KH domain-containing protein 3 (Khdc3) is a 440-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q9CWU5.
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The mean pLDDT of this model is 51.0 (low 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 | 10% |
| 70 to 90 | Confident: backbone generally right | 17% |
| 50 to 70 | Low: treat with caution | 7% |
| Below 50 | Very low: often disordered regions | 66% |
What pLDDT means and how to read it
Component of the subcortical maternal complex (SCMC), a multiprotein complex that plays a key role in early embryonic development (PubMed:18804437, PubMed:19376971, PubMed:25208553, PubMed:28992324, PubMed:29125140, PubMed:31575650, PubMed:37922900). The SCMC complex is a structural constituent of cytoplasmic lattices, which consist in fibrous structures found in the cytoplasm of oocytes and preimplantation embryos (PubMed:31575650, PubMed:37922900, PubMed:41845018, PubMed:41917274, PubMed:41986725). They are required to store maternal proteins critical for embryonic development, such as ribosomal proteins, cytoskeletal tubulins and proteins controlling epigenetic reprogramming of the…
Component of the subcortical maternal complex (SCMC), at least composed of NLRP5, KHDC3, OOEP and TLE6 (PubMed:18057100, PubMed:18804437, PubMed:28992324, PubMed:37922900, PubMed:38177687). Component of cytoplasmic lattices, at least composed of PADI6, NLRP4F, NLRP5, NLRP14, TLE6, KHDC3, OOEP and ZBED3 (PubMed:41845018, PubMed:41917274, PubMed:41986725). Cytoplasmic lattices form a filamentous…
Cytoplasm, Cytoplasm, cell cortex, Nucleus, Mitochondrion, Cytoplasm, cytoskeleton, microtubule organizing center, centrosome, Chromosome
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 3V69 | X-ray | 2.2 Å | A/B=1-124 |
| 9XRL | EM | 3.74 Å | 4/6/AA=1-124 |
| 9SFP | EM | 4.2 Å | C=7-133 |
| 9W2M | EM | 4.2 Å | D/d=1-127 |
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