Rap guanine nucleotide exchange factor 4 (Rapgef4) is a 1011-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9EQZ6.
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The mean pLDDT of this model is 87.4 (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 | 66% |
| 70 to 90 | Confident: backbone generally right | 24% |
| 50 to 70 | Low: treat with caution | 4% |
| Below 50 | Very low: often disordered regions | 6% |
What pLDDT means and how to read it
Guanine nucleotide exchange factor (GEF) for RAP1A, RAP1B and RAP2A small GTPases that is activated by binding cAMP. Does not seem to activate RAB3A. Involved in cAMP-dependent, PKA-independent exocytosis through interaction with RIMS2
Interacts with RAP1B, RIMS1 and RIMS2. Probably part of a complex with RIMS2 and GTP-activated RAB3A
Cytoplasm, Membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3CF6 | X-ray | 2.2 Å | E=324-1011 |
| 4MH0 | X-ray | 2.4 Å | E=324-1011 |
| 1O7F | X-ray | 2.5 Å | A=1-481 |
| 4F7Z | X-ray | 2.6 Å | A=1-1011 |
| 4MGY | X-ray | 2.6 Å | E=324-1011 |
| 2BYV | X-ray | 2.7 Å | E=1-1011 |
| 4MGK | X-ray | 2.7 Å | E=324-1011 |
| 4MGI | X-ray | 2.8 Å | E=324-1011 |
| 4MGZ | X-ray | 3.0 Å | E=324-1011 |
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