GTF3C2

Summary

GTF3C2 (general transcription factor IIIC subunit 2, HGNC:4665) is a protein-coding gene on chromosome 2p23.3, encoding General transcription factor 3C polypeptide 2 (Q8WUA4). Required for RNA polymerase III-mediated transcription. It is a selective cancer dependency (DepMap: 63.7% of cell lines).

Enables RNA polymerase III general transcription initiation factor activity. Contributes to DNA binding activity. Involved in transcription by RNA polymerase III. Located in nucleoplasm. Part of transcription factor TFIIIC complex.

Source: NCBI Gene 2976 — RefSeq curated summary.

At a glance

• GWAS associations: 4
• Clinical variants (ClinVar): 118 total
• Druggable target: yes
• Cancer dependency (DepMap): dependent in 63.7% of screened cell lines
• MANE Select transcript: NM_001035521

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:4665
Approved symbol	GTF3C2
Name	general transcription factor IIIC subunit 2
Location	2p23.3
Locus type	gene with protein product
Status	Approved
Aliases	KIAA0011, TFIIIC110
Ensembl gene	ENSG00000115207
Ensembl biotype	protein_coding
OMIM	604883
Entrez	2976

Gene structure

Transcript identifiers

Ensembl transcripts: 38 — 32 protein_coding, 5 retained_intron, 1 nonsense_mediated_decay

ENST00000264720, ENST00000359541, ENST00000415683, ENST00000423998, ENST00000431028, ENST00000454704, ENST00000457098, ENST00000457748, ENST00000470115, ENST00000480989, ENST00000484680, ENST00000493511, ENST00000495298, ENST00000872596, ENST00000872597, ENST00000872598, ENST00000872599, ENST00000872600, ENST00000872601, ENST00000872602, ENST00000872603, ENST00000872604, ENST00000872605, ENST00000872606, ENST00000912118, ENST00000912119, ENST00000912120, ENST00000912121, ENST00000912122, ENST00000912123, ENST00000912124, ENST00000912125, ENST00000912126, ENST00000912127, ENST00000912128, ENST00000957128, ENST00000957129, ENST00000957130

RefSeq mRNA: 17 — MANE Select: NM_001035521 NM_001035521, NM_001318909, NM_001388380, NM_001394503, NM_001394504, NM_001394505, NM_001394506, NM_001394507, NM_001394508, NM_001394509, NM_001394510, NM_001394511, NM_001394512, NM_001394514, NM_001394515, NM_001394516, NM_001521

CCDS: CCDS1749

Canonical transcript exons

ENST00000264720 — 19 exons

Exon	Start	End
ENSE00000733153	27328037	27328189
ENSE00000733155	27328468	27328596
ENSE00000733158	27329121	27329282
ENSE00000733159	27329379	27329523
ENSE00000733164	27333974	27333999
ENSE00000809119	27335598	27335706
ENSE00001078309	27333655	27333784
ENSE00001167114	27335917	27336028
ENSE00001167121	27336198	27336425
ENSE00001167142	27337926	27338020
ENSE00001167149	27341948	27342233
ENSE00001167157	27342826	27343147
ENSE00001417649	27343308	27343578
ENSE00001418726	27356739	27356764
ENSE00003492881	27328844	27328931
ENSE00003529659	27337244	27337342
ENSE00003533095	27327177	27327284
ENSE00003637789	27337481	27337558
ENSE00003963840	27325854	27326893

Expression profiles

Bgee: expression breadth ubiquitous, 184 present calls, max score 96.15.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 20.7287 / max 163.3255, expressed in 1810 samples.

FANTOM5 promoters (5 alternative TSS)

Promoter ID	TPM avg	Samples expressed
27484	12.8417	1793
27486	5.8833	1753
27485	1.5651	1058
27483	0.4274	218
27482	0.0112	3

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
lower esophagus mucosa	UBERON:0035834	96.15	gold quality
skin of leg	UBERON:0001511	95.37	gold quality
right lobe of thyroid gland	UBERON:0001119	95.06	gold quality
right uterine tube	UBERON:0001302	94.99	gold quality
skin of abdomen	UBERON:0001416	94.94	gold quality
left lobe of thyroid gland	UBERON:0001120	94.73	gold quality
minor salivary gland	UBERON:0001830	94.13	gold quality
body of pancreas	UBERON:0001150	94.04	gold quality
mucosa of stomach	UBERON:0001199	93.86	gold quality
mucosa of transverse colon	UBERON:0004991	93.72	gold quality
granulocyte	CL:0000094	93.47	gold quality
metanephros cortex	UBERON:0010533	93.34	gold quality
nerve	UBERON:0001021	93.26	gold quality
tibial nerve	UBERON:0001323	93.26	gold quality
rectum	UBERON:0001052	93.22	gold quality
small intestine Peyer’s patch	UBERON:0003454	93.22	gold quality
right ovary	UBERON:0002118	93.19	gold quality
ectocervix	UBERON:0012249	93.15	gold quality
adenohypophysis	UBERON:0002196	93.03	gold quality
right testis	UBERON:0004534	92.94	gold quality
left testis	UBERON:0004533	92.91	gold quality
left ovary	UBERON:0002119	92.84	gold quality
body of stomach	UBERON:0001161	92.74	gold quality
esophagus mucosa	UBERON:0002469	92.72	gold quality
transverse colon	UBERON:0001157	92.66	gold quality
right adrenal gland cortex	UBERON:0035827	92.59	gold quality
body of uterus	UBERON:0009853	92.57	gold quality
right adrenal gland	UBERON:0001233	92.52	gold quality
thyroid gland	UBERON:0002046	92.50	gold quality
right lung	UBERON:0002167	92.46	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	9.22

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): NFIC

miRNA regulators (miRDB)

81 targeting GTF3C2, 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-450A-1-3P	100.00	69.33	1837
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-4481	100.00	66.42	1669
HSA-MIR-340-5P	100.00	72.50	4437
HSA-MIR-574-5P	100.00	66.01	989
HSA-MIR-520G-5P	99.99	66.76	658
HSA-MIR-4650-5P	99.98	64.69	999
HSA-MIR-4745-5P	99.98	65.95	1028
HSA-MIR-1297	99.91	73.41	3162
HSA-MIR-605-3P	99.88	69.22	1833
HSA-MIR-6739-5P	99.80	67.87	2806
HSA-MIR-4668-5P	99.79	70.58	3782
HSA-MIR-6817-3P	99.79	68.35	2126
HSA-MIR-449C-5P	99.78	67.63	1168
HSA-MIR-34B-5P	99.78	67.56	1175
HSA-MIR-26A-5P	99.78	73.52	2303
HSA-MIR-26B-5P	99.78	73.51	2305
HSA-MIR-4658	99.77	64.94	514
HSA-MIR-6790-5P	99.77	65.24	505
HSA-MIR-4517	99.76	69.19	1867
HSA-MIR-6733-5P	99.74	67.94	2759

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 63.7% of screened cell lines.

Literature-anchored findings (GeneRIF, showing 2)

• Evidence against the model that pol III transcription can be effectively modulated through the specific induction of TFIIIC110. (PMID:16822860)
• The transcription factor Sp1 modulates RNA polymerase III gene transcription by controlling BRF1 and GTF3C2 expression in human cells. (PMID:32115405)

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
danio_rerio	gtf3c2	ENSDARG00000004574
mus_musculus	Gtf3c2	ENSMUSG00000106864
rattus_norvegicus	Gtf3c2	ENSRNOG00000056904

Protein

Protein identifiers

General transcription factor 3C polypeptide 2 — Q8WUA4 (reviewed: Q8WUA4)

Alternative names: TF3C-beta, Transcription factor IIIC 110 kDa subunit, Transcription factor IIIC subunit beta

All UniProt accessions (7): Q8WUA4, C9JNH7, C9JQ12, H0Y4Q6, H7C1A9, H7C318, H7C3X9

UniProt curated annotations — full annotation on UniProt →

Function. Required for RNA polymerase III-mediated transcription. Component of TFIIIC that initiates transcription complex assembly on tRNA and is required for transcription of 5S rRNA and other stable nuclear and cytoplasmic RNAs. May play a direct role in stabilizing interactions of TFIIIC2 with TFIIIC1.

Subunit / interactions. Part of the TFIIIC subcomplex TFIIIC2, consisting of six subunits, GTF3C1, GTF3C2, GTF3C3, GTF3C4, GTF3C5 and GTF3C6.

Subcellular location. Nucleus.

Isoforms (2)

UniProt ID	Names	Canonical?
Q8WUA4-1	1	yes
Q8WUA4-2	2

RefSeq proteins (17): NP_001030598, NP_001305838, NP_001375309, NP_001381432, NP_001381433, NP_001381434, NP_001381435, NP_001381436, NP_001381437, NP_001381438, NP_001381439, NP_001381440, NP_001381441, NP_001381443, NP_001381444, NP_001381445, NP_001512 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001680	WD40_rpt	Repeat
IPR015943	WD40/YVTN_repeat-like_dom_sf	Homologous_superfamily
IPR019775	WD40_repeat_CS	Conserved_site
IPR036322	WD40_repeat_dom_sf	Homologous_superfamily
IPR052416	GTF3C_component	Family

Pfam: PF00400

UniProt features (91 total): strand 38, modified residue 12, helix 11, turn 10, repeat 6, compositionally biased region 6, region of interest 4, splice variant 2, chain 1, sequence conflict 1

Structure

Experimental structures (PDB)

3 structures.

PDB	Method	Resolution (Å)
8CLI	ELECTRON MICROSCOPY	3.2
8CLJ	ELECTRON MICROSCOPY	3.2
8CLL	ELECTRON MICROSCOPY	3.4

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8WUA4-F1	73.32	0.53

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 (12): 63, 132, 165, 167, 220, 260, 597, 871, 892, 893, 895, 901

Function

Pathways and Gene Ontology

Reactome pathways

6 pathways

ID	Pathway
R-HSA-749476	RNA Polymerase III Abortive And Retractive Initiation
R-HSA-76061	RNA Polymerase III Transcription Initiation From Type 1 Promoter
R-HSA-76066	RNA Polymerase III Transcription Initiation From Type 2 Promoter
R-HSA-74158	RNA Polymerase III Transcription
R-HSA-74160	Gene expression (Transcription)
R-HSA-76046	RNA Polymerase III Transcription Initiation

MSigDB gene sets: 173 (showing top): MYAATNNNNNNNGGC_UNKNOWN, BUYTAERT_PHOTODYNAMIC_THERAPY_STRESS_DN, PAX4_01, GOBP_TRNA_METABOLIC_PROCESS, GOBP_TRANSCRIPTION_BY_RNA_POLYMERASE_III, GOBP_RRNA_TRANSCRIPTION, TTGGGAG_MIR150, CTCTAGA_MIR526C_MIR518F_MIR526A, YY1_02, BLALOCK_ALZHEIMERS_DISEASE_UP, LI_WILMS_TUMOR_VS_FETAL_KIDNEY_1_DN, HNF4_DR1_Q3, GOBP_DNA_TEMPLATED_TRANSCRIPTION_INITIATION, BENPORATH_ES_CORE_NINE_CORRELATED, MYB_Q3

GO Biological Process (3): transcription by RNA polymerase III (GO:0006383), 5S class rRNA transcription by RNA polymerase III (GO:0042791), tRNA transcription by RNA polymerase III (GO:0042797)

GO Molecular Function (3): RNA polymerase III general transcription initiation factor activity (GO:0000995), DNA binding (GO:0003677), protein binding (GO:0005515)

GO Cellular Component (3): transcription factor TFIIIC complex (GO:0000127), nucleoplasm (GO:0005654), nucleus (GO:0005634)

Reactome top-level categories

Rollup of top-3 pathways:

Category	Pathways
RNA Polymerase III Transcription	2
RNA Polymerase III Transcription Initiation	2
Gene expression (Transcription)	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
transcription by RNA polymerase III	3
DNA-templated transcription	1
rRNA transcription	1
tRNA transcription	1
general transcription initiation factor activity	1
nucleic acid binding	1
binding	1
RNA polymerase III transcription regulator complex	1
nuclear lumen	1
cellular anatomical structure	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

1558 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
GTF3C2	GTF3C1	Q12789	969
GTF3C2	GTF3C4	Q9UKN8	822
GTF3C2	GTF3C3	Q9Y5Q9	819
GTF3C2	GTF3C5	Q9Y5Q8	779
GTF3C2	POLR3A	O14802	689
GTF3C2	BDP1	A6H8Y1	648
GTF3C2	POLR3G	O15318	627
GTF3C2	SNRNP200	O75643	484
GTF3C2	CCDC121	Q6ZUS5	477
GTF3C2	KRTCAP3	Q53RY4	474
GTF3C2	FNDC4	Q9H6D8	469
GTF3C2	DIDO1	Q9BTC0	450
GTF3C2	GTF3C6	Q969F1	448
GTF3C2	NRBP1	Q9UHY1	446
GTF3C2	GRHL2	Q6ISB3	426

IntAct

130 interactions, top by confidence:

A	B	Type	Score
FBL	NOP56	psi-mi:“MI:0914”(association)	0.800
GTF3C2	GTF3C1	psi-mi:“MI:0915”(physical association)	0.670
GTF3C1	GTF3C2	psi-mi:“MI:0914”(association)	0.670
NEUROG3	GXYLT2	psi-mi:“MI:0914”(association)	0.640
SDC2	PDPK1	psi-mi:“MI:0914”(association)	0.640
GTF3C3	POLR3D	psi-mi:“MI:0914”(association)	0.640
PLK1	C1orf226	psi-mi:“MI:0914”(association)	0.560
ZNF764	IPO8	psi-mi:“MI:0914”(association)	0.530
ZNF764	SH3PXD2B	psi-mi:“MI:0914”(association)	0.530
FBL	ZNF316	psi-mi:“MI:0914”(association)	0.530
NHLH2	AP3B1	psi-mi:“MI:0914”(association)	0.530
MAGEB2	POLRMT	psi-mi:“MI:0914”(association)	0.530
CASQ2	PES1	psi-mi:“MI:0914”(association)	0.530
RPS2	MPHOSPH10	psi-mi:“MI:0914”(association)	0.530
CLEC3A	ZZEF1	psi-mi:“MI:0914”(association)	0.530
PRR20E	SIAH2	psi-mi:“MI:0914”(association)	0.530
GTF3C2	C1QBP	psi-mi:“MI:0914”(association)	0.530
GTF3C2	RPTOR	psi-mi:“MI:0915”(physical association)	0.500
GTF3C2	MTOR	psi-mi:“MI:0914”(association)	0.500
GTF3C2	MTOR	psi-mi:“MI:0915”(physical association)	0.500
ESR2	FBLL1	psi-mi:“MI:0914”(association)	0.460
H3C1	SMCHD1	psi-mi:“MI:2364”(proximity)	0.410
GTF3C5	GTF3C2	psi-mi:“MI:0915”(physical association)	0.400
Gtf3c6		psi-mi:“MI:0915”(physical association)	0.400

BioGRID (252): GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Reconstituted Complex), GTF3C2 (Affinity Capture-Western), GTF3C2 (Proximity Label-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS), GTF3C2 (Affinity Capture-MS)

ESM2 similar proteins: A0A087WRI3, A2AIP0, A2RRW4, A4D2P6, A6QPC0, A8E5W8, A8MTA8, A9JS51, E9PGG2, G3X6E2, H3BNL1, O08856, O43247, O43566, O70373, P54098, P54099, Q0VB26, Q12770, Q2TA11, Q2TBR5, Q3ZBN4, Q400G9, Q4QR77, Q5MNU5, Q5RDC3, Q6J272, Q6ZQR2, Q70EL4, Q8BL74, Q8BUM9, Q8BX43, Q8C0R7, Q8C4S8, Q8N1D5, Q8N6G2, Q8WUA4, Q8WW14, Q969Z4, Q96MK2

Diamond homologs: Q3KPT3, Q4R571, Q53HC9, Q5M8I4, Q5PPK9, Q5RDC3, Q5RE10, Q8BL74, Q8K0G5, Q8WUA4

SIGNOR signaling

1 interactions.

A	Effect	B	Mechanism
GTF3C2	“form complex”	TFIIIC	binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 171 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
RNA Polymerase III Transcription Initiation From Type 2 Promoter	5	19.6×	3e-04
RNA Polymerase III Transcription Initiation From Type 1 Promoter	5	18.9×	3e-04
RNA Polymerase III Transcription Initiation	5	15.6×	5e-04
RNA Polymerase III Abortive And Retractive Initiation	6	15.5×	2e-04
RNA Polymerase III Transcription	5	15.1×	6e-04
Signaling by FGFR1 in disease	5	13.6×	9e-04
G1/S Transition	5	10.8×	3e-03
Peptide chain elongation	8	9.4×	2e-04

GO biological processes:

GO term	Partners	Fold	FDR
regulation of signal transduction by p53 class mediator	5	13.3×	6e-03
cytoplasmic translation	8	10.3×	3e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	91
Likely benign	5
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

2913 predictions. Top by Δscore:

Variant	Effect	Δscore
2:27327172:ACTAC:A	donor_loss	1.0000
2:27327173:CTACC:C	donor_loss	1.0000
2:27327174:TAC:T	donor_loss	1.0000
2:27327175:ACC:A	donor_loss	1.0000
2:27327176:C:G	donor_loss	1.0000
2:27327280:GAACC:G	acceptor_gain	1.0000
2:27327281:AACC:A	acceptor_gain	1.0000
2:27327283:CC:C	acceptor_gain	1.0000
2:27327284:CC:C	acceptor_gain	1.0000
2:27327285:C:CA	acceptor_loss	1.0000
2:27327285:C:CC	acceptor_gain	1.0000
2:27327285:C:T	acceptor_gain	1.0000
2:27328186:TAGG:T	acceptor_gain	1.0000
2:27328188:GG:G	acceptor_gain	1.0000
2:27328464:GTACA:G	donor_loss	1.0000
2:27328465:TACAA:T	donor_loss	1.0000
2:27328466:A:AC	donor_gain	1.0000
2:27328466:A:T	donor_loss	1.0000
2:27328467:C:CA	donor_loss	1.0000
2:27328467:C:CC	donor_gain	1.0000
2:27328467:CAAAT:C	donor_gain	1.0000
2:27328471:T:C	donor_gain	1.0000
2:27328593:GACT:G	acceptor_gain	1.0000
2:27328595:CT:C	acceptor_gain	1.0000
2:27328837:GGCTC:G	donor_loss	1.0000
2:27328838:GCTC:G	donor_loss	1.0000
2:27328839:CTCAC:C	donor_loss	1.0000
2:27328840:TCAC:T	donor_loss	1.0000
2:27328841:CA:C	donor_loss	1.0000
2:27328842:A:AC	donor_gain	1.0000

AlphaMissense

5854 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
2:27333703:A:G	W562R	1.000
2:27333703:A:T	W562R	1.000
2:27329173:A:G	W663R	0.999
2:27329173:A:T	W663R	0.999
2:27329239:A:G	W641R	0.999
2:27329239:A:T	W641R	0.999
2:27329253:C:G	R636P	0.999
2:27329263:C:A	G633W	0.999
2:27329395:A:G	W621R	0.999
2:27329395:A:T	W621R	0.999
2:27329509:A:G	W583R	0.999
2:27329509:A:T	W583R	0.999
2:27336349:A:G	W402R	0.999
2:27336349:A:T	W402R	0.999
2:27329154:C:T	G669D	0.998
2:27329262:C:T	G633E	0.998
2:27329523:C:A	G578V	0.998
2:27333701:C:A	W562C	0.998
2:27333701:C:G	W562C	0.998
2:27326882:G:C	S843R	0.997
2:27326882:G:T	S843R	0.997
2:27326884:T:G	S843R	0.997
2:27328917:C:T	G685E	0.997
2:27329151:A:T	V670D	0.997
2:27329155:C:G	G669R	0.997
2:27329256:T:A	D635V	0.997
2:27329263:C:G	G633R	0.997
2:27329263:C:T	G633R	0.997
2:27329523:C:T	G578D	0.997
2:27333669:G:T	A573D	0.997

dbSNP variants (sampled 300 via entrez): RS1000001619 (2:27353119 G>A), RS1000054444 (2:27357770 A>G), RS1000167052 (2:27334501 T>C), RS1000205247 (2:27354276 T>G), RS1000424488 (2:27340087 G>T), RS1000464318 (2:27356677 C>T), RS1000477931 (2:27352752 T>C), RS1000789338 (2:27329742 C>G,T), RS1000812831 (2:27327543 T>C,G), RS1000867515 (2:27345114 T>C), RS1000976333 (2:27351712 A>T), RS1001059047 (2:27356828 T>G), RS1001105197 (2:27358134 G>T), RS1001198274 (2:27332667 G>C), RS1001334706 (2:27330976 T>C)

Disease associations

OMIM: gene MIM:604883 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

4 associations (top):

Study	Trait	p-value
GCST005312_31	Menopause (age at onset)	2.000000e-15
GCST009391_1137	Metabolite levels	2.000000e-06
GCST009391_695	Metabolite levels	7.000000e-07
GCST010736_1	Urinary albumin-to-creatinine ratio	1.000000e-07

EFO canonical traits (4, from GWAS)

EFO ID	Trait name
EFO:0004704	age at menopause
EFO:0010458	alpha-hydroxybutyric acid measurement
EFO:0007745	lactate measurement
EFO:0007778	urinary albumin to creatinine ratio

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL6067205 (SINGLE PROTEIN)

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

ChEMBL bioactivities

2 potent at pChembl≥5 of 2 total, top 2 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChembl	Type	Value	Unit	Molecule
7.86	Kd	13.89	nM	CHEMBL5653589
7.86	ED50	13.89	nM	CHEMBL5653589

PubChem BioAssay actives

1 with measured affinity, of 2 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

Compound	Assay	Type	Value	Unit
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide	2148474: Binding affinity to human GTF3C2 incubated for 45 mins by Kinobead based pull down assay	kd	0.0139	uM

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	affects cotreatment, decreases expression, increases abundance	3
Acetaminophen	decreases expression	2
Lead	decreases expression, affects expression	2
FR900359	affects phosphorylation	1
alpha-pinene	affects cotreatment, decreases expression, increases abundance	1
trichostatin A	affects expression	1
beta-lapachone	decreases expression	1
cobaltous chloride	decreases expression	1
potassium chromate(VI)	affects cotreatment, decreases expression	1
coumarin	increases phosphorylation	1
methacrylaldehyde	affects cotreatment, decreases expression, increases abundance	1
epigallocatechin gallate	affects cotreatment, decreases expression	1
avobenzone	increases expression	1
K 7174	decreases expression	1
motexafin gadolinium	increases expression	1
ICG 001	decreases expression	1
Grape Seed Proanthocyanidins	affects cotreatment, decreases expression	1
Bortezomib	decreases expression	1
Vorinostat	decreases expression	1
Acrolein	affects cotreatment, decreases expression, increases abundance	1
Air Pollutants	increases abundance, affects cotreatment, decreases expression	1
Arsenic	decreases expression, increases abundance	1
Atrazine	decreases expression	1
Benzene	increases expression	1
Benzo(a)pyrene	increases mutagenesis	1
Caffeine	decreases phosphorylation	1
Catechin	affects cotreatment, decreases expression	1
Enzyme Inhibitors	decreases activity, increases O-linked glycosylation	1
Methyl Methanesulfonate	decreases expression	1
Ozone	affects cotreatment, decreases expression, increases abundance	1

ChEMBL screening assays

1 unique, capped per target: 1 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL5651516	Binding	Binding affinity to human GTF3C2 incubated for 45 mins by Kinobead based pull down assay	NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem

Cellosaurus cell lines

3 cell lines: 3 embryonic stem cell

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

Cellosaurus	Name	Category	Sex
CVCL_A2J3	SEES3-1V human GTF3C2, clone1	Embryonic stem cell	Male
CVCL_A2J4	SEES3-1V human GTF3C2, clone2	Embryonic stem cell	Male
CVCL_A2J5	SEES3-1V human GTF3C2, clone3	Embryonic stem cell	Male

Clinical trials (associated diseases)

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