TRIM64

Summary

TRIM64 (tripartite motif containing 64, HGNC:14663) is a protein-coding gene on chromosome 11q14.3, encoding Tripartite motif-containing protein 64 (A6NGJ6).

Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in innate immune response and regulation of gene expression. Predicted to be active in cytoplasm.

Source: NCBI Gene 120146 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 29 total
• MANE Select transcript: NM_001136486

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:14663
Approved symbol	TRIM64
Name	tripartite motif containing 64
Location	11q14.3
Locus type	gene with protein product
Status	Approved
Aliases	TRIM64A
Ensembl gene	ENSG00000204450
Ensembl biotype	protein_coding
Entrez	120146

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000533122

RefSeq mRNA: 1 — MANE Select: NM_001136486 NM_001136486

CCDS: CCDS73363

Canonical transcript exons

ENST00000533122 — 7 exons

Exon	Start	End
ENSE00002443159	89968500	89968911
ENSE00002510734	89973396	89974072
ENSE00003571658	89969450	89969545
ENSE00003601927	89972197	89972294
ENSE00003611190	89971233	89971255
ENSE00003631602	89970244	89970474
ENSE00003967103	89966037	89966152

Expression profiles

Bgee: expression breadth tissue_specific, 3 present calls, max score 46.57.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
placenta	UBERON:0001987	46.57	gold quality
cortical plate	UBERON:0005343	40.27	gold quality
ganglionic eminence	UBERON:0004023	37.62	silver quality
colonic epithelium	UBERON:0000397	37.20	gold quality
sural nerve	UBERON:0015488	37.18	gold quality
ventricular zone	UBERON:0003053	36.48	gold quality
bone marrow cell	CL:0002092	36.16	gold quality
skeletal muscle tissue	UBERON:0001134	35.22	gold quality
bone marrow	UBERON:0002371	33.10	gold quality
muscle tissue	UBERON:0002385	32.41	gold quality
hindlimb stylopod muscle	UBERON:0004252	32.15	gold quality
superior frontal gyrus	UBERON:0002661	30.58	gold quality
prefrontal cortex	UBERON:0000451	30.37	gold quality
stromal cell of endometrium	CL:0002255	29.87	gold quality
liver	UBERON:0002107	28.76	gold quality
duodenum	UBERON:0002114	28.14	gold quality
lymph node	UBERON:0000029	27.57	gold quality
tonsil	UBERON:0002372	27.05	gold quality
leukocyte	CL:0000738	26.86	gold quality
monocyte	CL:0000576	26.79	gold quality
islet of Langerhans	UBERON:0000006	26.55	gold quality
vermiform appendix	UBERON:0001154	26.42	gold quality
gall bladder	UBERON:0002110	25.98	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	25.89	gold quality
urinary bladder	UBERON:0001255	25.72	gold quality
frontal cortex	UBERON:0001870	25.43	gold quality
muscle of leg	UBERON:0001383	25.06	gold quality
primary visual cortex	UBERON:0002436	24.61	gold quality
pancreas	UBERON:0001264	24.12	gold quality
gastrocnemius	UBERON:0001388	23.88	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.35

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

18 targeting TRIM64, 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-181A-5P	99.99	72.96	2995
HSA-MIR-181B-5P	99.99	72.97	2996
HSA-MIR-181C-5P	99.99	72.95	2996
HSA-MIR-181D-5P	99.99	73.04	2997
HSA-MIR-4789-3P	99.99	70.75	2484
HSA-MIR-551B-5P	99.96	71.28	3493
HSA-MIR-548AV-5P	99.60	70.84	2107
HSA-MIR-548K	99.60	70.84	2107
HSA-MIR-4761-5P	99.51	66.69	804
HSA-MIR-8054	99.48	70.81	2084
HSA-MIR-6799-5P	99.14	65.72	2093
HSA-MIR-4774-3P	98.90	67.82	737
HSA-MIR-5581-3P	98.55	70.31	1161
HSA-MIR-299-3P	97.73	66.67	773
HSA-MIR-4670-3P	97.37	68.35	1378
HSA-MIR-3152-5P	96.98	66.88	819
HSA-MIR-136-3P	93.27	66.31	131

Cross-species orthologs

0 orthologs

Paralogs (80): MID2 (ENSG00000080561), TRIM9 (ENSG00000100505), MID1 (ENSG00000101871), MEFV (ENSG00000103313), TRIM35 (ENSG00000104228), TRIM14 (ENSG00000106785), TRIM37 (ENSG00000108395), TRIM2 (ENSG00000109654), TRIM3 (ENSG00000110171), TRIM38 (ENSG00000112343), TRIM62 (ENSG00000116525), TRIM67 (ENSG00000119283), TRIM32 (ENSG00000119401), BSPRY (ENSG00000119411), TRIM25 (ENSG00000121060), TRIM6 (ENSG00000121236), TRIM24 (ENSG00000122779), TRIM51 (ENSG00000124900), TRIM28 (ENSG00000130726), TRIM21 (ENSG00000132109), TRIM5 (ENSG00000132256), TRIM22 (ENSG00000132274), TRIM47 (ENSG00000132481), TRIM45 (ENSG00000134253), TRIM29 (ENSG00000137699), TRIM54 (ENSG00000138100), PML (ENSG00000140464), TRIM65 (ENSG00000141569), TRIM43B (ENSG00000144010), TRIM43 (ENSG00000144015), TRIM7 (ENSG00000146054), TRIM41 (ENSG00000146063), TRIM50 (ENSG00000146755), TRIM4 (ENSG00000146833), TRIM55 (ENSG00000147573), TRIM48 (ENSG00000150244), TRIM36 (ENSG00000152503), TRIM11 (ENSG00000154370), TRIM74 (ENSG00000155428), TRIM42 (ENSG00000155890)

Protein

Protein identifiers

Tripartite motif-containing protein 64 — A6NGJ6 (reviewed: A6NGJ6)

All UniProt accessions (1): A6NGJ6

UniProt curated annotations — full annotation on UniProt →

Similarity. Belongs to the TRIM/RBCC family.

RefSeq proteins (1): NP_001129958* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000315	Znf_B-box	Domain
IPR001841	Znf_RING	Domain
IPR001870	B30.2/SPRY	Domain
IPR003877	SPRY_dom	Domain
IPR003879	Butyrophylin_SPRY	Domain
IPR013083	Znf_RING/FYVE/PHD	Homologous_superfamily
IPR013320	ConA-like_dom_sf	Homologous_superfamily
IPR017907	Znf_RING_CS	Conserved_site
IPR018957	Znf_C3HC4_RING-type	Domain
IPR043136	B30.2/SPRY_sf	Homologous_superfamily
IPR050143	TRIM/RBCC	Family

Pfam: PF00097, PF00622, PF00643

UniProt features (9 total): binding site 4, zinc finger region 2, chain 1, domain 1, coiled-coil region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A6NGJ6-F1	86.23	0.55

Functional residue map

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

Ligand- & substrate-binding residues (4): 92; 95; 114; 120

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 8 (showing top): GOBP_DEFENSE_RESPONSE_TO_OTHER_ORGANISM, GOMF_ACYLTRANSFERASE_ACTIVITY, GOMF_AMINOACYLTRANSFERASE_ACTIVITY, GOMF_UBIQUITIN_LIKE_PROTEIN_LIGASE_ACTIVITY, ZWANG_TRANSIENTLY_UP_BY_2ND_EGF_PULSE_ONLY, MIR3152_5P, chr11q14, GOBP_BIOLOGICAL_PROCESS_INVOLVED_IN_INTERSPECIES_INTERACTION_BETWEEN_ORGANISMS

GO Biological Process (2): regulation of gene expression (GO:0010468), innate immune response (GO:0045087)

GO Molecular Function (4): zinc ion binding (GO:0008270), ubiquitin protein ligase activity (GO:0061630), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (1): cytoplasm (GO:0005737)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
gene expression	1
regulation of macromolecule biosynthetic process	1
immune response	1
defense response to symbiont	1
transition metal ion binding	1
ubiquitin-protein transferase activity	1
ubiquitin-like protein ligase activity	1
binding	1
cation binding	1
intracellular anatomical structure	1
cellular anatomical structure	1

Protein interactions and networks

STRING

182 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TRIM64	NAALAD2	Q9Y3Q0	485
TRIM64	TRIM42	Q8IWZ5	460
TRIM64	SPAG11A	Q6PDA7	430
TRIM64	A0A0G2JN59	A0A0G2JN59	348
TRIM64	TRIM55	Q9BYV6	292
TRIM64	APOBEC4	Q8WW27	290
TRIM64	TRAT1	Q6PIZ9	287
TRIM64	BBOX1	O75936	280
TRIM64	FOLH1	Q04609	271
TRIM64	CMYA5	Q8N3K9	270
TRIM64	PRY	O14603	269
TRIM64	TRIM54	Q9BYV2	268
TRIM64	NSUN4	Q96CB9	266
TRIM64	MYO3A	Q8NEV4	261
TRIM64	ACBD7	Q8N6N7	252

IntAct

0 interactions, top by confidence:

BioGRID (11): NFKBIA (Affinity Capture-MS), RRBP1 (Affinity Capture-MS), NOP2 (Affinity Capture-MS), RSL1D1 (Affinity Capture-MS), LMNA (Affinity Capture-MS), ACTN4 (Affinity Capture-MS), NOP56 (Affinity Capture-MS), FLNA (Affinity Capture-MS), HSP90B1 (Affinity Capture-MS), NFKBIA (Affinity Capture-Western), TRIM64 (Affinity Capture-Western)

ESM2 similar proteins: A0A3B3IT33, A6NCK2, A6NDI0, A6NGJ6, A6NI03, A6NLI5, C9J1S8, I1YAP6, K7N6K2, P0CI25, P0CI26, P15533, Q0PF16, Q1ACD5, Q1ACD6, Q1ACD7, Q1ACD8, Q2YEM8, Q2YEM9, Q2YEN0, Q2YEN2, Q3ZEE5, Q587N6, Q587N7, Q5BN31, Q5C8T6, Q5C8T8, Q5C8U1, Q5C8U3, Q5C8U4, Q5D7H7, Q5D7H8, Q5D7I0, Q5D7I1, Q5D7I2, Q5D7I3, Q5D7I5, Q5D7I6, Q5D7I9, Q5D7J0

Diamond homologs: A0A3B3IT33, A6NCK2, A6NDI0, A6NGJ6, A6NI03, A6NLI5, B0BLU1, C9J1S8, I1YAP6, O00478, O00481, O15344, O75677, O75678, O75679, O76064, P0CI25, P0CI26, P18892, P19474, P62603, P86448, P86449, Q13410, Q2HJ46, Q3C1V9, Q3TL54, Q4KLN8, Q5EBN2, Q5PQN2, Q5R4I2, Q5R996, Q61510, Q62556, Q6INS5, Q6MFY8, Q6UX41, Q6UXE8, Q6ZWI9, Q7T308

SIGNOR signaling

1 interactions.

A	Effect	B	Mechanism
Ub:E2	“up-regulates activity”	TRIM64	ubiquitination

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	26
Likely benign	3
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

443 predictions. Top by Δscore:

Variant	Effect	Δscore
11:89969444:TTGCA:T	acceptor_loss	1.0000
11:89969445:TGCAG:T	acceptor_loss	1.0000
11:89969446:GCA:G	acceptor_loss	1.0000
11:89969448:A:AG	acceptor_gain	1.0000
11:89969448:A:C	acceptor_loss	1.0000
11:89969448:AG:A	acceptor_gain	1.0000
11:89969449:G:GT	acceptor_gain	1.0000
11:89969449:GG:G	acceptor_gain	1.0000
11:89969449:GGA:G	acceptor_gain	1.0000
11:89969449:GGAGA:G	acceptor_gain	1.0000
11:89969544:AGGTA:A	donor_loss	1.0000
11:89969545:GGTAA:G	donor_loss	1.0000
11:89969546:G:GG	donor_gain	1.0000
11:89969546:GTAAG:G	donor_loss	1.0000
11:89972192:TGCA:T	acceptor_loss	1.0000
11:89972193:GCA:G	acceptor_loss	1.0000
11:89972194:CA:C	acceptor_loss	1.0000
11:89972195:A:AG	acceptor_gain	1.0000
11:89972195:A:AT	acceptor_loss	1.0000
11:89972195:AG:A	acceptor_gain	1.0000
11:89972196:G:GT	acceptor_gain	1.0000
11:89972196:GG:G	acceptor_gain	1.0000
11:89972196:GGA:G	acceptor_gain	1.0000
11:89972196:GGAC:G	acceptor_gain	1.0000
11:89972196:GGACT:G	acceptor_gain	1.0000
11:89972292:GAG:G	donor_gain	1.0000
11:89972292:GAGGT:G	donor_loss	1.0000
11:89972293:AGGTA:A	donor_loss	1.0000
11:89972294:GGT:G	donor_loss	1.0000
11:89972295:GT:G	donor_loss	1.0000

AlphaMissense

3003 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
11:89973794:T:C	F419L	0.964
11:89973796:T:A	F419L	0.964
11:89973796:T:G	F419L	0.964
11:89973593:T:A	W352R	0.959
11:89973593:T:C	W352R	0.959
11:89973565:G:C	W342C	0.956
11:89973565:G:T	W342C	0.956
11:89973563:T:A	W342R	0.950
11:89973563:T:C	W342R	0.950
11:89968807:T:C	F102L	0.945
11:89968809:C:A	F102L	0.945
11:89968809:C:G	F102L	0.945
11:89973764:T:C	F409L	0.938
11:89973766:T:A	F409L	0.938
11:89973766:T:G	F409L	0.938
11:89968603:T:C	F34L	0.932
11:89968605:T:A	F34L	0.932
11:89968605:T:G	F34L	0.932
11:89972288:T:C	F284L	0.931
11:89972290:C:A	F284L	0.931
11:89972290:C:G	F284L	0.931
11:89973542:T:C	F335L	0.921
11:89973544:C:A	F335L	0.921
11:89973544:C:G	F335L	0.921
11:89973758:G:T	G407W	0.919
11:89973759:G:A	G407E	0.913
11:89973830:T:C	F431L	0.909
11:89973832:T:A	F431L	0.909
11:89973832:T:G	F431L	0.909
11:89973866:T:C	F443L	0.908

dbSNP variants (sampled 300 via entrez): RS1002841791 (11:89964573 A>G), RS1008040946 (11:89972737 A>G), RS1008407596 (11:89968540 C>G), RS1012183015 (11:89965113 T>C), RS1016888332 (11:89965204 A>G), RS1017977978 (11:89972920 G>T), RS1018008779 (11:89968906 T>C), RS1021264718 (11:89973661 A>AT), RS1021825042 (11:89970261 G>T), RS1025381851 (11:89965950 T>C), RS1025904202 (11:89967789 T>TC), RS1035968680 (11:89974249 A>G), RS1037711136 (11:89972047 GC>G), RS1038290158 (11:89967410 G>T), RS1042313199 (11:89966203 C>A)

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

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

2 total (human), top 2 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
CGP 52608	increases reaction, affects binding	1
Valproic Acid	decreases methylation	1

Clinical trials (associated diseases)

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