TUBGCP3

Summary

TUBGCP3 (tubulin gamma complex component 3, HGNC:18598) is a protein-coding gene on chromosome 13q34, encoding Gamma-tubulin complex component 3 (Q96CW5). Component of the gamma-tubulin ring complex (gTuRC) which mediates microtubule nucleation. It is a common-essential gene (DepMap: required in 98.8% of cancer cell lines).

Enables gamma-tubulin binding activity. Predicted to be involved in meiotic cell cycle; microtubule cytoskeleton organization; and mitotic cell cycle. Located in cytoplasm and microtubule cytoskeleton.

Source: NCBI Gene 10426 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 124 total
• Druggable target: yes — 1 molecules with ChEMBL bioactivity
• Cancer dependency (DepMap): dependent in 98.8% of screened cell lines (common-essential)
• MANE Select transcript: NM_006322

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:18598
Approved symbol	TUBGCP3
Name	tubulin gamma complex component 3
Location	13q34
Locus type	gene with protein product
Status	Approved
Aliases	GCP3, Spc98p, SPBC98
Ensembl gene	ENSG00000126216
Ensembl biotype	protein_coding
OMIM	617818
Entrez	10426

Gene structure

Transcript identifiers

Ensembl transcripts: 24 — 20 protein_coding, 3 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay

ENST00000261965, ENST00000375669, ENST00000462580, ENST00000464139, ENST00000469302, ENST00000483532, ENST00000611152, ENST00000649778, ENST00000865800, ENST00000865801, ENST00000865802, ENST00000865803, ENST00000865804, ENST00000865805, ENST00000865806, ENST00000865807, ENST00000931606, ENST00000931607, ENST00000947426, ENST00000947427, ENST00000947428, ENST00000947429, ENST00000947430, ENST00000947431

RefSeq mRNA: 4 — MANE Select: NM_006322 NM_001286277, NM_001286278, NM_001286279, NM_006322

CCDS: CCDS66584, CCDS73599, CCDS9525

Canonical transcript exons

ENST00000261965 — 22 exons

Exon	Start	End
ENSE00000687312	112504626	112504714
ENSE00000687313	112504032	112504163
ENSE00000687314	112499045	112499185
ENSE00000687316	112489581	112489697
ENSE00000862463	112485011	112486151
ENSE00000862464	112516440	112516575
ENSE00000862466	112519886	112520021
ENSE00000862470	112545699	112545865
ENSE00000862471	112547620	112547752
ENSE00000862472	112587905	112588153
ENSE00001313712	112518975	112519043
ENSE00003492073	112558196	112558413
ENSE00003523211	112526942	112527050
ENSE00003524015	112569152	112569259
ENSE00003541399	112527374	112527484
ENSE00003562498	112565111	112565178
ENSE00003581926	112522320	112522509
ENSE00003596245	112548108	112548176
ENSE00003596362	112559322	112559399
ENSE00003713294	112554887	112555005
ENSE00003724810	112554057	112554182
ENSE00003732531	112556052	112556224

Expression profiles

Bgee: expression breadth ubiquitous, 168 present calls, max score 90.76.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 15.9373 / max 325.4298, expressed in 1803 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
138309	15.5080	1803
138308	0.4293	220

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
monocyte	CL:0000576	90.76	gold quality
ventricular zone	UBERON:0003053	90.63	gold quality
leukocyte	CL:0000738	90.62	gold quality
bone marrow cell	CL:0002092	89.84	gold quality
embryo	UBERON:0000922	88.52	gold quality
ganglionic eminence	UBERON:0004023	88.52	gold quality
right ovary	UBERON:0002118	88.13	gold quality
left ovary	UBERON:0002119	88.08	gold quality
mucosa of stomach	UBERON:0001199	87.60	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	87.25	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	87.03	gold quality
body of uterus	UBERON:0009853	86.81	gold quality
granulocyte	CL:0000094	86.61	gold quality
tibial nerve	UBERON:0001323	86.56	gold quality
colonic epithelium	UBERON:0000397	86.49	gold quality
skin of leg	UBERON:0001511	86.36	gold quality
ectocervix	UBERON:0012249	86.35	gold quality
right lobe of liver	UBERON:0001114	86.13	gold quality
skin of abdomen	UBERON:0001416	86.12	gold quality
vermiform appendix	UBERON:0001154	86.00	gold quality
endocervix	UBERON:0000458	85.78	gold quality
smooth muscle tissue	UBERON:0001135	85.75	gold quality
left uterine tube	UBERON:0001303	85.75	gold quality
stromal cell of endometrium	CL:0002255	85.45	gold quality
popliteal artery	UBERON:0002250	85.43	gold quality
tibial artery	UBERON:0007610	85.43	gold quality
right testis	UBERON:0004534	85.22	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	85.19	gold quality
lower esophagus	UBERON:0013473	85.10	gold quality
lower esophagus muscularis layer	UBERON:0035833	85.10	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.11

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

58 targeting TUBGCP3, 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-30A-5P	100.00	76.31	3233
HSA-MIR-30B-5P	100.00	76.29	3248
HSA-MIR-30C-5P	100.00	76.29	3248
HSA-MIR-30D-5P	100.00	76.32	3233
HSA-MIR-30E-5P	100.00	76.32	3242
HSA-MIR-548C-3P	99.99	74.01	7587
HSA-MIR-511-3P	99.99	68.85	1467
HSA-MIR-4775	99.98	75.00	6394
HSA-MIR-520D-5P	99.98	73.34	4883
HSA-MIR-524-5P	99.98	73.43	4882
HSA-MIR-548AN	99.97	70.91	2817
HSA-MIR-3605-5P	99.96	67.12	932
HSA-MIR-545-3P	99.95	70.74	2783
HSA-MIR-10523-5P	99.91	69.22	2038
HSA-MIR-153-5P	99.89	73.86	6317
HSA-MIR-4799-5P	99.82	70.60	2663
HSA-MIR-4766-5P	99.75	69.23	2662
HSA-MIR-199A-3P	99.75	70.48	929
HSA-MIR-199B-3P	99.75	70.48	929
HSA-MIR-3129-5P	99.75	70.46	914
HSA-MIR-4306	99.72	70.50	3630
HSA-MIR-4699-3P	99.71	70.15	3142
HSA-MIR-3714	99.71	70.74	2671
HSA-MIR-548M	99.70	68.87	1749
HSA-MIR-586	99.65	70.40	2051
HSA-MIR-1303	99.65	69.77	1662
HSA-MIR-5700	99.64	69.88	2280
HSA-MIR-1290	99.59	69.90	2079
HSA-MIR-510-3P	99.54	70.06	2965
HSA-MIR-105-5P	99.54	69.24	2060

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 98.8% of screened cell lines, common-essential.

Literature-anchored findings (GeneRIF, showing 5)

• Stability of the small gamma-tubulin complex (gamma tubulin/GCP2/GCP3) requires HCA66, a protein of the centrosome and the nucleolus. (PMID:19299467)
• Authors show genetically that GCP3/Spc98 function is fully conserved with Alp6 across species but that functional differences exist between GCP2/Spc97 and Alp4. (PMID:23886939)
• This study demonstrated that Overexpression and Nucleolar Localization gcp3 in glioblastoma. (PMID:26079448)
• NMR secondary structure and interactions of recombinant human MOZART1 protein with its binding partner, GCP3, has been presented. (PMID:28851027)
• CircTUBGCP3 Contributes to the Malignant Progression of Rectal Cancer. (PMID:34515875)

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
danio_rerio	tubgcp3	ENSDARG00000029133
mus_musculus	Tubgcp3	ENSMUSG00000000759
rattus_norvegicus	Tubgcp3	ENSRNOG00000017085
drosophila_melanogaster	Grip91	FBGN0001612
drosophila_melanogaster	t-Grip91	FBGN0028901

Paralogs (4): TUBGCP6 (ENSG00000128159), TUBGCP2 (ENSG00000130640), TUBGCP4 (ENSG00000137822), TUBGCP5 (ENSG00000275835)

Protein

Protein identifiers

Gamma-tubulin complex component 3 — Q96CW5 (reviewed: Q96CW5)

Alternative names: Gamma-ring complex protein 104 kDa, Spindle pole body protein Spc98 homolog

All UniProt accessions (4): Q96CW5, A0A087WU06, A0A087WZV5, A0A3B3ITE3

UniProt curated annotations — full annotation on UniProt →

Function. Component of the gamma-tubulin ring complex (gTuRC) which mediates microtubule nucleation. The gTuRC regulates the minus-end nucleation of alpha-beta tubulin heterodimers that grow into microtubule protafilaments, a critical step in centrosome duplication and spindle formation.

Subunit / interactions. Component of the gamma-tubulin ring complex (gTuRC) consisting of TUBGCP2, TUBGCP3, TUBGCP4, TUBGCP5 and TUBGCP6 and gamma-tubulin TUBG1 or TUBG2. TUBGCP2, TUBGCP3, TUBGCP4, TUBGCP5 and TUBGCP6 assemble in a 5:5:2:1:1 stoichiometry; each is associated with a gamma-tubulin, thereby arranging 14 gamma-tubulins in a helical manner. Gamma-tubulin at the first position is blocked by TUBGCP3 at the last position, allowing 13 protafilaments to grow into a microtubule. The gTuRC (via TUBGCP3 and TUBGCP6) interacts with ACTB and MZT1; the interactions form a luminal bridge that stabilizes the initial structure during complex assembly. The gTuRC (via TUBGCP2) interacts with MZT2A/MZT2B and CDK5RAP2 (via CM1 motif); the interactions play a role in gTuRC activation. Interacts with NIN (via N-terminus); the interaction may promote recruitment of the gamma-tubulin ring complex to the centrosome.

Subcellular location. Cytoplasm. Cytoskeleton. Microtubule organizing center. Centrosome.

Tissue specificity. Ubiquitously expressed.

Similarity. Belongs to the TUBGCP family.

Isoforms (3)

UniProt ID	Names	Canonical?
Q96CW5-1	1	yes
Q96CW5-2	2
Q96CW5-3	3

RefSeq proteins (4): NP_001273206, NP_001273207, NP_001273208, NP_006313* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR007259	GCP	Family
IPR040457	GCP_C	Domain
IPR041470	GCP_N	Domain
IPR042241	GCP_C_sf	Homologous_superfamily

Pfam: PF04130, PF17681

UniProt features (12 total): splice variant 4, modified residue 2, initiator methionine 1, chain 1, sequence variant 1, sequence conflict 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

27 structures.

PDB	Method	Resolution (Å)
8RX1	ELECTRON MICROSCOPY	3.57
6X0U	ELECTRON MICROSCOPY	3.6
8Q62	ELECTRON MICROSCOPY	3.72
6V6B	ELECTRON MICROSCOPY	3.8
7AS4	ELECTRON MICROSCOPY	4.13
6V6S	ELECTRON MICROSCOPY	4.3
9QVN	ELECTRON MICROSCOPY	4.7
7QJ0	ELECTRON MICROSCOPY	5.32
9QVM	ELECTRON MICROSCOPY	6.8
7QJ1	ELECTRON MICROSCOPY	7
8VRD	ELECTRON MICROSCOPY	7
7QJD	ELECTRON MICROSCOPY	7.1
7QJ3	ELECTRON MICROSCOPY	7.6
8VRJ	ELECTRON MICROSCOPY	7.7
7QJ6	ELECTRON MICROSCOPY	7.8
7QJ9	ELECTRON MICROSCOPY	8.1
8VRK	ELECTRON MICROSCOPY	8.5
7QJ2	ELECTRON MICROSCOPY	8.6
7QJ5	ELECTRON MICROSCOPY	8.7
7QJ7	ELECTRON MICROSCOPY	8.7
7QJ8	ELECTRON MICROSCOPY	8.7
7QJ4	ELECTRON MICROSCOPY	9
7QJA	ELECTRON MICROSCOPY	9.2
7QJB	ELECTRON MICROSCOPY	9.2
7QJC	ELECTRON MICROSCOPY	16.1
9I8G	ELECTRON MICROSCOPY	22.4
9I8H	ELECTRON MICROSCOPY	23.2

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q96CW5-F1	74.74	0.22

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): 2, 113

Function

Pathways and Gene Ontology

Reactome pathways

2 pathways

ID	Pathway
R-HSA-380270	Recruitment of mitotic centrosome proteins and complexes
R-HSA-380320	Recruitment of NuMA to mitotic centrosomes

MSigDB gene sets: 211 (showing top): GOBP_SINGLE_FERTILIZATION, RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP, GOBP_CYTOPLASMIC_MICROTUBULE_ORGANIZATION, GCM_ZNF198, GEORGES_CELL_CYCLE_MIR192_TARGETS, GENTILE_RESPONSE_CLUSTER_D3, GOBP_MICROTUBULE_NUCLEATION, GOCC_MICROTUBULE_ORGANIZING_CENTER, PUJANA_CHEK2_PCC_NETWORK, chr13q34, GOCC_CENTROSOME, DACOSTA_UV_RESPONSE_VIA_ERCC3_COMMON_DN, GENTILE_UV_HIGH_DOSE_DN, GOBP_ORGANELLE_ASSEMBLY, GOBP_MITOTIC_CELL_CYCLE

GO Biological Process (7): mitotic cell cycle (GO:0000278), microtubule nucleation (GO:0007020), single fertilization (GO:0007338), cytoplasmic microtubule organization (GO:0031122), spindle assembly (GO:0051225), meiotic cell cycle (GO:0051321), microtubule cytoskeleton organization (GO:0000226)

GO Molecular Function (5): structural molecule activity (GO:0005198), structural constituent of cytoskeleton (GO:0005200), gamma-tubulin binding (GO:0043015), protein binding (GO:0005515), microtubule minus-end binding (GO:0051011)

GO Cellular Component (13): gamma-tubulin complex (GO:0000930), cytoplasm (GO:0005737), centrosome (GO:0005813), centriole (GO:0005814), spindle (GO:0005819), polar microtubule (GO:0005827), cytosol (GO:0005829), membrane (GO:0016020), spindle pole (GO:0000922), microtubule organizing center (GO:0005815), cytoskeleton (GO:0005856), microtubule (GO:0005874), microtubule cytoskeleton (GO:0015630)

Reactome top-level categories

Rollup of top-2 pathways:

Category	Pathways
Centrosome maturation	1
Mitotic Prometaphase	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cellular anatomical structure	5
microtubule organizing center	3
intracellular membraneless organelle	3
microtubule cytoskeleton	3
cell cycle	2
microtubule cytoskeleton organization	2
cytoskeleton organization	2
cytoskeleton	2
mitotic nuclear division	1
microtubule polymerization	1
fertilization	1
supramolecular fiber organization	1
spindle organization	1
chromosome segregation	1
membraneless organelle assembly	1
sexual reproduction	1
reproductive process	1
meiotic nuclear division	1
microtubule-based process	1
molecular_function	1
structural molecule activity	1
tubulin binding	1
binding	1
microtubule binding	1
protein-containing complex	1
intracellular anatomical structure	1
centriole	1
spindle pole	1
spindle microtubule	1
cytoplasm	1
spindle	1
polymeric cytoskeletal fiber	1

Protein interactions and networks

STRING

1388 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TUBGCP3	TUBGCP2	Q9BSJ2	993
TUBGCP3	TUBGCP4	Q9UGJ1	978
TUBGCP3	TUBGCP6	Q96RT7	966
TUBGCP3	MZT1	Q08AG7	951
TUBGCP3	TUBGCP5	Q96RT8	939
TUBGCP3	TUBG1	P23258	902
TUBGCP3	NEDD1	Q8NHV4	875
TUBGCP3	ERC2	O15083	825
TUBGCP3	TUBG2	Q9NRH3	750
TUBGCP3	MTO1	Q9Y2Z2	696
TUBGCP3	CDK5RAP2	Q96SN8	647
TUBGCP3	MZT2A	Q6P582	645
TUBGCP3	PCNT	O95613	632
TUBGCP3	B8ZZ87	B8ZZ87	619
TUBGCP3	GRIP2	Q9C0E4	576

IntAct

149 interactions, top by confidence:

A	B	Type	Score
TUBGCP5	TUBG1	psi-mi:“MI:0914”(association)	0.840
TUBG1	TUBGCP3	psi-mi:“MI:0914”(association)	0.790
MZT2B	TUBG1	psi-mi:“MI:0914”(association)	0.770
CFTR	ESYT2	psi-mi:“MI:0914”(association)	0.710
TUBG2	TUBGCP3	psi-mi:“MI:0914”(association)	0.640
	PMPCB	psi-mi:“MI:0914”(association)	0.640
SCN2B	EXOC5	psi-mi:“MI:0914”(association)	0.640
Mzt2	TUBG1	psi-mi:“MI:0914”(association)	0.560
GYPB	TCAF2	psi-mi:“MI:0914”(association)	0.530
APLNR	METTL15	psi-mi:“MI:0914”(association)	0.530
LGALS3BP	RGPD8	psi-mi:“MI:0914”(association)	0.530
TUBG2	TXNDC9	psi-mi:“MI:0914”(association)	0.530
MZT1	PCNT	psi-mi:“MI:0914”(association)	0.530
SIGLEC12	HSPA5	psi-mi:“MI:0914”(association)	0.530
TXNDC12	TUBG1	psi-mi:“MI:0914”(association)	0.530
VSIG4	TCAF2	psi-mi:“MI:0914”(association)	0.530
PDCD1	RTL8C	psi-mi:“MI:0914”(association)	0.530
LYPD6	PLXNB2	psi-mi:“MI:0914”(association)	0.530
FBXW11	AHCYL1	psi-mi:“MI:0914”(association)	0.530

BioGRID (316): TUBGCP3 (Affinity Capture-RNA), TUBGCP3 (Affinity Capture-RNA), TUBGCP3 (Affinity Capture-RNA), TUBGCP3 (Affinity Capture-MS), TUBGCP3 (Affinity Capture-MS), TUBGCP3 (Affinity Capture-MS), ANXA13 (Affinity Capture-MS), TUBGCP3 (Affinity Capture-MS), TUBGCP3 (Affinity Capture-MS), TUBGCP2 (Co-fractionation), TUBGCP3 (Affinity Capture-MS), TUBGCP3 (Proximity Label-MS), TUBGCP3 (Affinity Capture-MS), TUBGCP3 (Affinity Capture-MS), TUBGCP3 (Affinity Capture-MS)

ESM2 similar proteins: A4FV29, D3ZS28, F1RCP1, O43513, O73787, O88597, P42225, P58854, Q05AA6, Q13474, Q14457, Q15650, Q2F7Z4, Q3B8I4, Q3T123, Q3U1T3, Q498D5, Q4A1L3, Q4A1L4, Q4A1L5, Q4R914, Q5BJ48, Q5PSV4, Q5R878, Q5ZJK1, Q5ZKS6, Q62698, Q62739, Q62769, Q64701, Q68CZ1, Q6DGZ3, Q6GP52, Q6WKZ8, Q7ZU92, Q7ZV35, Q80V94, Q8CG73, Q8IZC4, Q8QFR2

Diamond homologs: O73787, P58854, Q95ZG4, Q96CW5, Q9FG37, Q9USQ2, Q9XYP8

SIGNOR signaling

1 interactions.

A	Effect	B	Mechanism
TUBGCP3	“form complex”	“g-TuRC complex”	binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 175 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
Recruitment of mitotic centrosome proteins and complexes	13	16.8×	4e-10
Centrosome maturation	6	14.5×	3e-04
Recruitment of NuMA to mitotic centrosomes	13	14.4×	1e-09
AURKA Activation by TPX2	7	10.2×	4e-04
Regulation of PLK1 Activity at G2/M Transition	8	9.7×	2e-04
Loss of Nlp from mitotic centrosomes	6	9.1×	2e-03
Loss of proteins required for interphase microtubule organization from the centrosome	6	9.1×	2e-03
Mitotic G2-G2/M phases	6	7.2×	7e-03

GO biological processes:

GO term	Partners	Fold	FDR
microtubule nucleation	8	34.4×	4e-08
positive regulation of telomere maintenance	5	17.6×	3e-03
spindle assembly	5	15.3×	3e-03
cytoplasmic microtubule organization	6	14.2×	2e-03
mitotic cell cycle	8	7.4×	3e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	97
Likely benign	7
Benign	1

Top pathogenic / likely-pathogenic (0)

SpliceAI

4883 predictions. Top by Δscore:

Variant	Effect	Δscore
13:112487253:T:TA	donor_gain	1.0000
13:112499181:AGTGC:A	acceptor_gain	1.0000
13:112499183:TGC:T	acceptor_gain	1.0000
13:112499184:GCCT:G	acceptor_loss	1.0000
13:112499186:C:CC	acceptor_gain	1.0000
13:112504026:TCTTA:T	donor_loss	1.0000
13:112504027:CTTA:C	donor_loss	1.0000
13:112504028:TTA:T	donor_loss	1.0000
13:112504029:T:TG	donor_loss	1.0000
13:112504030:A:AC	donor_gain	1.0000
13:112504030:A:AT	donor_loss	1.0000
13:112504030:AC:A	donor_gain	1.0000
13:112504031:C:A	donor_loss	1.0000
13:112504031:C:CC	donor_gain	1.0000
13:112504031:CC:C	donor_gain	1.0000
13:112504161:CAC:C	acceptor_gain	1.0000
13:112504162:AC:A	acceptor_gain	1.0000
13:112504162:ACC:A	acceptor_loss	1.0000
13:112504163:CC:C	acceptor_gain	1.0000
13:112504163:CCTGG:C	acceptor_loss	1.0000
13:112504164:C:CC	acceptor_gain	1.0000
13:112504164:CT:C	acceptor_loss	1.0000
13:112504165:T:G	acceptor_loss	1.0000
13:112507669:T:TA	donor_gain	1.0000
13:112516576:CTG:C	acceptor_loss	1.0000
13:112516577:T:C	acceptor_loss	1.0000
13:112518973:A:AC	donor_gain	1.0000
13:112518974:C:CC	donor_gain	1.0000
13:112518974:CA:C	donor_gain	1.0000
13:112518974:CAG:C	donor_gain	1.0000

AlphaMissense

5946 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
13:112516524:A:G	W668R	1.000
13:112516524:A:T	W668R	1.000
13:112519022:A:G	W635R	1.000
13:112519022:A:T	W635R	1.000
13:112519024:C:T	G634E	1.000
13:112519956:G:T	A604D	1.000
13:112520013:A:G	L585P	1.000
13:112527037:C:T	G487E	1.000
13:112527440:C:A	W460C	1.000
13:112527440:C:G	W460C	1.000
13:112527442:A:G	W460R	1.000
13:112527442:A:T	W460R	1.000
13:112545713:C:G	D441H	1.000
13:112545737:A:G	W433R	1.000
13:112545737:A:T	W433R	1.000
13:112547688:A:G	L367P	1.000
13:112554130:C:T	G298E	1.000
13:112504138:A:G	L734P	0.999
13:112516511:C:G	R672P	0.999
13:112516534:A:C	F664L	0.999
13:112516534:A:T	F664L	0.999
13:112516536:A:G	F664L	0.999
13:112519001:A:C	Y642D	0.999
13:112519001:A:G	Y642H	0.999
13:112519006:A:G	L640P	0.999
13:112519006:A:T	L640H	0.999
13:112519008:G:C	S639R	0.999
13:112519008:G:T	S639R	0.999
13:112519010:T:G	S639R	0.999
13:112519011:G:C	F638L	0.999

dbSNP variants (sampled 300 via entrez): RS1000005414 (13:112560237 C>A,T), RS1000025970 (13:112535281 T>C), RS1000036519 (13:112559917 T>G), RS1000037656 (13:112601892 G>A), RS1000040743 (13:112567675 A>G), RS1000050745 (13:112522014 A>C,G), RS1000064215 (13:112607270 G>A), RS1000144822 (13:112562210 C>T), RS1000184384 (13:112599183 G>A), RS1000206504 (13:112584874 G>C), RS1000210857 (13:112602624 A>G), RS1000221436 (13:112556342 A>G), RS1000231731 (13:112515114 C>T), RS1000234766 (13:112578301 T>G), RS1000239418 (13:112585217 A>G)

Disease associations

OMIM: gene MIM:617818 | 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
GCST000803_11	Glycated hemoglobin levels	5.000000e-09

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0004541	HbA1c measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5724683 (SINGLE PROTEIN)

Molecules with ChEMBL bioactivity

1 molecules (phase ≥1), by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 1,538 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

Molecule	Name	Phase	Patents
CHEMBL1232461	MOLIBRESIB	2	1,538

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

ChEMBL bioactivities

3 potent at pChembl≥5 of 5 total, top 3 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChembl	Type	Value	Unit	Molecule
8.76	Kd	1.734	nM	CHEMBL5653589
8.76	ED50	1.734	nM	CHEMBL5653589
6.33	IC50	470	nM	MOLIBRESIB

PubChem BioAssay actives

2 with measured affinity, of 10 total; 2 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	2149686: Binding affinity to human TUBGCP3 incubated for 45 mins by Kinobead based pull down assay	kd	0.0017	uM
2-[(4S)-6-(4-chlorophenyl)-8-methoxy-1-methyl-4H-[1,2,4]triazolo[4,3-a][1,4]benzodiazepin-4-yl]-N-ethylacetamide	2178937: Inhibition of TUBGCP3 (unknown origin) incubated for 1 hr by colloidal coomassie staining based LC-MS/MS analysis	ic50	0.4700	uM

CTD chemical–gene interactions

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

Chemical	Actions (top 5)	PubMed papers
Benzo(a)pyrene	affects methylation, decreases expression	2
Phenylmercuric Acetate	affects cotreatment, decreases expression	2
Tetrachlorodibenzodioxin	affects expression, decreases expression, decreases reaction	2
Valproic Acid	affects cotreatment, decreases expression	2
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide	decreases expression	2
aristolochic acid I	decreases expression	1
TAK-243	increases sumoylation	1
ginger extract	affects expression, increases abundance, affects cotreatment	1
methylmercuric chloride	decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	affects cotreatment, affects expression, increases abundance	1
trichostatin A	affects expression	1
arsenite	affects binding, decreases reaction	1
mono-(2-ethylhexyl)phthalate	increases abundance, increases methylation	1
tris(1,3-dichloro-2-propyl)phosphate	decreases expression	1
sodium arsenite	decreases expression	1
benzo(e)pyrene	decreases methylation	1
aflatoxin B2	decreases methylation	1
avobenzone	increases expression	1
CGP 52608	affects binding, increases reaction	1
2-palmitoylglycerol	increases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	affects cotreatment, decreases expression	1
dimethylarsinous acid	increases expression	1
clothianidin	increases expression	1
abrine	decreases expression	1
dorsomorphin	affects cotreatment, decreases expression	1
Resveratrol	affects cotreatment, increases expression	1
Sunitinib	increases expression	1
Acetaminophen	decreases expression	1
Acetylglucosamine	decreases expression	1

ChEMBL screening assays

7 unique, capped per target: 7 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL5652728	Binding	Binding affinity to human TUBGCP3 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

Clinical trials (associated diseases)

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