ZNF655

gene
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Also known as VIK-1VIK

Summary

ZNF655 (zinc finger protein 655, HGNC:30899) is a protein-coding gene on chromosome 7q22.1, encoding Zinc finger protein 655 (Q8N720). Probable transcription factor.

This gene encodes a zinc finger protein. The zinc finger proteins are involved in DNA binding and protein-protein interactions. Multiple alternatively spliced transcript variants encoding distinct isoforms have been found for this gene.

Source: NCBI Gene 79027 — RefSeq curated summary.

At a glance

  • GWAS associations: 3
  • Clinical variants (ClinVar): 86 total
  • MANE Select transcript: NM_138494

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:30899
Approved symbolZNF655
Namezinc finger protein 655
Location7q22.1
Locus typegene with protein product
StatusApproved
AliasesVIK-1, VIK
Ensembl geneENSG00000197343
Ensembl biotypeprotein_coding
OMIM617891
Entrez79027

Gene structure

Transcript identifiers

Ensembl transcripts: 32 — 22 protein_coding, 5 retained_intron, 4 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

ENST00000252713, ENST00000320583, ENST00000357864, ENST00000394163, ENST00000412636, ENST00000416144, ENST00000419215, ENST00000422164, ENST00000422422, ENST00000422647, ENST00000423973, ENST00000424881, ENST00000425063, ENST00000427931, ENST00000440391, ENST00000449244, ENST00000452314, ENST00000454654, ENST00000467680, ENST00000488751, ENST00000489320, ENST00000493277, ENST00000493947, ENST00000494357, ENST00000626122, ENST00000858641, ENST00000858642, ENST00000858643, ENST00000858644, ENST00000858645, ENST00000955592, ENST00000955593

RefSeq mRNA: 11 — MANE Select: NM_138494 NM_001009958, NM_001009960, NM_001083956, NM_001085366, NM_001085367, NM_001085368, NM_001363332, NM_001363333, NM_001363334, NM_024061, NM_138494

CCDS: CCDS34695, CCDS47655, CCDS5669, CCDS5670

Canonical transcript exons

ENST00000252713 — 3 exons

ExonStartEnd
ENSE000018346899955864299558787
ENSE000036432959957224599576453
ENSE000037064289956053399560695

Expression profiles

Bgee: expression breadth ubiquitous, 260 present calls, max score 97.28.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 38.0120 / max 426.5401, expressed in 1716 samples.

FANTOM5 promoters (7 alternative TSS)

Promoter IDTPM avgSamples expressed
7988722.49521667
798905.66811548
798862.75731309
798882.65171273
798852.26701100
798891.7938825
798840.3790167

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
ileal mucosaUBERON:000033197.28gold quality
colonic epitheliumUBERON:000039797.08gold quality
upper arm skinUBERON:000426396.77gold quality
upper leg skinUBERON:000426296.55gold quality
body of pancreasUBERON:000115096.30gold quality
mucosa of stomachUBERON:000119996.25gold quality
kidney epitheliumUBERON:000481996.09gold quality
cardiac muscle of right atriumUBERON:000337995.91gold quality
thymusUBERON:000237095.72gold quality
cartilage tissueUBERON:000241895.62gold quality
small intestine Peyer’s patchUBERON:000345495.43gold quality
lower esophagusUBERON:001347395.43gold quality
lower esophagus muscularis layerUBERON:003583395.43gold quality
muscle layer of sigmoid colonUBERON:003580595.31gold quality
right lungUBERON:000216795.22gold quality
vermiform appendixUBERON:000115495.16gold quality
esophagusUBERON:000104395.14gold quality
tibialis anteriorUBERON:000138595.05gold quality
granulocyteCL:000009495.04gold quality
body of stomachUBERON:000116195.04gold quality
transverse colonUBERON:000115795.03gold quality
urinary bladderUBERON:000125595.03gold quality
esophagogastric junction muscularis propriaUBERON:003584195.03gold quality
monocyteCL:000057695.00gold quality
small intestineUBERON:000210894.99gold quality
leukocyteCL:000073894.97gold quality
skin of hipUBERON:000155494.94gold quality
esophagus mucosaUBERON:000246994.93gold quality
seminal vesicleUBERON:000099894.92gold quality
minor salivary glandUBERON:000183094.91gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes9.81
E-MTAB-7249no353.30

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): STAT1

miRNA regulators (miRDB)

134 targeting ZNF655, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-6867-5P100.0082.213464
HSA-MIR-6833-3P100.0070.633197
HSA-MIR-4768-5P100.0069.492861
HSA-MIR-190A-3P100.0080.355520
HSA-MIR-6873-3P100.0071.422626
HSA-MIR-4262100.0073.263931
HSA-MIR-3064-3P100.0070.091254
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-181A-5P99.9972.962995
HSA-MIR-181B-5P99.9972.972996
HSA-MIR-181C-5P99.9972.952996
HSA-MIR-181D-5P99.9973.042997
HSA-MIR-569699.9872.364487
HSA-MIR-548N99.9871.944170
HSA-MIR-807599.9767.20962
HSA-MIR-314899.9775.066478
HSA-MIR-23A-3P99.9574.243163
HSA-MIR-23B-3P99.9574.243163
HSA-MIR-23C99.9573.923192
HSA-MIR-548AB99.9571.313488
HSA-MIR-55999.9572.283609
HSA-MIR-141-3P99.9472.792421
HSA-MIR-200A-3P99.9472.682420
HSA-MIR-548A-5P99.9471.273482
HSA-MIR-548AD-5P99.9471.233502
HSA-MIR-548AE-5P99.9471.233502
HSA-MIR-548AK99.9471.243488
HSA-MIR-548AM-5P99.9471.243488
HSA-MIR-548AP-5P99.9471.143489
HSA-MIR-548AQ-5P99.9471.343426

Literature-anchored findings (GeneRIF, showing 2)

  • ZNF655 is involved in development and progression of non-small-cell lung cancer. (PMID:34144060)
  • ZNF655 promotes the progression of hepatocellular carcinoma through PSMB8. (PMID:37272200)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusZfp655ENSMUSG00000007812
rattus_norvegicusZfp655ENSRNOG00000060129

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), 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)

Protein

Protein identifiers

Zinc finger protein 655Q8N720 (reviewed: Q8N720)

Alternative names: Vav-interacting Krueppel-like protein

All UniProt accessions (11): C9IYG2, C9J0V9, C9J9R2, C9JNK1, C9JS03, C9JUB9, Q8N720, F8WCS2, F8WDU5, F8WE52, F8WEB1

UniProt curated annotations — full annotation on UniProt →

Function. Probable transcription factor.

Subunit / interactions. Interacts with VAV1 and CDK4. Interacts with INTS13; promoting association with the integrator complex.

Subcellular location. Nucleus.

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

Isoforms (4)

UniProt IDNamesCanonical?
Q8N720-11yes
Q8N720-22
Q8N720-33
Q8N720-44

RefSeq proteins (11): NP_001009958, NP_001009960, NP_001077425, NP_001078835, NP_001078836, NP_001078837, NP_001350261, NP_001350262, NP_001350263, NP_076966, NP_612503* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR013087Znf_C2H2_typeDomain
IPR036236Znf_C2H2_sfHomologous_superfamily
IPR050826Krueppel_C2H2_ZnFingerFamily

Pfam: PF00096

UniProt features (29 total): mutagenesis site 7, zinc finger region 6, splice variant 5, cross-link 3, helix 2, chain 1, sequence variant 1, sequence conflict 1, modified residue 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

1 structures.

PDBMethodResolution (Å)
8PK6X-RAY DIFFRACTION3.21

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q8N720-F154.050.00

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 (4): 190, 201, 60, 77

Mutagenesis-validated functional residues (7):

PositionPhenotype
102–103decreased interaction with ints13 component of the integrator complex.
102abolished interaction with ints13 component of the integrator complex.
106–107decreased interaction with ints13 component of the integrator complex.
106abolished interaction with ints13 component of the integrator complex.
108does not affect interaction with ints13 component of the integrator complex.
113abolished interaction with ints13 component of the integrator complex.
152–153does not affect interaction with ints13 component of the integrator complex.

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-212436Generic Transcription Pathway

MSigDB gene sets: 182 (showing top): GSE37336_LY6C_POS_VS_NEG_NAIVE_CD4_TCELL_UP, GSE45365_NK_CELL_VS_BCELL_UP, RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP, ACTACCT_MIR196A_MIR196B, GGTGTGT_MIR329, GCM_ZNF198, GOBP_CELL_CYCLE_PHASE_TRANSITION, LINDGREN_BLADDER_CANCER_CLUSTER_3_DN, AGTCTTA_MIR499, VERNELL_RETINOBLASTOMA_PATHWAY_DN, GOBP_NEGATIVE_REGULATION_OF_CELL_CYCLE_PROCESS, MODULE_239, GOBP_NEGATIVE_REGULATION_OF_CELL_CYCLE, GOBP_REGULATION_OF_CELL_CYCLE, GOBP_REGULATION_OF_CELL_CYCLE_G1_S_PHASE_TRANSITION

GO Biological Process (3): regulation of transcription by RNA polymerase II (GO:0006357), negative regulation of G1/S transition of mitotic cell cycle (GO:2000134), regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (6): 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), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (3): nucleus (GO:0005634), nucleolus (GO:0005730), cytoplasm (GO:0005737)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
RNA Polymerase II Transcription1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
RNA polymerase II transcription regulatory region sequence-specific DNA binding2
regulation of DNA-templated transcription1
transcription by RNA polymerase II1
G1/S transition of mitotic cell cycle1
negative regulation of mitotic cell cycle phase transition1
negative regulation of cell cycle G1/S phase transition1
regulation of G1/S transition of mitotic cell cycle1
DNA-templated transcription1
regulation of gene expression1
regulation of RNA biosynthetic process1
cis-regulatory region sequence-specific DNA binding1
chromatin1
DNA-binding transcription factor activity1
regulation of transcription by RNA polymerase II1
transition metal ion binding1
nucleic acid binding1
binding1
cation binding1
intracellular membrane-bounded organelle1
nuclear lumen1
intracellular membraneless organelle1
intracellular anatomical structure1
cellular anatomical structure1

Protein interactions and networks

STRING

526 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ZNF655ANKHD1Q8IWZ3475
ZNF655VAV1P15498461
ZNF655GAS2L2Q8NHY3358
ZNF655FAM222BQ8WU58341
ZNF655STAU1O95793325
ZNF655TMEM87AQ8NBN3324
ZNF655ABCA7Q8IZY2314
ZNF655ZNF862O60290305
ZNF655SORL1Q92673302
ZNF655UNC5CO95185302
ZNF655C2orf74A8MZ97300
ZNF655SSC4DQ8WTU2293
ZNF655TREM2Q9NZC2293
ZNF655OR8G5Q8NG78293
ZNF655TMEFF2Q9UIK5285

IntAct

506 interactions, top by confidence:

ABTypeScore
RINT1ZNF655psi-mi:“MI:0915”(physical association)0.670
CBY2ZNF655psi-mi:“MI:0915”(physical association)0.670
ZNF655RINT1psi-mi:“MI:0915”(physical association)0.670
ZNF655CBY2psi-mi:“MI:0915”(physical association)0.670
ZNF655TRAF2psi-mi:“MI:0915”(physical association)0.560
MED21ZNF655psi-mi:“MI:0915”(physical association)0.560
ZNF655KRT40psi-mi:“MI:0915”(physical association)0.560
MAGEA2BZNF655psi-mi:“MI:0915”(physical association)0.560
KIFC3ZNF655psi-mi:“MI:0915”(physical association)0.560
CARD9ZNF655psi-mi:“MI:0915”(physical association)0.560
KRT40ZNF655psi-mi:“MI:0915”(physical association)0.560
CAPN7ZNF655psi-mi:“MI:0915”(physical association)0.560
USHBP1ZNF655psi-mi:“MI:0915”(physical association)0.560
INTS10ZNF655psi-mi:“MI:0915”(physical association)0.560

BioGRID (202): ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), KRT40 (Two-hybrid), SPERT (Two-hybrid), MAGEA2B (Two-hybrid), ZNF655 (Affinity Capture-MS), ZNF655 (Affinity Capture-MS), ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), ZNF655 (Two-hybrid), KRTAP4-12 (Two-hybrid)

ESM2 similar proteins: A1KXM5, A1YFC1, A1YGK6, A2T7F2, A7KBS4, B2RXC5, E1JH25, G3X9G7, O96001, P16531, P18748, P34307, P88825, Q2EI21, Q3URU2, Q3V0C1, Q4V8E9, Q5JRM2, Q5R7U0, Q5RDG2, Q5RE50, Q5REF1, Q5SRN2, Q5SS00, Q5U4C1, Q6H236, Q6P1M9, Q6ZN11, Q810T2, Q8BUY8, Q8N3K9, Q8N660, Q8N720, Q8N859, Q8R2V3, Q920R4, Q921B4, Q923B3, Q95JY5, Q96D09

Diamond homologs: Q8N720, Q9CZP3

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance74
Likely benign6
Benign1

Top pathogenic / likely-pathogenic (0)

SpliceAI

1553 predictions. Top by Δscore:

VariantEffectΔscore
7:99560531:A:AGacceptor_gain1.0000
7:99560531:AGT:Aacceptor_gain1.0000
7:99560532:G:GGacceptor_gain1.0000
7:99560532:GTG:Gacceptor_gain1.0000
7:99560532:GTGAT:Gacceptor_gain1.0000
7:99560692:GGGG:Gdonor_gain1.0000
7:99560693:GGG:Gdonor_gain1.0000
7:99560693:GGGG:Gdonor_gain1.0000
7:99560694:GG:Gdonor_gain1.0000
7:99560694:GGG:Gdonor_gain1.0000
7:99560695:GG:Gdonor_gain1.0000
7:99562491:CTGGG:Cdonor_loss1.0000
7:99562492:TGGGT:Tdonor_loss1.0000
7:99562493:GGGT:Gdonor_loss1.0000
7:99562495:GT:Gdonor_loss1.0000
7:99562496:T:Gdonor_loss1.0000
7:99558789:T:Gdonor_loss0.9900
7:99558790:GAG:Gdonor_loss0.9900
7:99560528:TGCA:Tacceptor_loss0.9900
7:99560529:GCA:Gacceptor_loss0.9900
7:99560530:CA:Cacceptor_loss0.9900
7:99560532:GT:Gacceptor_gain0.9900
7:99560532:GTGA:Gacceptor_gain0.9900
7:99560581:G:GTdonor_gain0.9900
7:99560684:G:Tdonor_gain0.9900
7:99560694:GGGT:Gdonor_loss0.9900
7:99560695:GGT:Gdonor_loss0.9900
7:99560697:T:Adonor_loss0.9900
7:99560697:T:TCdonor_loss0.9900
7:99562493:GG:Gdonor_gain0.9900

AlphaMissense

3327 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
7:99572853:T:CF249L0.995
7:99572855:C:AF249L0.995
7:99572855:C:GF249L0.995
7:99572769:T:CF221L0.993
7:99572771:C:AF221L0.993
7:99572771:C:GF221L0.993
7:99572798:T:AH230Q0.990
7:99572798:T:GH230Q0.990
7:99572810:T:AH234Q0.990
7:99572810:T:GH234Q0.990
7:99572878:G:CR257P0.990
7:99572788:T:CL227P0.989
7:99572796:C:GH230D0.989
7:99572800:A:CQ231P0.987
7:99572880:C:GH258D0.987
7:99572335:T:CL76P0.986
7:99573042:T:CF312L0.986
7:99573044:C:AF312L0.986
7:99573044:C:GF312L0.986
7:99572882:T:AH258Q0.985
7:99572882:T:GH258Q0.985
7:99572416:T:CL103P0.983
7:99572748:T:CC214R0.983
7:99572770:T:CF221S0.983
7:99572872:T:CL255P0.982
7:99572894:C:AH262Q0.982
7:99572894:C:GH262Q0.982
7:99573273:T:CF389L0.982
7:99573275:C:AF389L0.982
7:99573275:C:GF389L0.982

dbSNP variants (sampled 300 via entrez): RS1000018298 (7:99568666 C>T), RS1000051968 (7:99558820 C>T), RS1000485501 (7:99568284 G>A,T), RS1000654673 (7:99570294 T>G), RS1000722854 (7:99558609 C>T), RS1000776518 (7:99564760 G>A), RS1000829527 (7:99563433 C>T), RS1001075085 (7:99558778 C>G,T), RS1001482796 (7:99574465 A>G), RS1001498757 (7:99565676 C>T), RS1001742771 (7:99573335 A>C,G,T), RS1001783177 (7:99565985 T>C), RS1002127509 (7:99559635 T>A), RS1002159700 (7:99566680 C>G,T), RS1002187295 (7:99566382 A>G)

Disease associations

OMIM: gene MIM:617891 | 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):

StudyTraitp-value
GCST006249_21Serum metabolite levels4.000000e-11
GCST006249_22Serum metabolite levels2.000000e-12
GCST006249_46Serum metabolite levels4.000000e-21

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, decreases expression, increases expression3
trichostatin Aaffects cotreatment, decreases expression2
FR900359increases phosphorylation1
TAK-243increases sumoylation1
geldanamycinincreases expression1
methylmercuric chloridedecreases expression1
alpha-pineneaffects cotreatment, increases expression, increases abundance1
sodium arseniteincreases expression1
manganese chlorideincreases abundance, increases expression1
methacrylaldehydeincreases expression, increases abundance, affects cotreatment1
di-n-butylphosphoric acidaffects expression1
CGP 52608increases reaction, affects binding1
K 7174increases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
torcetrapibincreases expression1
abrineincreases expression1
dorsomorphinaffects cotreatment, decreases expression1
Resveratrolaffects cotreatment, increases expression1
Temozolomideaffects response to substance1
Sunitinibincreases expression1
Acetaminophendecreases expression1
Acroleinaffects cotreatment, increases expression, increases abundance1
Air Pollutantsaffects cotreatment, increases abundance, increases expression1
Arsenicaffects methylation1
Vehicle Emissionsincreases abundance, increases expression1
Benzeneincreases expression1
Caffeinedecreases phosphorylation1
Carmustineaffects response to substance1
Diethylstilbestrolincreases expression1
Dimethyl Sulfoxideincreases expression1

Cellosaurus cell lines

4 cell lines: 3 cancer cell line, 1 transformed cell line

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

CellosaurusNameCategorySex
CVCL_E2PVHAP1 ZNF655 (-) 1Cancer cell lineMale
CVCL_E2PWHAP1 ZNF655 (-) 2Cancer cell lineMale
CVCL_E2PXHAP1 ZNF655 (-) 3Cancer cell lineMale
CVCL_HD37HEK293 eGFP-ZNF655Transformed cell lineFemale

Clinical trials (associated diseases)

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

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.