Transcriptional repressor CTCF (CTCF) is a 727-residue protein from Homo sapiens. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P49711.
Explore in 3D Color by confidence AlphaFold DB UniProt
The mean pLDDT of this model is 58.8 (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 | 1% |
| 70 to 90 | Confident: backbone generally right | 41% |
| 50 to 70 | Low: treat with caution | 6% |
| Below 50 | Very low: often disordered regions | 52% |
What pLDDT means and how to read it
Chromatin binding factor that binds to DNA sequence specific sites and regulates the 3D structure of chromatin (PubMed:16949368, PubMed:18347100, PubMed:18654629, PubMed:19322193). Binds together strands of DNA, thus forming chromatin loops, and anchors DNA to cellular structures, such as the nuclear lamina (PubMed:18347100, PubMed:18654629, PubMed:19322193). Defines the boundaries between active and heterochromatic DNA via binding to chromatin insulators, thereby preventing interaction between promoter and nearby enhancers and silencers (PubMed:18347100, PubMed:18654629, PubMed:19322193). Participates in the allele-specific gene expression at the imprinted IGF2/H19 gene locus…
Interacts with CHD8 (PubMed:16949368). Interacts with LLPH (By similarity). Interacts with CENPE (PubMed:26321640). Interacts with BRD2; promoting BRD2 recruitment to chromatin (By similarity)
Nucleus, nucleoplasm, Chromosome, Chromosome, centromere
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 5KKQ | X-ray | 1.74 Å | A/D=321-465 |
| 5YEG | X-ray | 2.0 Å | A=349-490, B=349-489 |
| 5K5I | X-ray | 2.19 Å | A=378-489 |
| 5T00 | X-ray | 2.19 Å | A/D=321-465 |
| 8SST | X-ray | 2.19 Å | A/D=263-465 |
| 5K5J | X-ray | 2.29 Å | A=378-489 |
| 8SSS | X-ray | 2.3 Å | A/D=263-465 |
| 5YEH | X-ray | 2.33 Å | A/B=349-490 |
| 5UND | X-ray | 2.55 Å | A/B=348-547 |
| 6QNX | X-ray | 2.7 Å | C=222-231 |
| 5YEF | X-ray | 2.81 Å | A/B/G/J=292-490 |
| 8SSU | X-ray | 2.89 Å | A=320-582 |
| 5YEL | X-ray | 2.96 Å | A/B=405-580 |
| 5K5H | X-ray | 3.11 Å | A=348-464 |
| 5K5L | X-ray | 3.12 Å | E/F/G=405-492 |
| 8SSQ | X-ray | 3.12 Å | A/D=319-606 |
| 8SSR | X-ray | 3.14 Å | A/D=319-606 |
| 5T0U | X-ray | 3.2 Å | A/D=294-465 |
| 7W1M | EM | 6.5 Å | H=1-727 |
| 1X6H | NMR | A=515-587 |
Showing 20 of 21 experimental structures (best resolution first).
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