Nuclear receptor subfamily 1 group D member 1 (NR1D1) is a 614-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P20393.
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The mean pLDDT of this model is 62.9 (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 | 28% |
| 70 to 90 | Confident: backbone generally right | 14% |
| 50 to 70 | Low: treat with caution | 11% |
| Below 50 | Very low: often disordered regions | 46% |
What pLDDT means and how to read it
Transcriptional repressor which coordinates circadian rhythm and metabolic pathways in a heme-dependent manner. Integral component of the complex transcription machinery that governs circadian rhythmicity and forms a critical negative limb of the circadian clock by directly repressing the expression of core clock components BMAL1, CLOCK and CRY1. Also regulates genes involved in metabolic functions, including lipid and bile acid metabolism, adipogenesis, gluconeogenesis and the macrophage inflammatory response. Acts as a receptor for heme which stimulates its interaction with the NCOR1/HDAC3 corepressor complex, enhancing transcriptional repression. Recognizes two classes of DNA response…
Binds DNA as a monomer or a homodimer (PubMed:9660968). Interacts with C1D, NR2E3 and SP1 (By similarity). Interacts with OPHN1 (via C-terminus) (PubMed:21874017). Interacts with ZNHIT1 (PubMed:17892483). Interacts with PER2; the interaction associates PER2 to BMAL1 promoter region (PubMed:22170608). Interacts with CRY1 (PubMed:22170608). Interacts with CCAR2 (PubMed:23398316). Interacts with…
Nucleus, Cytoplasm, Cell projection, dendrite, Cell projection, dendritic spine
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1A6Y | X-ray | 2.3 Å | A/B=123-216 |
| 1GA5 | X-ray | 2.4 Å | A/B/E/F=123-216 |
| 8D8I | X-ray | 2.5 Å | A=281-614 |
| 3N00 | X-ray | 2.6 Å | A=281-614 |
| 1HLZ | X-ray | 2.8 Å | A/B=123-216 |
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