RAB2B

Ras-related protein Rab-2B is a protein that in humans is encoded by the RAB2B gene.

RAB2B
Available structures PDB Ortholog search: PDBe RCSB List of PDB id codes 2A5J
Identifiers
Aliases	RAB2B, member RAS oncogene family, RAB protein-GTP binding protein- RAS protein
External IDs	OMIM: 607466; MGI: 1923588; HomoloGene: 23789; GeneCards: RAB2B; OMA:RAB2B - orthologs
Gene location (Human) Chr. Chromosome 14 (human)[1] Band 14q11.2 Start 21,459,020 bp[1] End 21,476,960 bp[1]
Gene location (Mouse) Chr. Chromosome 14 (mouse)[2] Band 14|14 C2 Start 52,499,216 bp[2] End 52,517,002 bp[2]
RNA expression pattern Bgee Human Mouse (ortholog) Top expressed in pancreatic ductal cell mucosa of ileum Achilles tendon secondary oocyte trabecular bone bone marrow ganglionic eminence skin of thigh skin of arm islet of Langerhans Top expressed in fossa substantia nigra internal carotid artery external carotid artery motor neuron trigeminal ganglion condyle sciatic nerve epithelium of lens ureter More reference expression data BioGPS n/a
Gene ontology Molecular function nucleotide binding GTP binding protein binding GTPase activity Cellular component plasma membrane Golgi apparatus extracellular exosome endoplasmic reticulum membrane endoplasmic reticulum membrane Golgi membrane presynapse Biological process protein transport positive regulation of exocytosis vesicle-mediated transport transport intracellular protein transport Rab protein signal transduction Sources:Amigo / QuickGO
Orthologs Species Human Mouse Entrez 84932 76338 Ensembl ENSG00000129472 ENSMUSG00000022159 UniProt Q8WUD1 P59279 RefSeq (mRNA) NM_001163380 NM_032846 NM_172601 RefSeq (protein) NP_001156852 NP_116235 NP_766189 Location (UCSC) Chr 14: 21.46 – 21.48 Mb Chr 14: 52.5 – 52.52 Mb PubMed search [3] [4]
Wikidata
View/Edit Human View/Edit Mouse

RAB2B is required for protein transport from the endoplasmic reticulum to the Golgi complex. It belongs to the small GTPase superfamily, specifically to the RAB protein family.^[5] Small GTPases are a type of hydrolase enzymes that can attach to a GTP to form a GDP. This process makes small GTPases active when bonded to a GTP and inactive when bonded to a GDP. Inside this small GTPase superfamily we can find the RAS subfamily. This family is divided into 5 groups: Ras, Rho, Ran, Rab and Arf GTPases. RAB2B’s main function is regulating vesicle transport and membrane fusion.

Structure

RAB2B is a human protein whose gene is located in the fourteenth chromosome. It has a core made of basic elements such as oxygen, carbon, nitrogen and phosphorus. Its secondary structure contains eight alpha helix and six beta strands. Moreover, it has attached a magnesium ion and a GDP.^[6]

Mature RAB2B contains three post-translational modifications, a phosphoserine is found in the location 202 instead of a normal serine, and two lipidations can be found in locations 215-216. It has a motif domain between the amino acids 35 and 43.

Due to the alternative splicing, two isoforms of this same protein exist. Isoform 1 is the canonical sequence, meaning it is the most common one, having a molecular weight of 24,214 Da.^[7] Isoform 2 consists just of 151 amino acids, having a mass of 16,667 Da.

Function

Small GTPases of the RAB superfamily are recognized as key players of the protein machinery involved in vesicular transport^[8] and organelle dynamics in eukaryotic cells. RAB2B follows mainly exocytic pathways, from the endoplasmic reticulum to Golgi complex. RAB proteins are involved in docking and fusion of transport vesicles with their target membranes. These proteins associate with effector proteins (GARIL4 and GARIL5) to create complexes.

Representation of how RAB2B acts during an antiviral response and the elements it interacts with

In order to do its biological function, RAB2B has to switch from the GDP form to the GTP form, and this is possible thanks to the catalysation of GEF proteins, which are guanine exchange factors. On the other hand, when RAB2B are inactive in the cytosol, the GDP form is maintained due to the interaction with GDI proteins, which are GDP dissociation proteins.^[9]

Studies have also shown that RAB2B affects the IFN antiviral response which is induced by cytosolic DNA. Because of this, RAB2B deficiency allows for vaccinia virus to replicate itself. After DNA stimulation, RAB2B attaches itself on the Golgi apparatus, along with stimulator of interferon genes (STING), the downstream signal mediator of cGAS. In order for RAB2B to adhere to the Golgi apparatus, RAB2B’s GTP-binding activity is required, as well as for the recruitment of GARIL5, so the RAB2B-GARIL5 complex can be formed. It is also shown that GARIL5 deficiency affects the IFN antiviral response, indicating that the entire RAB2B-GARIL5 complex regulates the cGAS-STING signalling axis, thus promoting IFN responses against cytosolic DNA (DNA viruses).^[10]

RAB2B isoform knockdown affects the morphology of the Golgi complex in mammals, inducing its fragmentation.^[11] Even though these RAB family proteins are highly homologous to each other (RAB2A and RAB2B have 85.8% amino acid identity), the knockdown of any of them (from RAB1A to RAB8A) causes Golgi complex to disperse through the cell's cytoplasm. Because of this, the RAB2B-GARIL5 complex stops functioning properly, affecting the IFN response^[10] and enhancing the replication of many viruses, as seen previously.

Tissue distribution

The expression pattern of the human RAB2B gene reveals a transcript in kidney, prostate, lung, thymus, and colon, and a lower expression level in placenta, pancreas and skeletal muscle. Moreover, it is shown that the transcript is over-expressed in colon adenocarcinoma, as well as pancreatic cancer.^[12] This observation entails that this protein could have a close relationship with colon tumours.^[13]

References

1. GRCh38: Ensembl release 89: ENSG00000129472 – Ensembl, May 2017
2. GRCm38: Ensembl release 89: ENSMUSG00000022159 – Ensembl, May 2017
3. "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
4. "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
5. "RAB2B - Ras-related protein Rab-2B - Homo sapiens (Human) - RAB2B gene & protein". www.uniprot.org. Retrieved 2019-10-18.
6. "iCn3D: Web-based 3D Structure Viewer". www.ncbi.nlm.nih.gov. Retrieved 2019-10-26.
7. "RAB2B (human)". www.phosphosite.org. Retrieved 2019-10-26.
8. Martinez O, Goud B (August 1998). "Rab proteins". Biochimica et Biophysica Acta (BBA) - Molecular Cell Research. 1404 (1–2): 101–12. doi:10.1016/S0167-4889(98)00050-0. PMID 9714762.
9. Martinez, Olivier; Goud, Bruno (1998-08-14). "Rab proteins". Biochimica et Biophysica Acta (BBA) - Molecular Cell Research. 1404 (1): 101–112. doi:10.1016/S0167-4889(98)00050-0. ISSN 0167-4889. PMID 9714762.
10. Takahama M, Fukuda M, Ohbayashi N, Kozaki T, Misawa T, Okamoto T, et al. (September 2017). "The RAB2B-GARIL5 Complex Promotes Cytosolic DNA-Induced Innate Immune Responses". Cell Reports. 20 (12): 2944–2954. doi:10.1016/j.celrep.2017.08.085. PMC 5614515. PMID 28930687.
11. Aizawa M, Fukuda M (September 2015). "Small GTPase Rab2B and Its Specific Binding Protein Golgi-associated Rab2B Interactor-like 4 (GARI-L4) Regulate Golgi Morphology". The Journal of Biological Chemistry. 290 (36): 22250–61. doi:10.1074/jbc.M115.669242. PMC 4571976. PMID 26209634.
12. Jin J, Wu Y, Zhou D, Sun Q, Wang W (September 2018). "miR‑448 targets Rab2B and is pivotal in the suppression of pancreatic cancer". Oncology Reports. 40 (3): 1379–1389. doi:10.3892/or.2018.6562. PMC 6072403. PMID 30015954.
13. Ni X, Ma Y, Cheng H, Jiang M, Guo L, Ji C, et al. (2002). "Molecular cloning and characterization of a novel human Rab ( Rab2B) gene". Journal of Human Genetics. 47 (10): 548–51. doi:10.1007/s100380200083. PMID 12376746.

External links

• Overview of all the structural information available in the PDB for UniProt: Q8WUD1 (Ras-related protein Rab-2B) at the PDBe-KB.