), RS1005251965 (10:133306923 C>T), RS1005600336 (10:133311263 T>C), RS1006133396 (10:133313427 C>T), RS1006190501 (10:133312329 T>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

1 associations (top):

Study	Trait	p-value
GCST007250_1	Nonunion in individuals with fractures	2.000000e-08

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0009707	fractures, ununited

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

17 total (human), top 17 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
triphenyl phosphate	affects expression	1
tris(1,3-dichloro-2-propyl)phosphate	decreases expression	1
sodium arsenite	decreases expression	1
coumarin	decreases phosphorylation	1
Resveratrol	affects cotreatment, increases expression	1
Sunitinib	increases expression	1
Atrazine	decreases expression	1
Gasoline	affects cotreatment, decreases expression, increases abundance	1
Plant Extracts	increases expression, affects cotreatment	1
Polycyclic Aromatic Hydrocarbons	affects cotreatment, decreases expression, increases abundance	1
Smoke	decreases expression	1
Tobacco Smoke Pollution	increases expression	1
Tretinoin	decreases expression	1
Cyclosporine	decreases expression	1
Sodium Selenite	increases expression	1
1-Butanol	decreases expression, increases abundance, affects cotreatment	1
Particulate Matter	affects cotreatment, decreases expression, increases abundance	1

Clinical trials (associated diseases)

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