KRT33A

gene
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Also known as Ha-3IKrt1-3

Summary

KRT33A (keratin 33A, HGNC:6450) is a protein-coding gene on chromosome 17q21.2, encoding Keratin, type I cuticular Ha3-I (O76009). It is a selective cancer dependency (DepMap: 12.8% of cell lines).

This gene encodes a member of the keratin gene family. This gene is one of multiple type I hair keratin genes that are clustered in a region of chromosome 17q12-q21 and have the same direction of transcription. As a type I hair keratin, the encoded protein is an acidic protein which heterodimerizes with type II keratins to form hair and nails. There are two isoforms of this protein, encoded by two separate genes, keratin 33A and keratin 33B.

Source: NCBI Gene 3883 — RefSeq curated summary.

At a glance

  • GWAS associations: 1
  • Clinical variants (ClinVar): 107 total
  • Cancer dependency (DepMap): dependent in 12.8% of screened cell lines
  • MANE Select transcript: NM_004138

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:6450
Approved symbolKRT33A
Namekeratin 33A
Location17q21.2
Locus typegene with protein product
StatusApproved
AliasesHa-3I, Krt1-3
Ensembl geneENSG00000006059
Ensembl biotypeprotein_coding
OMIM602761
Entrez3883

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000007735

RefSeq mRNA: 1 — MANE Select: NM_004138 NM_004138

CCDS: CCDS11388

Canonical transcript exons

ENST00000007735 — 7 exons

ExonStartEnd
ENSE000024365554134684441346969
ENSE000024547214135042041350828
ENSE000024560654134706141347222
ENSE000024592754134644841346668
ENSE000024730364134848341348639
ENSE000024833134134934641349428
ENSE000024955434134609241346236

Expression profiles

Bgee: expression breadth broad, 45 present calls, max score 84.73.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.0239 / max 25.2491, expressed in 7 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter IDTPM avgSamples expressed
1658870.02397

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047384.73gold quality
esophagus mucosaUBERON:000246960.35gold quality
left testisUBERON:000453359.16gold quality
right testisUBERON:000453459.08gold quality
testisUBERON:000047358.58gold quality
lower esophagus mucosaUBERON:003583449.08gold quality
esophagusUBERON:000104343.55gold quality
skin of abdomenUBERON:000141642.57gold quality
vaginaUBERON:000099641.61gold quality
zone of skinUBERON:000001441.00gold quality
skin of legUBERON:000151140.07gold quality
minor salivary glandUBERON:000183039.14gold quality
saliva-secreting glandUBERON:000104438.25gold quality
right lungUBERON:000216737.79gold quality
ectocervixUBERON:001224937.35gold quality
colonic epitheliumUBERON:000039737.20gold quality
tonsilUBERON:000237237.00silver quality
skeletal muscle tissueUBERON:000113436.54gold quality
ventricular zoneUBERON:000305336.48gold quality
cortical plateUBERON:000534336.47gold quality
granulocyteCL:000009436.31gold quality
bone marrow cellCL:000209236.16gold quality
ganglionic eminenceUBERON:000402335.49gold quality
olfactory segment of nasal mucosaUBERON:000538635.05silver quality
muscle tissueUBERON:000238533.38gold quality
uterine cervixUBERON:000000232.18gold quality
hindlimb stylopod muscleUBERON:000425232.15gold quality
hypothalamusUBERON:000189831.97gold quality
bone marrowUBERON:000237131.74gold quality
sural nerveUBERON:001548830.93gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3no0.59

Regulation

Is transcription factor: no

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 12.8% of screened cell lines.

Cross-species orthologs

6 orthologs

OrganismSymbolGene ID
mus_musculusKrt33aENSMUSG00000035592
mus_musculusKrt31ENSMUSG00000048981
mus_musculusKrt33bENSMUSG00000057723
rattus_norvegicusKrt31ENSRNOG00000030344
rattus_norvegicusKrt33aENSRNOG00000062912
rattus_norvegicusKrt33bENSRNOG00000068212

Paralogs (68): VIM (ENSG00000026025), KRT31 (ENSG00000094796), NEFM (ENSG00000104722), KRT23 (ENSG00000108244), KRT37 (ENSG00000108417), KRT32 (ENSG00000108759), KRT18 (ENSG00000111057), LMNB1 (ENSG00000113368), KRT36 (ENSG00000126337), KRT17 (ENSG00000128422), GFAP (ENSG00000131095), KRT34 (ENSG00000131737), KRT33B (ENSG00000131738), NES (ENSG00000132688), PRPH (ENSG00000135406), KRT85 (ENSG00000135443), KRT7 (ENSG00000135480), KRT71 (ENSG00000139648), INA (ENSG00000148798), LMNTD1 (ENSG00000152936), LMNA (ENSG00000160789), KRT84 (ENSG00000161849), KRT82 (ENSG00000161850), KRT80 (ENSG00000167767), KRT1 (ENSG00000167768), KRT24 (ENSG00000167916), KRT8 (ENSG00000170421), KRT78 (ENSG00000170423), KRT86 (ENSG00000170442), KRT75 (ENSG00000170454), KRT6C (ENSG00000170465), KRT4 (ENSG00000170477), KRT74 (ENSG00000170484), KRT72 (ENSG00000170486), KRT83 (ENSG00000170523), BFSP2 (ENSG00000170819), KRT19 (ENSG00000171345), KRT15 (ENSG00000171346), KRT38 (ENSG00000171360), KRT13 (ENSG00000171401)

Protein

Protein identifiers

Keratin, type I cuticular Ha3-IO76009 (reviewed: O76009)

Alternative names: Hair keratin, type I Ha3-I, Keratin-33A

All UniProt accessions (1): O76009

UniProt curated annotations — full annotation on UniProt →

Tissue specificity. Expressed in the hair follicles.

Miscellaneous. There are two types of hair/microfibrillar keratin, I (acidic) and II (neutral to basic).

Similarity. Belongs to the intermediate filament family.

RefSeq proteins (1): NP_004129* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR002957Keratin_IFamily
IPR018039IF_conservedConserved_site
IPR039008IF_rod_domDomain

Pfam: PF00038

UniProt features (14 total): region of interest 7, sequence conflict 3, chain 1, domain 1, sequence variant 1, site 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-O76009-F180.460.61

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (1): 305 (stutter)

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

IDPathway
R-HSA-6805567Keratinization
R-HSA-6809371Formation of the cornified envelope
R-HSA-1266738Developmental Biology

MSigDB gene sets: 107 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_UP, GOBP_MORPHOGENESIS_OF_AN_EPITHELIUM, GOBP_EPITHELIUM_DEVELOPMENT, MORF_FLT1, CAR_TNFRSF25, GOBP_INTERMEDIATE_FILAMENT_BASED_PROCESS, GU_PDEF_TARGETS_DN, MORF_MSH3, GOBP_INTERMEDIATE_FILAMENT_ORGANIZATION, JAEGER_METASTASIS_DN, MORF_BRCA1, MORF_ATRX, MORF_ESR1, MORF_RAD51L3, MARTINEZ_RB1_TARGETS_DN

GO Biological Process (3): morphogenesis of an epithelium (GO:0002009), epithelial cell differentiation (GO:0030855), intermediate filament organization (GO:0045109)

GO Molecular Function (2): structural constituent of skin epidermis (GO:0030280), structural molecule activity (GO:0005198)

GO Cellular Component (5): obsolete extracellular space (GO:0005615), cytosol (GO:0005829), cytoskeleton (GO:0005856), keratin filament (GO:0045095), intermediate filament (GO:0005882)

Reactome top-level categories

Rollup of top-2 pathways:

CategoryPathways
Developmental Biology1
Keratinization1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
epithelium development2
tissue morphogenesis1
cell differentiation1
intermediate filament cytoskeleton organization1
supramolecular fiber organization1
structural molecule activity1
molecular_function1
cytoplasm1
cellular anatomical structure1
intracellular membraneless organelle1
intermediate filament1
intermediate filament cytoskeleton1
polymeric cytoskeletal fiber1

Protein interactions and networks

STRING

1234 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
KRT33AH3BSS0H3BSS0557
KRT33AMT1AP04731550
KRT33AKRT4P19013549
KRT33ASPRR3Q9UBC9521
KRT33AMT2AP02795497
KRT33ADHFR2Q86XF0495
KRT33ATGM3Q08188434
KRT33ADHFRP00374423
KRT33AMT4P47944414
KRT33AKRT8P05787403
KRT33ASCGB1A1P11684391
KRT33ATHRAP10827388
KRT33ASPRR2AP35326385
KRT33ANGFRP08138383
KRT33ASPRR1AP35321370

IntAct

9 interactions, top by confidence:

ABTypeScore
CFTRESYT2psi-mi:“MI:0914”(association)0.710
GRB2CNOT1psi-mi:“MI:0914”(association)0.350
EPS15KRT33Apsi-mi:“MI:0914”(association)0.350
ATG16L1ESYT2psi-mi:“MI:0914”(association)0.350
FHIP1AILVBLpsi-mi:“MI:2364”(proximity)0.270
KRT33Apsi-mi:“MI:0915”(physical association)0.000
CDC20KRT33Apsi-mi:“MI:0915”(physical association)0.000
DNPEPKRT33Apsi-mi:“MI:0915”(physical association)0.000

BioGRID (20): KRT33A (Affinity Capture-MS), KRT33A (Affinity Capture-MS), KRT33A (Affinity Capture-MS), KRT33A (Affinity Capture-MS), KRT33A (Affinity Capture-MS), KRT33A (Affinity Capture-MS), KRT33A (Affinity Capture-MS), KRT8 (Cross-Linking-MS (XL-MS)), KRT33A (Proximity Label-MS), KRT33A (Affinity Capture-MS), KRT33B (Co-fractionation), KRT85 (Co-fractionation), KRT33A (Co-fractionation), KRT34 (Co-fractionation), KRT83 (Co-fractionation)

ESM2 similar proteins: A4FUZ0, A5A6M5, A5A6P3, A6QNX5, A7YWK3, B0LKP1, B1AQ75, E1AB55, O43790, O76009, O76013, P02534, P15241, P19013, P25690, P25691, P78385, P78386, P97861, Q0P5J7, Q14525, Q14532, Q14533, Q148H4, Q148H5, Q148H7, Q148H8, Q14CN4, Q15323, Q3SY84, Q497I4, Q61765, Q61897, Q62168, Q6IG03, Q6IG04, Q6IME9, Q6IMF0, Q6NXH9, Q86Y46

Diamond homologs: A1KQY9, A1L317, A1L595, A5A6M0, A5A6M5, A5A6N2, A5A6P3, A6BLY7, A6QQQ9, A7YWM2, B0LKP1, B1AQ75, O57607, O57611, O76009, O76013, O77727, O93256, P02533, P02534, P02535, P02537, P05781, P05783, P05784, P06394, P08727, P08728, P08730, P08777, P08778, P08779, P08802, P13645, P13646, P19001, P19012, P25030, P25690, P35527

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance101
Likely benign4
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

684 predictions. Top by Δscore:

VariantEffectΔscore
17:41346442:A:ACdonor_gain1.0000
17:41346443:C:CCdonor_gain1.0000
17:41346443:CTGA:Cdonor_gain1.0000
17:41346446:A:ACdonor_gain1.0000
17:41346447:C:CCdonor_gain1.0000
17:41346664:TCTCG:Tacceptor_gain1.0000
17:41346665:CTCG:Cacceptor_gain1.0000
17:41346665:CTCGC:Cacceptor_gain1.0000
17:41346666:TCG:Tacceptor_gain1.0000
17:41346666:TCGC:Tacceptor_gain1.0000
17:41346667:CG:Cacceptor_gain1.0000
17:41346667:CGC:Cacceptor_gain1.0000
17:41346668:GC:Gacceptor_loss1.0000
17:41346669:C:CCacceptor_gain1.0000
17:41346669:CT:Cacceptor_loss1.0000
17:41346670:T:Aacceptor_loss1.0000
17:41346671:G:Cacceptor_gain1.0000
17:41346671:G:GCacceptor_gain1.0000
17:41346674:G:Cacceptor_gain1.0000
17:41346674:G:GCacceptor_gain1.0000
17:41346840:ACACC:Adonor_loss1.0000
17:41346841:CA:Cdonor_loss1.0000
17:41346965:TCGGT:Tacceptor_gain1.0000
17:41346966:CGGT:Cacceptor_gain1.0000
17:41346966:CGGTC:Cacceptor_gain1.0000
17:41346967:GGT:Gacceptor_gain1.0000
17:41346967:GGTC:Gacceptor_loss1.0000
17:41346968:GT:Gacceptor_gain1.0000
17:41346968:GTC:Gacceptor_loss1.0000
17:41346970:C:CCacceptor_gain1.0000

AlphaMissense

2634 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
17:41350571:C:GR66P0.997
17:41350568:A:GL67P0.995
17:41346487:A:GI353T0.993
17:41346863:A:GL286P0.992
17:41349377:C:GA134P0.992
17:41350538:A:GL77P0.992
17:41350566:C:GA68P0.992
17:41346499:A:GL349P0.991
17:41346550:A:GL332P0.991
17:41350568:A:TL67Q0.991
17:41346469:A:GL359P0.990
17:41346487:A:CI353S0.990
17:41346571:A:GL325P0.990
17:41350556:A:GL71P0.990
17:41350580:A:GL63P0.990
17:41346520:A:GL342P0.989
17:41346541:T:GQ335P0.989
17:41346559:C:GR329P0.989
17:41350572:G:TR66S0.989
17:41350430:A:GL113P0.988
17:41346544:C:GR334P0.987
17:41346858:C:GA288P0.987
17:41350577:T:AN64I0.987
17:41346479:A:GY356H0.986
17:41350517:A:GL84P0.986
17:41346475:C:GR357P0.985
17:41348565:A:GL169P0.985
17:41350576:G:CN64K0.984
17:41350576:G:TN64K0.984
17:41346479:A:CY356D0.983

dbSNP variants (sampled 300 via entrez): RS1000170409 (17:41351200 A>C), RS1000276513 (17:41351413 G>A,C,T), RS1000679215 (17:41346761 G>A), RS1001909080 (17:41349643 C>T), RS1002762190 (17:41348035 A>G), RS1004189624 (17:41352560 A>G), RS1004286745 (17:41346595 A>C,G), RS1004339915 (17:41347652 A>G), RS1004772544 (17:41350847 G>A,C), RS1006643922 (17:41351455 C>A), RS1006759983 (17:41351906 A>G), RS1008077466 (17:41349299 C>T), RS1008174225 (17:41346552 G>A), RS1008297725 (17:41351567 C>T), RS1008744892 (17:41351882 G>A)

Disease associations

OMIM: gene MIM:602761 | disease phenotypes:

GenCC curated gene-disease

Mondo (1): prostate cancer (MONDO:0008315)

Orphanet (1): Familial prostate cancer (Orphanet:1331)

HPO phenotypes

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

GWAS associations

1 associations (top):

StudyTraitp-value
GCST006988_47Blond vs. brown/black hair color7.000000e-11

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0003924hair color

MeSH disease descriptors (1)

DescriptorNameTree numbers
D011471Prostatic NeoplasmsC04.588.945.440.770; C12.100.500.260.750; C12.100.500.565.625; C12.200.294.260.750; C12.200.294.565.625; C12.200.758.409.750; C12.900.619.750

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

9 total (human), top 9 by PubMed support.

ChemicalActions (top 5)PubMed papers
Benzo(a)pyreneincreases expression, increases methylation2
benzo(e)pyrenedecreases methylation1
CGP 52608affects binding, increases reaction1
Resveratrolaffects cotreatment, decreases expression1
Methapyrilenedecreases methylation1
Plant Extractsaffects cotreatment, decreases expression1
Rotenonedecreases expression1
Aflatoxin B1decreases methylation1
Copper Sulfateincreases expression1

Clinical trials (associated diseases)

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

TrialPhaseStatusTitle
NCT00029224PHASE4COMPLETEDTreatment With Zoledronic Acid in Patients With Breast Cancer, Multiple Myeloma, and Prostate Cancer With Cancer Related Bone Lesions
NCT00035997PHASE4COMPLETEDOpen-label Trial on the Effect of I.V. Zoledronic Acid 4 mg on Bone Density in Hormone Sensitive Prostate Cancer Patients With Bone Metastasis
NCT00063609PHASE4COMPLETEDThe Effect of Zoledronic Acid on Bone Loss in Prostate Cancer Patients Undergoing Androgen Deprivation Therapy
NCT00103623PHASE4SUSPENDEDThe Plenaxis® Experience Study
NCT00106392PHASE4COMPLETEDA Safety and Efficacy Study of Prograf in the Prevention of Erectile Dysfunction After Radical Prostatectomy
NCT00185029PHASE4UNKNOWNMR-Lymphography and Lymph Node Staging in Prostate Cancer
NCT00199485PHASE4COMPLETEDAngelica Sinensis for the Treatment of Hot Flashes in Men Undergoing LHRH Therapy for Prostate Cancer
NCT00219219PHASE4COMPLETEDZoledronic Acid in the Prevention of Skeletal-related Events in Hormone Refractory and Hormone-sensitive Prostate Cancer Patients With Bone Metastases
NCT00219271PHASE4COMPLETEDEffect Of Zoledronic Acid On Circulating And Bone Marrow-Residing Prostate Cancer Cells In Patients With Clinically Localized Prostate Cancer
NCT00237146PHASE4COMPLETEDStudy to Evaluate Zoledronic Acid on Quality of Life and Skeletal-related Events as Adjuvant Treatment in Patients With Hormone-naïve Prostate Cancer and Bone Metastasis Who Have Undergone Orchiectomy
NCT00242554PHASE4COMPLETEDOpen-label Phase IV Clinical Trial to Evaluate the Safety and Tolerability of Zoledronic Acid in Patients With Prostate Cancer and Bone Metastases
NCT00280098PHASE4COMPLETEDDocetaxel in the Treatment of Hormone Refractory Prostate Cancer
NCT00293696PHASE4COMPLETEDCasodex/Zoladex Biomarkers in Localised Prostate Cancer
NCT00334139PHASE4COMPLETEDEffect of Zoledronic Acid on Bone Metabolism in Patients With Bone Metastasis and Prostate or Breast Cancer
NCT00375765PHASE4COMPLETEDEffects On Dihydrotestosterone Regulated Gene Expression In Benign Prostatic Hyperplasia Or Prostate Cancer
NCT00391690PHASE4COMPLETEDEvaluation of Bone Markers as Diagnostic Tools for Early Detection of Bone Metastases in Patients With High Risk Prostate Cancer
NCT00422708PHASE4COMPLETEDLocal Anesthesia for Prostate Biopsy
NCT00526331PHASE4COMPLETEDEvaluation of Arterial Pressure Based Cardiac Output for Goal-Directed Perioperative Therapy
NCT00590213PHASE4COMPLETEDCompare the Value of Prophylactic Versus Therapeutic Breast Radiotherapy in CASODEX
NCT00629330PHASE4TERMINATEDDissemination of Prostate Cancer Screening to PCP’s in African American Communities
NCT00771966PHASE4COMPLETEDRadical Prostatectomy and Perioperative Fluid Therapy
NCT00805701PHASE4COMPLETEDStudy Assessing The Efficacy And Safety Of Avodart (Dutasteride) At Improving Urinary Symptoms In Men With Prostate Cancer Who Are Undergoing Seed Implantation
NCT00859027PHASE4COMPLETEDEffect Of Risedronate On Bone Mass In Older Men Receiving Neoadjuvant Therapy For Prostate Cancer
NCT00906269PHASE4UNKNOWNCan Hyperbaric Oxygen Improve Erectile Function Following Surgery for Prostate Cancer
NCT00953277PHASE4COMPLETEDStudy of Nerve Reconstruction Using AVANCE in Subjects Who Undergo Robotic Assisted Prostatectomy for Treatment of Prostate Cancer
NCT00982800PHASE4COMPLETEDDoes Postoperative Gabapentin Reduce Pain, Opioid Consumption and Anxiety and Have a Positive Effect on Health Related Quality of Life After Radical Prostatectomy?
NCT01083199PHASE4COMPLETEDGlobal Performance Evaluation of the AMS CONTINUUM™ Device
NCT01136226PHASE4COMPLETEDEvaluate Recovery of Testosterone for Patients Using Eligard
NCT01161563PHASE4COMPLETEDRandomized Crossover Trial to Assess the Tolerability of Gonadotropin Releasing Hormone (GnRH) Analogue Administration
NCT01230905PHASE4COMPLETEDStudy to Monitor the Effects of Androgen Suppression Treatment on the Heart
NCT01296672PHASE4COMPLETED3 Month Finasteride Challenge Test Can Significantly Improve the Performance of Screening for Prostate Cancer
NCT01365143PHASE4TERMINATEDProspective Randomized Trial Comparing Robotic Versus Open Radical Prostatectomy
NCT01379742PHASE4UNKNOWNComparison of Between ThinSeed™ and OncoSeed™ for Permanent Prostate Brachytherapy
NCT01486563PHASE4COMPLETEDHydroxyethyl Starch and Renal Function After Radical Prostatectomy
NCT01511874PHASE4COMPLETEDEfficacy and Safety Study of ELIGARD 22.5mg With Prostate Cancer
NCT01512472PHASE4TERMINATEDFirmagon (Degarelix) Intermittent Therapy
NCT01547416PHASE4COMPLETEDThe Effect of Combined General/Epidural Anesthesia Versus General Anesthesia on Diaphragmatic Function
NCT01571544PHASE4COMPLETEDThe Use of Thermal Suits as Preventing Hypothermia During Surgery
NCT01581749PHASE4UNKNOWNEvaluation of Truebeam for Low-Intermediate Risk Prostate Cancer
NCT01649635PHASE4COMPLETEDStudy of Cabazitaxel Combined With Prednisone and Prophylaxis of Neutropenia Complications in the Treatment of Patients With Metastatic Castration-resistant Prostate Cancer

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