Rab5 GDP/GTP exchange factor (RABGEF1) is a 491-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9UJ41.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 77.8 (confident overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 42% |
| 70 to 90 | Confident: backbone generally right | 31% |
| 50 to 70 | Low: treat with caution | 10% |
| Below 50 | Very low: often disordered regions | 17% |
What pLDDT means and how to read it
Acts as a guanine-nucleotide releasing factor (GEF) for RAB5A by promoting the conversion of inactive RAB-GDP to the active form RAB-GTP (PubMed:15339665, PubMed:9323142). Forms a complex with RABEP1 that acts as Rab4/Rab5 effector regulating endosome fusion. Involved in endocytic membrane fusion and membrane trafficking of recycling endosomes (PubMed:11452015, PubMed:9323142). Also functions as a ubiquitin ligase (By similarity)
Interacts with RGS14; the interaction is GTP-dependent (By similarity). Heterodimer with RABEP1. The heterodimer binds RAB4A and RAB5A that have been activated by GTP-binding. Interacts with RAB21, and with 100-fold lower affinity also with RAB22. Binds TSC2, GGA1, GGA2, GGA3, AP1G1 and AP1G2. Interacts with ubiquitinated EGFR
Cytoplasm, Early endosome, Recycling endosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 4N3X | X-ray | 2.0 Å | A/B/C/D=409-455 |
| 2C7N | X-ray | 2.1 Å | A/C/E/G/I/K=1-74 |
| 2OT3 | X-ray | 2.1 Å | A=132-397 |
| 4N3Y | X-ray | 2.2 Å | A=413-455 |
| 1TXU | X-ray | 2.35 Å | A=131-394 |
| 2C7M | X-ray | 2.4 Å | A=1-74 |
| 4N3Z | X-ray | 3.1 Å | A=132-455 |
| 4Q9U | X-ray | 4.62 Å | A/E=132-455 |
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