GBF1
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Also known as KIAA0248ARF1GEF
Summary
GBF1 (golgi brefeldin A resistant guanine nucleotide exchange factor 1, HGNC:4181) is a protein-coding gene on chromosome 10q24.32, encoding Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 (Q92538). Guanine-nucleotide exchange factor (GEF) for members of the Arf family of small GTPases involved in trafficking in the early secretory pathway; its GEF activity initiates the coating of nascent vesicles via the localized generation of activated ARFs through replacement of GDP wi…. It is a common-essential gene (DepMap: required in 98.4% of cancer cell lines).
This gene encodes a member of the Sec7 domain family. The encoded protein is a guanine nucleotide exchange factor that regulates the recruitment of proteins to membranes by mediating GDP to GTP exchange. The encoded protein is localized to the Golgi apparatus and plays a role in vesicular trafficking by activating ADP ribosylation factor 1. The encoded protein has also been identified as an important host factor for viral replication. Multiple transcript variants have been observed for this gene.
Source: NCBI Gene 8729 — RefSeq curated summary.
At a glance
- Gene–disease (curated): Charcot-Marie-Tooth Disease, axonal, type 2GG (Strong, GenCC) — +1 more curated relationship
- GWAS associations: 18
- Clinical variants (ClinVar): 409 total — 2 pathogenic, 4 likely-pathogenic
- Phenotypes (HPO): 23
- Cancer dependency (DepMap): dependent in 98.4% of screened cell lines (common-essential)
- MANE Select transcript:
NM_001377137
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:4181 |
| Approved symbol | GBF1 |
| Name | golgi brefeldin A resistant guanine nucleotide exchange factor 1 |
| Location | 10q24.32 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | KIAA0248, ARF1GEF |
| Ensembl gene | ENSG00000107862 |
| Ensembl biotype | protein_coding |
| OMIM | 603698 |
| Entrez | 8729 |
Gene structure
Transcript identifiers
Ensembl transcripts: 126 — 48 protein_coding, 48 nonsense_mediated_decay, 18 protein_coding_CDS_not_defined, 12 retained_intron
ENST00000369983, ENST00000476019, ENST00000673650, ENST00000674034, ENST00000676474, ENST00000676482, ENST00000676513, ENST00000676558, ENST00000676560, ENST00000676561, ENST00000676606, ENST00000676673, ENST00000676682, ENST00000676735, ENST00000676802, ENST00000676807, ENST00000676854, ENST00000676861, ENST00000676877, ENST00000676900, ENST00000676927, ENST00000676934, ENST00000676939, ENST00000676985, ENST00000676993, ENST00000677017, ENST00000677098, ENST00000677100, ENST00000677235, ENST00000677240, ENST00000677247, ENST00000677269, ENST00000677431, ENST00000677439, ENST00000677461, ENST00000677487, ENST00000677491, ENST00000677504, ENST00000677506, ENST00000677522, ENST00000677607, ENST00000677618, ENST00000677627, ENST00000677629, ENST00000677642, ENST00000677655, ENST00000677662, ENST00000677683, ENST00000677719, ENST00000677776, ENST00000677797, ENST00000677811, ENST00000677838, ENST00000677842, ENST00000677852, ENST00000677871, ENST00000677917, ENST00000677947, ENST00000677956, ENST00000677975, ENST00000678007, ENST00000678014, ENST00000678036, ENST00000678126, ENST00000678127, ENST00000678157, ENST00000678215, ENST00000678222, ENST00000678268, ENST00000678292, ENST00000678293, ENST00000678319, ENST00000678344, ENST00000678351, ENST00000678401, ENST00000678417, ENST00000678426, ENST00000678453, ENST00000678476, ENST00000678486, ENST00000678504, ENST00000678514, ENST00000678527, ENST00000678530, ENST00000678558, ENST00000678571, ENST00000678575, ENST00000678585, ENST00000678604, ENST00000678665, ENST00000678666, ENST00000678722, ENST00000678742, ENST00000678767, ENST00000678806, ENST00000678826, ENST00000678840, ENST00000678923, ENST00000678924, ENST00000678941, ENST00000679003, ENST00000679013, ENST00000679040, ENST00000679080, ENST00000679084, ENST00000679087, ENST00000679093, ENST00000679139, ENST00000679155, ENST00000679186, ENST00000679203, ENST00000679238, ENST00000679253, ENST00000679280, ENST00000679288, ENST00000679298, ENST00000679305, ENST00000679317, ENST00000871604, ENST00000871605, ENST00000871606, ENST00000871607, ENST00000871608, ENST00000916344, ENST00000916345, ENST00000965494
RefSeq mRNA: 20 — MANE Select: NM_001377137
NM_001199378, NM_001199379, NM_001377137, NM_001377138, NM_001377139, NM_001377140, NM_001377141, NM_001391922, NM_001391923, NM_001391924, NM_001391925, NM_001391926, NM_001391927, NM_001391928, NM_001391929, NM_001391930, NM_001391931, NM_001411003, NM_001411027, NM_004193
CCDS: CCDS7533, CCDS91328, CCDS91329, CCDS91330, CCDS91331, CCDS91332, CCDS91333, CCDS91334, CCDS91335, CCDS91336
Canonical transcript exons
ENST00000369983 — 40 exons
| Exon | Start | End |
|---|---|---|
| ENSE00000722583 | 102344051 | 102344182 |
| ENSE00000722587 | 102351843 | 102351951 |
| ENSE00000722599 | 102358039 | 102358186 |
| ENSE00000722602 | 102358506 | 102358729 |
| ENSE00000722612 | 102360184 | 102360395 |
| ENSE00000722616 | 102361022 | 102361120 |
| ENSE00000722619 | 102361718 | 102361912 |
| ENSE00000722622 | 102362475 | 102362664 |
| ENSE00000722626 | 102363256 | 102363396 |
| ENSE00000722630 | 102363710 | 102363798 |
| ENSE00000722634 | 102365397 | 102365599 |
| ENSE00000722639 | 102366383 | 102366506 |
| ENSE00000722644 | 102367085 | 102367210 |
| ENSE00000722647 | 102367478 | 102367560 |
| ENSE00000722651 | 102368218 | 102368454 |
| ENSE00000722653 | 102368739 | 102368832 |
| ENSE00000722654 | 102369211 | 102369387 |
| ENSE00000722655 | 102369711 | 102369775 |
| ENSE00000722657 | 102369861 | 102369984 |
| ENSE00000722658 | 102370174 | 102370245 |
| ENSE00000722659 | 102370384 | 102370478 |
| ENSE00000722660 | 102370707 | 102370860 |
| ENSE00000722662 | 102375359 | 102375584 |
| ENSE00000722663 | 102376272 | 102376432 |
| ENSE00000722665 | 102376560 | 102376800 |
| ENSE00000722669 | 102376935 | 102377140 |
| ENSE00000722673 | 102379284 | 102379434 |
| ENSE00000722677 | 102379521 | 102379651 |
| ENSE00000722682 | 102379853 | 102379954 |
| ENSE00000722687 | 102380249 | 102380362 |
| ENSE00000722690 | 102380506 | 102380686 |
| ENSE00000722693 | 102381127 | 102381255 |
| ENSE00000811504 | 102351256 | 102351374 |
| ENSE00001026428 | 102352458 | 102352518 |
| ENSE00001100976 | 102260050 | 102260116 |
| ENSE00001136564 | 102353600 | 102353654 |
| ENSE00001451422 | 102258929 | 102259034 |
| ENSE00001451424 | 102245532 | 102245781 |
| ENSE00003904487 | 102359267 | 102359435 |
| ENSE00003936997 | 102382056 | 102382896 |
Expression profiles
Bgee: expression breadth ubiquitous, 259 present calls, max score 98.95.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 58.8629 / max 438.0609, expressed in 1823 samples.
FANTOM5 promoters (2 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 106694 | 58.6582 | 1823 |
| 106695 | 0.2047 | 64 |
Top tissues by expression
286 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| colonic epithelium | UBERON:0000397 | 98.95 | gold quality |
| ventricular zone | UBERON:0003053 | 98.17 | gold quality |
| adenohypophysis | UBERON:0002196 | 98.04 | gold quality |
| sural nerve | UBERON:0015488 | 97.76 | gold quality |
| stromal cell of endometrium | CL:0002255 | 97.54 | gold quality |
| right lobe of thyroid gland | UBERON:0001119 | 97.24 | gold quality |
| ganglionic eminence | UBERON:0004023 | 97.24 | gold quality |
| apex of heart | UBERON:0002098 | 97.17 | gold quality |
| cortical plate | UBERON:0005343 | 97.07 | gold quality |
| mucosa of transverse colon | UBERON:0004991 | 96.91 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 96.80 | gold quality |
| left lobe of thyroid gland | UBERON:0001120 | 96.69 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 96.64 | gold quality |
| pituitary gland | UBERON:0000007 | 96.52 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 96.42 | gold quality |
| adrenal tissue | UBERON:0018303 | 96.35 | gold quality |
| cerebellar cortex | UBERON:0002129 | 96.34 | gold quality |
| small intestine Peyer’s patch | UBERON:0003454 | 96.24 | gold quality |
| metanephros cortex | UBERON:0010533 | 96.14 | gold quality |
| right uterine tube | UBERON:0001302 | 96.07 | gold quality |
| right frontal lobe | UBERON:0002810 | 96.07 | gold quality |
| transverse colon | UBERON:0001157 | 96.02 | gold quality |
| granulocyte | CL:0000094 | 96.01 | gold quality |
| muscle layer of sigmoid colon | UBERON:0035805 | 95.83 | gold quality |
| right lobe of liver | UBERON:0001114 | 95.80 | gold quality |
| left testis | UBERON:0004533 | 95.77 | gold quality |
| minor salivary gland | UBERON:0001830 | 95.75 | gold quality |
| lower esophagus mucosa | UBERON:0035834 | 95.72 | gold quality |
| skin of leg | UBERON:0001511 | 95.71 | gold quality |
| skin of abdomen | UBERON:0001416 | 95.70 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 2.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-GEOD-76312 | yes | 105.67 |
| E-ANND-3 | yes | 9.14 |
Regulation
Is transcription factor: no
miRNA regulators (miRDB)
49 targeting GBF1, 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-4795-3P | 100.00 | 74.62 | 4024 |
| HSA-MIR-4481 | 100.00 | 66.42 | 1669 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-7152-3P | 99.97 | 67.47 | 849 |
| HSA-MIR-6778-3P | 99.96 | 67.29 | 2693 |
| HSA-MIR-106A-5P | 99.90 | 73.94 | 2683 |
| HSA-MIR-4753-3P | 99.90 | 71.03 | 3786 |
| HSA-MIR-17-5P | 99.89 | 73.83 | 2665 |
| HSA-MIR-106B-5P | 99.88 | 74.72 | 2795 |
| HSA-MIR-20A-5P | 99.88 | 74.76 | 2769 |
| HSA-MIR-526B-3P | 99.88 | 74.06 | 2587 |
| HSA-MIR-20B-5P | 99.88 | 74.01 | 2621 |
| HSA-MIR-519D-3P | 99.88 | 73.97 | 2607 |
| HSA-MIR-93-5P | 99.88 | 73.98 | 2606 |
| HSA-MIR-3617-5P | 99.75 | 69.41 | 1968 |
| HSA-MIR-641 | 99.75 | 69.35 | 1975 |
| HSA-MIR-12129 | 99.72 | 67.45 | 1311 |
| HSA-MIR-4729 | 99.69 | 72.18 | 4233 |
| HSA-MIR-646 | 99.68 | 67.84 | 1645 |
| HSA-MIR-519A-3P | 99.67 | 71.67 | 1868 |
| HSA-MIR-519B-3P | 99.67 | 71.67 | 1868 |
| HSA-MIR-519C-3P | 99.67 | 71.67 | 1870 |
| HSA-MIR-587 | 99.64 | 70.86 | 2611 |
| HSA-MIR-6751-5P | 99.56 | 64.99 | 1145 |
| HSA-MIR-6083 | 99.47 | 68.73 | 2393 |
| HSA-MIR-766-5P | 99.47 | 67.91 | 2225 |
| HSA-MIR-3612 | 99.45 | 66.02 | 1333 |
| HSA-MIR-650 | 99.45 | 65.77 | 1309 |
| HSA-MIR-6507-3P | 99.35 | 67.32 | 1059 |
| HSA-MIR-130A-5P | 99.33 | 70.26 | 2623 |
Functional genomics
DepMap (CRISPR cell-line fitness): dependent in 98.4% of screened cell lines, common-essential.
Literature-anchored findings (GeneRIF, showing 40)
- detailed subcellular localization to the cis-Golgi (PMID:12047556)
- novel interaction between p115 and Golgi-specific brefeldin-A-resistant factor 1 (GBF1) (PMID:12634853)
- characterization of alternatively spliced and truncated forms of GBF1 defines regions important for activity (PMID:12646181)
- an Arf1-GBF1-Brefeldin A complex is formed and has a longer residence time on Golgi membranes than GBF1 or Arf1 alone (PMID:15616190)
- A continuous cycle of recruitment and dissociation of GBF1 to membranes is required for sustained ARF activation and COP I recruitment that underlies ER-Golgi traffic. (PMID:15813748)
- GBF1 is recruited to the endogenous IRF-9 promoter, and interacts with C/EBP-beta, IL-1, and IL-6 (PMID:16318580)
- These observations strongly suggest that GBF1 regulates COPI membrane recruitment in the early secretory pathway. (PMID:16926190)
- Two different poliovirus proteins independently recruit different Arf GEFs (GBF1 and BIG1/2) to membranes as part of cellular pathways utilized by the virus to form its membranous replication complex. (PMID:17079330)
- analysis of the binding domain in GBF1 showed that the extreme N terminus, the dimerization/cyclophilin binding domain, and the homology upstream of Sec7 domain are required for the interaction with coxsackievirus protein 3A (PMID:17329336)
- These data support a model where Rab1b-GTP induces GBF1 recruitment at the ERES interface and at the Golgi complex where it is required for COPII/COPI exchange or COPI vesicle formation, respectively. (PMID:17429068)
- Required for GGA adaptor protein recruitment to Golgi membranes; plays a role in the proper processing and sorting of lysosomal cargo. (PMID:17666033)
- These findings suggest that a secretory pathway capable of trafficking soluble proteins can be maintained in cells in which COPI recruitment is compromised by GBF1 depletion. (PMID:17956946)
- COPII is the only coat required for sorting and export from the endoplasmic reticulum exit sites, whereas GBF1, but not BIGs, is required for COPI recruitment, Golgi subcompartmentalization, and cargo progression to the cell surface. (PMID:18003980)
- GBF1 is a AMPK substrate and AMPK-mediated phosphorylation of GBF1 at Thr(1337) has a critical role, presumably by attenuating function of GBF1, in disassembly of the Golgi apparatus induced under stress conditions that lower the intracellular ATP (PMID:18063581)
- Unfolded protein response and cell death after depletion of brefeldin A-inhibited guanine nucleotide-exchange protein GBF1. (PMID:18287014)
- GDP-bound class II Arfs associate with the ER-Golgi intermediate compartment independently of GBF1 (PMID:18524849)
- siRNAs demonstrate that GBF1-mediated ARF1 activation is required for efficient MHV RNA replication (PMID:18551169)
- AG1478 inhibits GBF1, a large nucleotide exchange factor for the ADP-ribosylation factor, in a Sec7 domain-dependent manner and mimics the phenotype of a GBF1 mutant that has an inactive mutation (PMID:18799457)
- GBF1 is responsible for the sensitivity of poliovirus infection to BFA, and is required for virus replication (PMID:19023417)
- crucial for coxsackievirus B3 RNA replication (PMID:19740986)
- GBF1 is a cellular factor required for HCV infection. (PMID:19906930)
- The authors demonstrate that Rab1b-activated GBF1 and ARF1 are involved in Ebolavirus virion formation, suggesting that both the COPII and COPI transport systems play a role in Ebolavirus VP40-mediated particle formation. (PMID:20164217)
- Data propose that the phosphorylation and membrane dissociation of GBF1 and the consequent reduction in ARF-GTP levels in mitosis are important for changes in Golgi dynamics (PMID:20175751)
- The brefeldin A block of poliovirus replication is rescued by expression of only the N-terminal region of GBF1 lacking the Sec7 domain. (PMID:20497182)
- Data suggest that Rab1 contributes to the specificity and timing of GBF1 recruitment by activating PI4KIIIalpha, and that the PtdIns(4)P produced then allows GBF1 to bind to Golgi membranes and activate Arf1. (PMID:20530568)
- Both human and canine GBF1 can be inhibited by compound LG186, a small molecule derived from Exo2, a small molecule inhibitor of secretion and Shiga toxin cytotoxicity. (PMID:20854417)
- The COG (conserved oligomeric Golgi) complex plays a role in the localization, but not membrane association of GBF1. (PMID:21722633)
- GBF1 and ATGL interact directly and in cells, through multiple contact sites on each protein. (PMID:21789191)
- We hypothesize that sphingomyelin acquired by CERT-dependent transport of ceramide and subsequent conversion to SM is necessary for C. trachomatis replication whereas SM acquired by GBF1-dependent pathway is essential for inclusion growth and stability. (PMID:21909260)
- The GBF1 participated in delivery of adipose triglyceride lipase (ATGL) onto the lipid droplets(LD) surface (PMID:22185782)
- the vesicular transport proteins ARF1 and GBF1 colocalized with PI4KIIIbeta and were both required for HCV replication (PMID:22359663)
- A protein encoded by this locus was found to be differentially expressed in postmortem brains from patients with atypical frontotemporal lobar degeneration. (PMID:22360420)
- GBF1-mediated Arf1 activation is necessary to unify cell polarity during chemotaxis (PMID:22573891)
- an early acting GEF (GBF1) activates ARFs that mediate recruitment of late acting GEFs (BIG1/2) to coordinate coating events within the pre-Golgi/Golgi/TGN continuum. (PMID:23386609)
- These data suggest that AMPK-GBF1-Arf1 signaling is involved in the regulation of Golgi fragmentation during mitosis. (PMID:23418352)
- Study provides evidence that GBF-1 is required in endoplasmic reticulum structure and endosomal traffic. (PMID:23840591)
- GBF1 causes increased Arf-GTP production at the Golgi, consistent with a feed-forward self-limiting mechanism of Arf activation. (PMID:24213530)
- GBF1 plays a critical role early in dengue infection that is independent of its role in the maintenance of Golgi structure. (PMID:24855065)
- Although human rhinovirus 3A protein was previously shown to interact with ACBD3, these data suggest that PI4KIIIbeta recruitment occurred independently of both GBF1 and ACBD3. (PMID:25410869)
- The role of GBF1 in poliovirus replication is independent of its Arf activating function. (PMID:25653442)
Cross-species orthologs
9 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | gbf1 | ENSDARG00000027016 |
| mus_musculus | Gbf1 | ENSMUSG00000025224 |
| rattus_norvegicus | Gbf1 | ENSRNOG00000026048 |
| drosophila_melanogaster | siz | FBGN0026179 |
| drosophila_melanogaster | Sec71 | FBGN0028538 |
| drosophila_melanogaster | garz | FBGN0264560 |
| caenorhabditis_elegans | WBGENE00007703 | |
| caenorhabditis_elegans | WBGENE00008685 | |
| caenorhabditis_elegans | agef-1 | WBGENE00012386 |
Paralogs (15): CYTH3 (ENSG00000008256), PSD (ENSG00000059915), MON2 (ENSG00000061987), ARFGEF1 (ENSG00000066777), CYTH4 (ENSG00000100055), CYTH2 (ENSG00000105443), CYTH1 (ENSG00000108669), IQSEC3 (ENSG00000120645), ARFGEF2 (ENSG00000124198), IQSEC2 (ENSG00000124313), PSD4 (ENSG00000125637), IQSEC1 (ENSG00000144711), PSD2 (ENSG00000146005), PSD3 (ENSG00000156011), FBXO8 (ENSG00000164117)
Protein
Protein identifiers
Golgi-specific brefeldin A-resistance guanine nucleotide exchange factor 1 — Q92538 (reviewed: Q92538)
All UniProt accessions (84): Q92538, A0A669KB10, A0A669KBG8, A0A7I2V2F8, A0A7I2V2G6, A0A7I2V2I0, A0A7I2V2L1, A0A7I2V2L4, A0A7I2V2L5, A0A7I2V2Q1, A0A7I2V2Q5, A0A7I2V2Q6, A0A7I2V2U1, A0A7I2V2Y7, A0A7I2V2Z8, A0A7I2V300, A0A7I2V305, A0A7I2V306, A0A7I2V329, A0A7I2V336, A0A7I2V338, A0A7I2V342, A0A7I2V350, A0A7I2V3A8, A0A7I2V3B1, A0A7I2V3E5, A0A7I2V3H2, A0A7I2V3J0, A0A7I2V3Q4, A0A7I2V3R2, A0A7I2V3S0, A0A7I2V3Y5, A0A7I2V3Y7, A0A7I2V452, A0A7I2V470, A0A7I2V489, A0A7I2V4E0, A0A7I2V4F1, A0A7I2V4F9, A0A7I2V4H1, A0A7I2V4K2, A0A7I2V4L8, A0A7I2V4M3, A0A7I2V4M6, A0A7I2V4N5, A0A7I2V4N7, A0A7I2V4Q7, A0A7I2V4V3, A0A7I2V4V8, A0A7I2V4W6, A0A7I2V4X4, A0A7I2V4Z4, A0A7I2V514, A0A7I2V528, A0A7I2V529, A0A7I2V541, A0A7I2V578, A0A7I2V5C9, A0A7I2V5I9, A0A7I2V5S3, A0A7I2V5T8, A0A7I2V5V9, A0A7I2V5W2, A0A7I2V5Z1, A0A7I2V5Z2, A0A7I2V622, A0A7I2V662, A0A7I2V6D0, A0A7I2V6G3, A0A7I2YQ62, A0A7I2YQ65, A0A7I2YQ79, A0A7I2YQA6, A0A7I2YQB8, A0A7I2YQC3, A0A7I2YQC6, A0A7I2YQD3, A0A7I2YQE0, A0A7I2YQJ5, A0A7I2YQM0, A0A7I2YQM2, A0A7I2YQN3, A0A7I2YQN6, A0A7I2YQP6
UniProt curated annotations — full annotation on UniProt →
Function. Guanine-nucleotide exchange factor (GEF) for members of the Arf family of small GTPases involved in trafficking in the early secretory pathway; its GEF activity initiates the coating of nascent vesicles via the localized generation of activated ARFs through replacement of GDP with GTP. Recruitment to cis-Golgi membranes requires membrane association of Arf-GDP and can be regulated by ARF1, ARF3, ARF4 and ARF5. Involved in the recruitment of the COPI coat complex to the endoplasmic reticulum exit sites (ERES), and the endoplasmic reticulum-Golgi intermediate (ERGIC) and cis-Golgi compartments which implicates ARF1 activation. Involved in COPI vesicle-dependent retrograde transport from the ERGIC and cis-Golgi compartments to the endoplasmic reticulum (ER). Involved in the trans-Golgi network recruitment of GGA1, GGA2, GGA3, BIG1, BIG2, and the AP-1 adaptor protein complex related to chlathrin-dependent transport; the function requires its GEF activity (probably at least in part on ARF4 and ARF5). Has GEF activity towards ARF1. Has in vitro GEF activity towards ARF5. Involved in the processing of PSAP. Required for the assembly of the Golgi apparatus. The AMPK-phosphorylated form is involved in Golgi disassembly during mitotis and under stress conditions. May be involved in the COPI vesicle-dependent recruitment of PNPLA2 to lipid droplets; however, this function is under debate. In neutrophils, involved in G protein-coupled receptor (GPCR)-mediated chemotaxis und superoxide production. Proposed to be recruited by phosphatidylinositol-phosphates generated upon GPCR stimulation to the leading edge where it recruits and activates ARF1, and is involved in recruitment of GIT2 and the NADPH oxidase complex. Plays a role in maintaining mitochondrial morphology.
Subunit / interactions. Can form homodimers and probably homotetramers. Interacts with COPG1; the interaction is independent of ARF1 activation. Interacts with ARF1, ARF3, ARF4 and ARF5. Interacts with RAB1B (GTP-bound form); required for GBF1 membrane association. Interacts with GGA1, GGA2 and GGA3. Interacts with USO1. Interacts (via SEC7 domain) with PNPLA2 (via C-terminus); the interaction is direct. Interacts with ARMH3. (Microbial infection) Interacts with poliovirus protein 3A.
Subcellular location. Golgi apparatus. cis-Golgi network. Endoplasmic reticulum-Golgi intermediate compartment. trans-Golgi network. Cytoplasm. Lipid droplet. Membrane.
Tissue specificity. Ubiquitous.
Post-translational modifications. AMPK-mediated phosphorylation at Thr-1338 is induced by 2-deoxyglucose (2-DG) and AICA ribonucleotide, and occurs during mitosis leading to membrane disassociation and inactivation of ARF1 during mitosis.
Disease relevance. Charcot-Marie-Tooth disease, axonal, type 2GG (CMT2GG) [MIM:606483] An axonal form of Charcot-Marie-Tooth disease, a disorder of the peripheral nervous system, characterized by progressive weakness and atrophy, initially of the peroneal muscles and later of the distal muscles of the arms. Charcot-Marie-Tooth disease is classified in two main groups on the basis of electrophysiologic properties and histopathology: primary peripheral demyelinating neuropathies (designated CMT1 when they are dominantly inherited) and primary peripheral axonal neuropathies (CMT2). Neuropathies of the CMT2 group are characterized by signs of axonal degeneration in the absence of obvious myelin alterations, normal or slightly reduced nerve conduction velocities, and progressive distal muscle weakness and atrophy. CMT2GG is an autosomal dominant form characterized by slowly progressive distal muscle weakness and atrophy primarily affecting the lower limbs and causing difficulty walking. Some individuals may also have involvement of the hands. The disease is caused by variants affecting the gene represented in this entry.
Activity regulation. Inhibited by brefeldin A (BFA). Inhibited by golgicide A (GCA).
Domain organisation. The DCB (dimerization and cyclophilin-binding) and HUS (homology upstream of Sec7) domains are necessary for dimerization. The DCB domain is proposed to support constitutive homodimerization; the HUS domain interacts with the DCB domain which may occur intramolecular or intermolecular.
Isoforms (4)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q92538-4 | 1 | yes |
| Q92538-1 | 4 | |
| Q92538-2 | 2 | |
| Q92538-3 | 3 |
RefSeq proteins (20): NP_001186307, NP_001186308, NP_001364066, NP_001364067, NP_001364068, NP_001364069, NP_001364070, NP_001378851, NP_001378852, NP_001378853, NP_001378854, NP_001378855, NP_001378856, NP_001378857, NP_001378858, NP_001378859, NP_001378860, NP_001397932, NP_001397956, NP_004184 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000904 | Sec7_dom | Domain |
| IPR016024 | ARM-type_fold | Homologous_superfamily |
| IPR023394 | Sec7_C_sf | Homologous_superfamily |
| IPR032691 | Mon2/Sec7/BIG1-like_HUS | Domain |
| IPR035999 | Sec7_dom_sf | Homologous_superfamily |
| IPR056604 | GBF1-like_TPR | Domain |
Pfam: PF01369, PF12783, PF23325
UniProt features (52 total): modified residue 13, region of interest 11, compositionally biased region 10, sequence variant 5, mutagenesis site 5, sequence conflict 4, splice variant 2, chain 1, domain 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q92538-F1 | 71.42 | 0.37 |
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 (13): 350, 353, 508, 663, 1299, 1317, 1319, 1321, 1336, 1338, 1476, 1774, 1785
Mutagenesis-validated functional residues (5):
| Position | Phenotype |
|---|---|
| 544 | increases interaction with copg1 and pnpla2. |
| 795 | inhibits golgi membrane recruitment of gga1, gga2 and gga3; generates misprocessing of psap. |
| 795 | arrests retrograde ergic/cis-golgi-to-er transport at an early step and causes disassembly of the golgi and disassociati |
| 833 | confers bfa tolerance. |
| 1338 | prevents 2-dg-induced golgi disassembly. |
Function
Pathways and Gene Ontology
Reactome pathways
6 pathways
| ID | Pathway |
|---|---|
| R-HSA-199992 | trans-Golgi Network Vesicle Budding |
| R-HSA-5620916 | VxPx cargo-targeting to cilium |
| R-HSA-6807878 | COPI-mediated anterograde transport |
| R-HSA-6811434 | COPI-dependent Golgi-to-ER retrograde traffic |
| R-HSA-9918476 | Assembly and Release of Dengue Virus Virions |
| R-HSA-9918481 | Dengue Virus-Host Interactions |
MSigDB gene sets: 312 (showing top):
GOBP_ESTABLISHMENT_OR_MAINTENANCE_OF_MONOPOLAR_CELL_POLARITY, GOBP_CELLULAR_RESPONSE_TO_VIRUS, GOBP_ESTABLISHMENT_OR_MAINTENANCE_OF_CELL_POLARITY, GOBP_MYELOID_LEUKOCYTE_MIGRATION, GOBP_CELL_CHEMOTAXIS, GOBP_VESICLE_LOCALIZATION, TGCACTT_MIR519C_MIR519B_MIR519A, GOBP_VESICLE_ORGANIZATION, GOBP_REGULATION_OF_SMALL_GTPASE_MEDIATED_SIGNAL_TRANSDUCTION, GOBP_VESICLE_TARGETING, TGACCTY_ERR1_Q2, GOBP_VESICLE_MEDIATED_TRANSPORT, REACTOME_MEMBRANE_TRAFFICKING, YY1_Q6, EFC_Q6
GO Biological Process (25): cell activation involved in immune response (GO:0002263), endoplasmic reticulum to Golgi vesicle-mediated transport (GO:0006888), retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum (GO:0006890), post-Golgi vesicle-mediated transport (GO:0006892), Golgi to endosome transport (GO:0006895), Golgi organization (GO:0007030), regulation of mitotic cell cycle (GO:0007346), protein transport (GO:0015031), neutrophil chemotaxis (GO:0030593), regulation of ARF protein signal transduction (GO:0032012), protein localization to Golgi apparatus (GO:0034067), retrograde transport, endosome to Golgi (GO:0042147), COPI coating of Golgi vesicle (GO:0048205), cilium assembly (GO:0060271), establishment of monopolar cell polarity (GO:0061162), protein localization to endoplasmic reticulum exit site (GO:0070973), Golgi disassembly (GO:0090166), endoplasmic reticulum-Golgi intermediate compartment organization (GO:0097111), cellular response to virus (GO:0098586), reactive oxygen species biosynthetic process (GO:1903409), protein localization to endoplasmic reticulum tubular network (GO:1903420), regulation of protein localization to cell surface (GO:2000008), endomembrane system organization (GO:0010256), vesicle-mediated transport (GO:0016192), endosomal transport (GO:0016197)
GO Molecular Function (5): guanyl-nucleotide exchange factor activity (GO:0005085), phosphatidylinositol-3,4,5-trisphosphate binding (GO:0005547), phosphatidylinositol-3,5-bisphosphate binding (GO:0080025), protein binding (GO:0005515), lipid binding (GO:0008289)
GO Cellular Component (15): Golgi membrane (GO:0000139), peroxisome (GO:0005777), endoplasmic reticulum lumen (GO:0005788), endoplasmic reticulum-Golgi intermediate compartment (GO:0005793), Golgi apparatus (GO:0005794), Golgi stack (GO:0005795), cis-Golgi network (GO:0005801), trans-Golgi network (GO:0005802), lipid droplet (GO:0005811), cytosol (GO:0005829), membrane (GO:0016020), cell leading edge (GO:0031252), cytoplasm (GO:0005737), endomembrane system (GO:0012505), Golgi apparatus subcompartment (GO:0098791)
Reactome top-level categories
Rollup of top-5 pathways:
| Category | Pathways |
|---|---|
| Dengue Virus Infection | 2 |
| Membrane Trafficking | 1 |
| Cargo trafficking to the periciliary membrane | 1 |
| ER to Golgi Anterograde Transport | 1 |
| Golgi-to-ER retrograde transport | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 5 |
| cytoplasm | 4 |
| intercellular transport | 3 |
| Golgi vesicle transport | 3 |
| Golgi apparatus | 3 |
| intracellular membrane-bounded organelle | 3 |
| cytosolic transport | 2 |
| organelle organization | 2 |
| phosphatidylinositol phosphate binding | 2 |
| binding | 2 |
| Golgi apparatus subcompartment | 2 |
| cell activation | 1 |
| immune effector process | 1 |
| immune response | 1 |
| intracellular transport | 1 |
| post-Golgi vesicle-mediated transport | 1 |
| endomembrane system organization | 1 |
| mitotic cell cycle | 1 |
| regulation of cell cycle | 1 |
| transport | 1 |
| intracellular protein localization | 1 |
| establishment of protein localization | 1 |
| granulocyte chemotaxis | 1 |
| neutrophil migration | 1 |
| ARF protein signal transduction | 1 |
| regulation of small GTPase mediated signal transduction | 1 |
| protein localization to organelle | 1 |
| endosomal transport | 1 |
| COPI-coated vesicle budding | 1 |
| Golgi transport vesicle coating | 1 |
| axoneme assembly | 1 |
| intraciliary transport involved in cilium assembly | 1 |
| cilium organization | 1 |
| protein localization to cilium | 1 |
| organelle assembly | 1 |
| trans-Golgi to periciliary membrane compartment transport | 1 |
| plasma membrane bounded cell projection assembly | 1 |
| ciliary transition zone assembly | 1 |
| establishment of cell polarity | 1 |
| establishment or maintenance of monopolar cell polarity | 1 |
Protein interactions and networks
STRING
1711 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| GBF1 | ARF1 | P10947 | 796 |
| GBF1 | ARF6 | P26438 | 739 |
| GBF1 | PI4KB | P78405 | 691 |
| GBF1 | RABIF | P47224 | 667 |
| GBF1 | CDKN2A | P42771 | 635 |
| GBF1 | RAB6A | P20340 | 614 |
| GBF1 | COPB1 | P53618 | 562 |
| GBF1 | CIAO1 | O76071 | 542 |
| GBF1 | RSAD2 | Q8WXG1 | 535 |
| GBF1 | ARFGAP1 | Q8N6T3 | 531 |
| GBF1 | ACBD3 | Q9H3P7 | 529 |
| GBF1 | ARF4 | P18085 | 520 |
| GBF1 | RAB1B | Q9H0U4 | 507 |
| GBF1 | ARFRP1 | Q13795 | 490 |
| GBF1 | ARFGAP3 | Q9NP61 | 488 |
IntAct
183 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| HRAS | RAF1 | psi-mi:“MI:0914”(association) | 0.980 |
| YWHAG | GBF1 | psi-mi:“MI:0915”(physical association) | 0.820 |
| YWHAB | WDR62 | psi-mi:“MI:0914”(association) | 0.770 |
| MILR1 | INPPL1 | psi-mi:“MI:0914”(association) | 0.640 |
| YWHAG | BLTP3B | psi-mi:“MI:2364”(proximity) | 0.640 |
| IRS4 | PIK3R2 | psi-mi:“MI:0914”(association) | 0.640 |
| RAB8A | WDR91 | psi-mi:“MI:0914”(association) | 0.600 |
| YWHAH | BLTP3B | psi-mi:“MI:2364”(proximity) | 0.570 |
| YWHAG | SHTN1 | psi-mi:“MI:0914”(association) | 0.560 |
| NPY2R | RTL8C | psi-mi:“MI:0914”(association) | 0.530 |
| EPHA1 | EXOC5 | psi-mi:“MI:0914”(association) | 0.530 |
| SPACA1 | GOLIM4 | psi-mi:“MI:0914”(association) | 0.530 |
| YWHAZ | BLTP3B | psi-mi:“MI:0914”(association) | 0.530 |
| CD70 | METTL15 | psi-mi:“MI:0914”(association) | 0.530 |
| CHRM3 | PLD2 | psi-mi:“MI:0914”(association) | 0.530 |
| TMEM9 | ESYT2 | psi-mi:“MI:0914”(association) | 0.530 |
| FAM174A | BLTP3B | psi-mi:“MI:0914”(association) | 0.530 |
| STK16 | UNC119B | psi-mi:“MI:0914”(association) | 0.530 |
| CD40 | EXOC5 | psi-mi:“MI:0914”(association) | 0.530 |
| EVA1C | STK25 | psi-mi:“MI:0914”(association) | 0.530 |
| ILVBL | SLC33A1 | psi-mi:“MI:0914”(association) | 0.530 |
| LPAR1 | TMEM223 | psi-mi:“MI:0914”(association) | 0.530 |
| GBF1 | psi-mi:“MI:0914”(association) | 0.500 | |
| GBF1 | psi-mi:“MI:0915”(physical association) | 0.500 |
BioGRID (542): GBF1 (Affinity Capture-MS), GBF1 (Affinity Capture-MS), GBF1 (Affinity Capture-MS), GBF1 (Affinity Capture-MS), GBF1 (Affinity Capture-MS), GBF1 (Affinity Capture-MS), GBF1 (Affinity Capture-MS), GBF1 (Co-fractionation), PUS7 (Co-fractionation), RBM26 (Co-fractionation), VARS (Co-fractionation), GBF1 (Affinity Capture-MS), GBF1 (Proximity Label-MS), GBF1 (Biochemical Activity), GBF1 (Affinity Capture-MS)
ESM2 similar proteins: A1A5G2, A2AFR3, A7MBL8, B9EJ86, E1C1R4, E1C3P4, F1LXF1, O94806, O94967, P0C6S7, P0CAX5, P11274, P22682, Q0V9G5, Q14161, Q14CM0, Q15139, Q16513, Q1RMU2, Q3KR37, Q3LAC4, Q3UGM2, Q5RED8, Q5T6S3, Q5U252, Q62101, Q66H62, Q6DFZ1, Q6P5G6, Q6PAJ1, Q70Z35, Q7Z6G8, Q80TI0, Q80TQ2, Q80YA9, Q8BIZ1, Q8BWW9, Q8BY87, Q8K1Y2, Q8NEL9
Diamond homologs: A0A0G2JUG7, A2A5R2, A5PKW4, D4A631, E1JIT7, F1MUS9, F4IXW2, F4JN05, F4JSZ5, F4K2K3, G3X9K3, G5EET6, O08967, O13690, O13817, O43739, O46382, P11075, P34512, P39993, P47102, P63034, P63035, P97694, P97696, Q10491, Q15438, Q2KI41, Q2PFD7, Q3TES0, Q42510, Q54KA7, Q5DTT2, Q5DU25, Q5E9G6, Q5JU85, Q6DFZ1, Q6DN90, Q6P1I6, Q76M68
SIGNOR signaling
6 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| PRKAA1 | down-regulates | GBF1 | phosphorylation |
| AMPK | down-regulates | GBF1 | phosphorylation |
| CSNK2A1 | “down-regulates quantity by destabilization” | GBF1 | phosphorylation |
| SCF-betaTRCP | “down-regulates quantity by destabilization” | GBF1 | ubiquitination |
| GBF1 | “up-regulates activity” | ARF1 | “guanine nucleotide exchange factor” |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 212 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 |
|---|---|---|---|
| Activation of BAD and translocation to mitochondria | 7 | 38.1× | 5e-08 |
| Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex | 7 | 33.6× | 9e-08 |
| SARS-CoV-1 targets host intracellular signalling and regulatory pathways | 7 | 33.6× | 9e-08 |
| Activation of BH3-only proteins | 7 | 24.8× | 9e-07 |
| RHO GTPases activate PKNs | 8 | 18.1× | 1e-06 |
| Intrinsic Pathway for Apoptosis | 8 | 16.7× | 2e-06 |
| Translocation of SLC2A4 (GLUT4) to the plasma membrane | 12 | 13.2× | 3e-08 |
| DAP12 signaling | 5 | 13.2× | 1e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
409 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 2 |
| Likely pathogenic | 4 |
| Uncertain significance | 288 |
| Likely benign | 50 |
| Benign | 19 |
Top pathogenic / likely-pathogenic (6)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1456216 | NM_005029.4(PITX3):c.636_637dup (p.Gly213fs) | Pathogenic |
| 468353 | NM_005029.4(PITX3):c.640_656dup (p.Gly220fs) | Pathogenic |
| 1675431 | NM_001377137.1(GBF1):c.4384C>T (p.Arg1462Trp) | Likely pathogenic |
| 372897 | NM_005029.4(PITX3):c.646C>T (p.Gln216Ter) | Likely pathogenic |
| 620191 | NM_005029.4(PITX3):c.762C>A (p.Tyr254Ter) | Likely pathogenic |
| 6938 | NM_005029.4(PITX3):c.38G>A (p.Ser13Asn) | Likely pathogenic |
SpliceAI
6285 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 10:102258925:GTA:G | acceptor_loss | 1.0000 |
| 10:102258927:A:AG | acceptor_gain | 1.0000 |
| 10:102258927:AG:A | acceptor_gain | 1.0000 |
| 10:102258928:G:GG | acceptor_gain | 1.0000 |
| 10:102258928:GG:G | acceptor_gain | 1.0000 |
| 10:102258928:GGT:G | acceptor_gain | 1.0000 |
| 10:102258928:GGTT:G | acceptor_gain | 1.0000 |
| 10:102258928:GGTTT:G | acceptor_gain | 1.0000 |
| 10:102259031:ACTGG:A | donor_loss | 1.0000 |
| 10:102259032:CTGGT:C | donor_loss | 1.0000 |
| 10:102259034:GGT:G | donor_loss | 1.0000 |
| 10:102259035:G:GG | donor_gain | 1.0000 |
| 10:102259035:GTA:G | donor_loss | 1.0000 |
| 10:102259036:T:G | donor_loss | 1.0000 |
| 10:102260037:ATGT:A | acceptor_gain | 1.0000 |
| 10:102260038:T:G | acceptor_gain | 1.0000 |
| 10:102260038:T:TA | acceptor_gain | 1.0000 |
| 10:102260040:T:TA | acceptor_gain | 1.0000 |
| 10:102260045:TACA:T | acceptor_loss | 1.0000 |
| 10:102260046:A:AG | acceptor_gain | 1.0000 |
| 10:102260046:ACAG:A | acceptor_gain | 1.0000 |
| 10:102260047:C:G | acceptor_gain | 1.0000 |
| 10:102260048:A:AG | acceptor_gain | 1.0000 |
| 10:102260048:AG:A | acceptor_gain | 1.0000 |
| 10:102260049:G:GA | acceptor_gain | 1.0000 |
| 10:102260049:GG:G | acceptor_gain | 1.0000 |
| 10:102260049:GGA:G | acceptor_gain | 1.0000 |
| 10:102260049:GGAT:G | acceptor_gain | 1.0000 |
| 10:102260095:G:GT | donor_gain | 1.0000 |
| 10:102260114:CAG:C | donor_gain | 1.0000 |
AlphaMissense
12179 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 10:102344107:T:C | S74P | 1.000 |
| 10:102344123:G:A | G79D | 1.000 |
| 10:102344141:C:A | A85E | 1.000 |
| 10:102344144:T:A | L86H | 1.000 |
| 10:102344144:T:C | L86P | 1.000 |
| 10:102344153:T:A | V89D | 1.000 |
| 10:102351303:G:C | A115P | 1.000 |
| 10:102351307:T:A | V116D | 1.000 |
| 10:102351316:C:A | A119D | 1.000 |
| 10:102351321:T:C | F121L | 1.000 |
| 10:102351322:T:C | F121S | 1.000 |
| 10:102351322:T:G | F121C | 1.000 |
| 10:102351323:T:A | F121L | 1.000 |
| 10:102351323:T:G | F121L | 1.000 |
| 10:102351345:G:C | D129H | 1.000 |
| 10:102351355:T:A | V132D | 1.000 |
| 10:102351358:T:C | L133P | 1.000 |
| 10:102351370:T:C | L137P | 1.000 |
| 10:102351847:T:C | L140P | 1.000 |
| 10:102351856:T:C | L143P | 1.000 |
| 10:102351873:G:C | G149R | 1.000 |
| 10:102351874:G:A | G149D | 1.000 |
| 10:102351883:T:C | L152P | 1.000 |
| 10:102351920:C:G | C164W | 1.000 |
| 10:102351925:G:C | R166P | 1.000 |
| 10:102352464:T:G | L177W | 1.000 |
| 10:102352475:G:C | A181P | 1.000 |
| 10:102352488:T:A | L185H | 1.000 |
| 10:102352488:T:C | L185P | 1.000 |
| 10:102359411:T:C | F385L | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000018555 (10:102337050 A>T), RS1000030706 (10:102358921 A>G), RS1000059136 (10:102288635 C>T), RS1000066281 (10:102289293 C>A), RS1000073720 (10:102336300 AAAAAAAAAAAAAAAG>A), RS1000086738 (10:102329670 A>G), RS1000098013 (10:102354631 T>C), RS1000107592 (10:102346311 G>A), RS1000131849 (10:102281256 C>T), RS1000138388 (10:102233605 G>A,C), RS1000189662 (10:102245839 T>A), RS1000189797 (10:102260741 T>C), RS1000191412 (10:102322116 T>A), RS1000217600 (10:102380040 A>G), RS1000269003 (10:102357704 A>C,T)
Disease associations
OMIM: gene MIM:603698 | disease phenotypes: MIM:107250, MIM:606483, MIM:610623, MIM:620378
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| Charcot-Marie-Tooth Disease, axonal, type 2GG | Strong | Autosomal dominant |
| axonal neuropathy | Strong | Autosomal dominant |
Mondo (5): anterior segment dysgenesis 1 (MONDO:0007138), Charcot-Marie-Tooth Disease, axonal, type 2GG (MONDO:0011675), cataract 11 multiple types (MONDO:0012527), Charcot-Marie-Tooth disease, dominant intermediate A (MONDO:0957273), axonal neuropathy (MONDO:0004183)
Orphanet (2): Autosomal dominant intermediate Charcot-Marie-Tooth disease type A (Orphanet:100043), Early onset non-syndromic cataract (Orphanet:91492)
HPO phenotypes
23 total (23 of 23 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0001260 | Dysarthria |
| HP:0001265 | Hyporeflexia |
| HP:0001270 | Motor delay |
| HP:0001284 | Areflexia |
| HP:0001288 | Gait disturbance |
| HP:0001761 | Pes cavus |
| HP:0001765 | Hammertoe |
| HP:0002460 | Distal muscle weakness |
| HP:0002936 | Distal sensory impairment |
| HP:0003376 | Steppage gait |
| HP:0003378 | Axonal degeneration/regeneration |
| HP:0003383 | Onion bulb formation |
| HP:0003393 | Thenar muscle atrophy |
| HP:0003394 | Muscle spasm |
| HP:0003445 | EMG: neuropathic changes |
| HP:0003481 | Segmental peripheral demyelination/remyelination |
| HP:0003596 | Middle age onset |
| HP:0003693 | Distal amyotrophy |
| HP:0007107 | Segmental peripheral demyelination |
| HP:0009027 | Foot dorsiflexor weakness |
| HP:0011462 | Young adult onset |
| HP:0011463 | Childhood onset |
GWAS associations
18 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST002500_66 | QT interval | 3.000000e-08 |
| GCST005235_18 | Hand grip strength | 1.000000e-09 |
| GCST005316_346 | Intelligence (MTAG) | 4.000000e-09 |
| GCST005316_352 | Intelligence (MTAG) | 9.000000e-10 |
| GCST005316_74 | Intelligence (MTAG) | 2.000000e-13 |
| GCST005956_50 | Waist-to-hip ratio adjusted for BMI | 8.000000e-06 |
| GCST005958_15 | Waist-to-hip ratio adjusted for BMI (age >50) | 4.000000e-06 |
| GCST005962_36 | Waist-to-hip ratio adjusted for BMI x sex x age interaction (4df test) | 6.000000e-07 |
| GCST006269_323 | General cognitive ability | 2.000000e-11 |
| GCST008810_89 | Smoking initiation (ever regular vs never regular) | 2.000000e-08 |
| GCST009325_2 | Parkinson’s disease or first degree relation to individual with Parkinson’s disease | 1.000000e-09 |
| GCST009524_145 | Household income (MTAG) | 1.000000e-12 |
| GCST009524_82 | Household income (MTAG) | 2.000000e-08 |
| GCST010002_298 | Refractive error | 3.000000e-22 |
| GCST010173_177 | Triglyceride levels | 1.000000e-08 |
| GCST010988_449 | Adult body size | 4.000000e-10 |
| GCST90002388_574 | Lymphocyte count | 9.000000e-10 |
| GCST90002389_454 | Lymphocyte percentage of white cells | 2.000000e-09 |
EFO canonical traits (11, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0004682 | QT interval |
| EFO:0006941 | grip strength measurement |
| EFO:0004337 | intelligence |
| EFO:0007788 | BMI-adjusted waist-hip ratio |
| EFO:0008007 | age at assessment |
| EFO:0008343 | sex interaction measurement |
| EFO:0005670 | smoking initiation |
| EFO:0009695 | household income |
| EFO:0004530 | triglyceride measurement |
| EFO:0004587 | lymphocyte count |
| EFO:0007993 | lymphocyte percentage of leukocytes |
MeSH disease descriptors (2)
| Descriptor | Name | Tree numbers |
|---|---|---|
| C535344 | Cataract, posterior polar, 4 (supp.) | |
| C564702 | Charcot-Marie-Tooth Disease, Dominant Intermediate A (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
27 total (human), top 27 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| sodium arsenite | decreases expression, increases abundance, increases expression | 3 |
| Quercetin | increases expression, increases phosphorylation | 2 |
| aristolochic acid I | increases expression | 1 |
| FR900359 | affects phosphorylation | 1 |
| dicrotophos | increases expression | 1 |
| bisphenol A | decreases expression | 1 |
| arsenite | affects binding, decreases reaction | 1 |
| methylparaben | increases expression | 1 |
| coumarin | affects phosphorylation | 1 |
| cupric oxide | increases phosphorylation | 1 |
| ICG 001 | decreases expression | 1 |
| abrine | increases expression | 1 |
| pentabrominated diphenyl ether 100 | increases expression | 1 |
| 4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic acid | decreases expression | 1 |
| Arsenic | decreases expression, increases abundance | 1 |
| Benzo(a)pyrene | affects methylation | 1 |
| Cadmium | decreases expression, increases abundance | 1 |
| Caffeine | affects phosphorylation | 1 |
| Cisplatin | decreases expression | 1 |
| Ivermectin | decreases expression | 1 |
| Dronabinol | increases expression | 1 |
| Thiram | increases expression | 1 |
| Tretinoin | decreases expression | 1 |
| Urethane | increases expression | 1 |
| Cyclosporine | increases expression | 1 |
| Aflatoxin B1 | increases methylation | 1 |
| Cadmium Chloride | decreases expression, increases abundance | 1 |
Clinical trials (associated diseases)
2 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT01847937 | Not specified | COMPLETED | Magnetic Resonance Diagnostics of Diabetic Peripheral Neuropathy |
| NCT05641103 | Not specified | COMPLETED | PREDIGA 2: Spanish Acronym of Educational and Diagnostic Project for Gaucher and ASMD |
Related Atlas pages
- Associated diseases: Charcot-Marie-Tooth Disease, axonal, type 2GG, axonal neuropathy
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): anterior segment dysgenesis 1, axonal neuropathy, cataract 11 multiple types, Charcot-Marie-Tooth Disease, axonal, type 2GG, Charcot-Marie-Tooth disease, dominant intermediate A