RTP1

Summary

RTP1 (receptor transporter protein 1, HGNC:28580) is a protein-coding gene on chromosome 3q27.3, encoding Receptor-transporting protein 1 (P59025). Specifically promotes functional cell surface expression of olfactory receptors, but not of other GPCRs.

Enables olfactory receptor binding activity. Involved in protein insertion into membrane. Located in cell surface.

Source: NCBI Gene 132112 — RefSeq curated summary.

At a glance

• MANE Select transcript: NM_153708

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28580
Approved symbol	RTP1
Name	receptor transporter protein 1
Location	3q27.3
Locus type	gene with protein product
Status	Approved
Aliases	MGC35450, Z3CXXC1
Ensembl gene	ENSG00000175077
Ensembl biotype	protein_coding
OMIM	609137
Entrez	132112

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000312295

RefSeq mRNA: 1 — MANE Select: NM_153708 NM_153708

CCDS: CCDS3287

Canonical transcript exons

ENST00000312295 — 2 exons

Exon	Start	End
ENSE00001211466	187197486	187197787
ENSE00001215346	187199551	187201462

Expression profiles

Bgee: expression breadth broad, 62 present calls, max score 74.56.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
oocyte	CL:0000023	74.56	silver quality
secondary oocyte	CL:0000655	73.03	gold quality
prefrontal cortex	UBERON:0000451	68.13	gold quality
buccal mucosa cell	CL:0002336	65.47	gold quality
frontal cortex	UBERON:0001870	64.11	gold quality
Brodmann (1909) area 9	UBERON:0013540	63.92	gold quality
right frontal lobe	UBERON:0002810	62.93	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	62.29	gold quality
vena cava	UBERON:0004087	62.28	gold quality
neocortex	UBERON:0001950	61.55	gold quality
skeletal muscle tissue of rectus abdominis	UBERON:0004511	61.02	gold quality
ventricular zone	UBERON:0003053	59.20	gold quality
superior frontal gyrus	UBERON:0002661	58.85	gold quality
cerebral cortex	UBERON:0000956	58.82	gold quality
mammary duct	UBERON:0001765	58.21	gold quality
hypothalamus	UBERON:0001898	57.93	gold quality
sperm	CL:0000019	57.43	gold quality
anterior cingulate cortex	UBERON:0009835	56.84	gold quality
dorsal plus ventral thalamus	UBERON:0001897	54.71	gold quality
lower lobe of lung	UBERON:0008949	54.62	silver quality
subthalamic nucleus	UBERON:0001906	54.53	gold quality
Brodmann (1909) area 23	UBERON:0013554	54.44	silver quality
saphenous vein	UBERON:0007318	54.09	gold quality
cardia of stomach	UBERON:0001162	53.91	gold quality
ventral tegmental area	UBERON:0002691	53.68	gold quality
pericardium	UBERON:0002407	53.49	gold quality
pylorus	UBERON:0001166	53.42	gold quality
trachea	UBERON:0003126	53.37	gold quality
thymus	UBERON:0002370	53.29	gold quality
dorsal root ganglion	UBERON:0000044	53.27	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.81

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

54 targeting RTP1, 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-4482-3P	99.98	72.50	3147
HSA-MIR-3148	99.97	75.06	6478
HSA-MIR-3688-3P	99.97	72.02	2834
HSA-MIR-6778-3P	99.96	67.29	2693
HSA-MIR-559	99.95	72.28	3609
HSA-MIR-545-3P	99.95	70.74	2783
HSA-MIR-548AQ-5P	99.94	71.34	3426
HSA-MIR-548Y	99.94	71.28	3514
HSA-MIR-609	99.82	64.26	505
HSA-MIR-320A-3P	99.77	69.73	2107
HSA-MIR-320B	99.77	69.73	2107
HSA-MIR-320C	99.77	69.73	2107
HSA-MIR-320D	99.77	69.73	2107
HSA-MIR-4429	99.77	69.62	2111
HSA-MIR-4319	99.76	69.83	2586
HSA-MIR-1251-3P	99.64	67.21	1408
HSA-MIR-2113	99.58	71.22	1521
HSA-MIR-4325	99.49	72.20	1342
HSA-MIR-548G-3P	99.48	68.67	2159
HSA-MIR-150-3P	99.43	70.51	920
HSA-MIR-4251	99.40	69.19	3363
HSA-MIR-4318	99.38	66.94	1505
HSA-MIR-5683	99.36	68.59	2083
HSA-MIR-125A-5P	99.36	70.59	1640
HSA-MIR-125B-5P	99.36	70.36	1662
HSA-MIR-532-3P	99.34	65.76	1195
HSA-MIR-4784	99.15	67.41	1733
HSA-MIR-3150B-3P	98.81	67.21	1728
HSA-MIR-583	98.71	67.44	1791
HSA-MIR-423-5P	98.69	67.48	1522

Literature-anchored findings (GeneRIF, showing 5)

• RTP and REEP gene expression in human circumvallate papillae and testis, both of which are sites of taste receptor gene expression. (PMID:16720576)
• Receptor-transporting protein 1 short (RTP1S) mediates translocation and activation of odorant receptors by acting through multiple steps (PMID:22570474)
• Taken together, these results demonstrate DYNC1H1 as a strong candidate and RTP1 as a potential candidate on the onset of epileptic encephalopathies. (PMID:28325891)
• further cell-surface and permeabilized immunocytochemical studies revealed that odorant receptors (ORs) and the co-expressed RTP1S proteins were retained in the Golgi when co-transfected with RTP2, indicating that RTP1S and RTP2 could play different roles in the OR trafficking process. (PMID:28586385)
• using recombinant proteins and split luciferase assays in mammalian cells, we provided evidence for the dimer formation of RTP1S. Furthermore, we determined that the 2nd Cys residue is required for the efficient dimerization of RTP1S. Altogether, these findings provide insights into the mechanism for plasma membrane transport of odorant receptors (ORs) by RTP1S. (PMID:31395660)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Rtp1	ENSMUSG00000033383
rattus_norvegicus	Rtp1	ENSRNOG00000021992

Paralogs (4): RTP4 (ENSG00000136514), RTP3 (ENSG00000163825), RTP5 (ENSG00000188011), RTP2 (ENSG00000198471)

Protein

Protein identifiers

Receptor-transporting protein 1 — P59025 (reviewed: P59025)

Alternative names: 3CxxC-type zinc finger protein 1

All UniProt accessions (1): P59025

UniProt curated annotations — full annotation on UniProt →

Function. Specifically promotes functional cell surface expression of olfactory receptors, but not of other GPCRs.

Subunit / interactions. Interacts with olfactory receptors.

Subcellular location. Cell membrane.

Tissue specificity. Expressed in testis.

Similarity. Belongs to the TMEM7 family.

RefSeq proteins (1): NP_714919* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR026096	R-trans_p	Family
IPR027377	ZAR1/RTP1-5-like_Znf-3CxxC	Domain

Pfam: PF13695

UniProt features (8 total): sequence variant 3, topological domain 2, chain 1, transmembrane region 1, zinc finger region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-P59025-F1	75.89	0.45

Function

Pathways and Gene Ontology

Reactome pathways

3 pathways

ID	Pathway
R-HSA-9752946	Expression and translocation of olfactory receptors
R-HSA-381753	Olfactory Signaling Pathway
R-HSA-9709957	Sensory Perception

MSigDB gene sets: 62 (showing top): GCANCTGNY_MYOD_Q6, GOBP_PROTEIN_TARGETING, GOCC_CELL_SURFACE, GOBP_SENSORY_PERCEPTION_OF_CHEMICAL_STIMULUS, GOBP_PROTEIN_TARGETING_TO_MEMBRANE, MYOD_01, GOBP_DETECTION_OF_CHEMICAL_STIMULUS_INVOLVED_IN_SENSORY_PERCEPTION_OF_TASTE, GOBP_SENSORY_PERCEPTION_OF_TASTE, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_MEMBRANE, GOBP_DETECTION_OF_STIMULUS, GOBP_SENSORY_PERCEPTION, GOMF_G_PROTEIN_COUPLED_RECEPTOR_BINDING, RFX1_02, GOBP_MEMBRANE_ORGANIZATION, GOMF_SIGNALING_RECEPTOR_BINDING

GO Biological Process (3): detection of chemical stimulus involved in sensory perception of bitter taste (GO:0001580), protein targeting to membrane (GO:0006612), protein insertion into membrane (GO:0051205)

GO Molecular Function (3): zinc ion binding (GO:0008270), olfactory receptor binding (GO:0031849), metal ion binding (GO:0046872)

GO Cellular Component (3): plasma membrane (GO:0005886), cell surface (GO:0009986), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-2 pathways:

Category	Pathways
Olfactory Signaling Pathway	1
Sensory Perception	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
establishment of protein localization to membrane	2
cellular anatomical structure	2
detection of chemical stimulus involved in sensory perception of taste	1
sensory perception of bitter taste	1
protein targeting	1
intracellular protein localization	1
membrane organization	1
transition metal ion binding	1
G protein-coupled receptor binding	1
cation binding	1
membrane	1
cell periphery	1

Protein interactions and networks

STRING

712 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
RTP1	REEP1	Q9H902	959
RTP1	CNGA2	Q16280	674
RTP1	RIC8B	Q9NVN3	665
RTP1	CNGA4	Q8IV77	595
RTP1	GNG13	Q9P2W3	541
RTP1	ADCY3	O60266	515
RTP1	ATL3	Q6DD88	491
RTP1	ATL2	Q8NHH9	491
RTP1	RABIF	P47224	487
RTP1	ODR4	Q5SWX8	479
RTP1	OMP	P47874	454
RTP1	OR5AN1	Q8NGI8	453
RTP1	ANO2	Q9NQ90	451
RTP1	OR1G1	P47890	443
RTP1	GNG3	P29798	442

IntAct

3 interactions, top by confidence:

A	B	Type	Score
RTP1	B4GALT6	psi-mi:“MI:0915”(physical association)	0.400
ANK2	IGKV2-40	psi-mi:“MI:0914”(association)	0.350

BioGRID (2): B4GALT6 (Affinity Capture-MS), RTP1 (Affinity Capture-MS)

ESM2 similar proteins: A0A8M9QN10, A1BPI0, A2ARM1, A2CI97, A2CI98, A2CJ06, C9JE40, O15055, O43147, O54943, O70173, O70303, O70361, O95238, P0C2N6, P0C6P5, P56645, P59025, P59729, P97433, Q0P4K8, Q3TD16, Q5EB20, Q5PQS0, Q5SSZ5, Q5VUB5, Q6IRN0, Q6P4K6, Q76I79, Q7TSI1, Q80TQ5, Q80UW3, Q810F8, Q8C8C1, Q8CCC3, Q8CJE2, Q8N1W1, Q8ND61, Q8TB24, Q8WWF5

Diamond homologs: P59025, Q5QGT7, Q5QGU6, Q80ZI2, Q8C8C1, Q95JK0, Q96DX8, Q14D33, Q9ER80, Q9BQQ7

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

97 predictions. Top by Δscore:

Variant	Effect	Δscore
3:187197784:GCAG:G	donor_gain	1.0000
3:187197786:AGG:A	donor_loss	1.0000
3:187197787:GGTG:G	donor_loss	1.0000
3:187197788:G:A	donor_loss	1.0000
3:187197788:G:GG	donor_gain	1.0000
3:187197783:GGCAG:G	donor_gain	0.9900
3:187197784:GCAGG:G	donor_gain	0.9900
3:187197785:C:T	donor_gain	0.9900
3:187197785:CAG:C	donor_gain	0.9900
3:187197786:AG:A	donor_gain	0.9900
3:187197787:GG:G	donor_gain	0.9900
3:187197789:T:A	donor_loss	0.9900
3:187199547:GCA:G	acceptor_loss	0.9900
3:187199548:CAG:C	acceptor_loss	0.9900
3:187199549:A:AG	acceptor_gain	0.9900
3:187199549:A:C	acceptor_loss	0.9900
3:187199550:G:GG	acceptor_gain	0.9900
3:187199540:C:CA	acceptor_gain	0.9800
3:187199549:AG:A	acceptor_gain	0.9800
3:187199550:GG:G	acceptor_gain	0.9800
3:187199550:GGTTC:G	acceptor_gain	0.9800
3:187197786:AGGTG:A	donor_gain	0.9700
3:187199550:GGTT:G	acceptor_gain	0.9700
3:187199550:GGT:G	acceptor_gain	0.9600
3:187197752:TTGG:T	donor_gain	0.9500
3:187199546:C:CA	acceptor_gain	0.9300
3:187199540:C:A	acceptor_loss	0.8900
3:187198926:G:GT	donor_gain	0.8600
3:187198899:C:T	donor_gain	0.8400
3:187197755:G:GT	donor_gain	0.8300

AlphaMissense

1726 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
3:187197702:T:A	W63R	0.998
3:187197702:T:C	W63R	0.998
3:187197704:G:C	W63C	0.998
3:187197704:G:T	W63C	0.998
3:187199552:T:C	F92L	0.998
3:187199554:C:A	F92L	0.998
3:187199554:C:G	F92L	0.998
3:187199606:T:C	F110L	0.998
3:187199608:C:A	F110L	0.998
3:187199608:C:G	F110L	0.998
3:187197651:T:A	W46R	0.997
3:187197651:T:C	W46R	0.997
3:187197653:G:C	W46C	0.997
3:187197653:G:T	W46C	0.997
3:187197703:G:C	W63S	0.996
3:187199553:T:C	F92S	0.996
3:187199581:G:C	W101C	0.996
3:187199581:G:T	W101C	0.996
3:187199748:T:C	L157P	0.996
3:187199649:G:C	R124P	0.995
3:187199655:G:C	R126P	0.995
3:187199660:T:C	F128L	0.993
3:187199662:C:A	F128L	0.993
3:187199662:C:G	F128L	0.993
3:187197652:G:C	W46S	0.992
3:187197709:T:C	L65P	0.992
3:187199560:C:G	C94W	0.992
3:187199640:G:A	G121D	0.992
3:187197703:G:T	W63L	0.991
3:187199553:T:G	F92C	0.991

dbSNP variants (sampled 300 via entrez): RS1000231808 (3:187199293 G>A,C,T), RS1000442792 (3:187197184 A>C), RS1000808215 (3:187198128 A>G), RS1000877117 (3:187196961 T>C), RS1001172198 (3:187196073 T>C,G), RS1001738779 (3:187198873 G>A,T), RS1001852543 (3:187195820 C>A,T), RS1002912647 (3:187198794 A>T), RS1003637753 (3:187200360 T>A,C), RS1003760758 (3:187197597 T>C), RS1004773925 (3:187196192 C>G), RS1005924905 (3:187198509 C>G,T), RS1006376055 (3:187198198 T>C), RS1006741349 (3:187199280 T>TG), RS1007331334 (3:187197764 C>T)

Disease associations

OMIM: gene MIM:609137 | 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

10 total (human), top 10 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
entinostat	increases expression, affects cotreatment	2
bisphenol F	decreases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	increases expression, affects cotreatment	1
belinostat	affects cotreatment, increases expression	1
dorsomorphin	increases expression, affects cotreatment	1
Panobinostat	increases expression, affects cotreatment	1
Benzo(a)pyrene	affects methylation	1
Rotenone	decreases expression	1
Silicon Dioxide	decreases expression	1
Valproic Acid	increases methylation	1

Clinical trials (associated diseases)

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