LIM domain-binding protein 1 (Ldb1) is a 411-residue protein from Mus musculus. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P70662.
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The mean pLDDT of this model is 71.0 (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 | 44% |
| 70 to 90 | Confident: backbone generally right | 10% |
| 50 to 70 | Low: treat with caution | 10% |
| Below 50 | Very low: often disordered regions | 37% |
What pLDDT means and how to read it
Binds to the LIM domain of a wide variety of LIM domain-containing transcription factors (PubMed:8918878, PubMed:9192866). May regulate the transcriptional activity of LIM-containing proteins by determining specific partner interactions (PubMed:16815859, PubMed:18539116, PubMed:8918878, PubMed:9192866, PubMed:9315627). Plays a role in the development of interneurons and motor neurons in cooperation with LHX3 and ISL1 (PubMed:12150931, PubMed:18539116, PubMed:8876198). Acts synergistically with LHX1/LIM1 in axis formation and activation of gene expression (PubMed:8918878). Acts with LMO2 in the regulation of red blood cell development, maintaining erythroid precursors in an immature state…
Interacts with ESR1 (By similarity). Forms homodimers and heterodimers (PubMed:9315627, PubMed:9468533). Interacts with and activates LHX1/LIM1 (PubMed:8918878, PubMed:9468533). Interacts with the LIM domains of ISL1 and LMO2 (PubMed:12150931, PubMed:12727888). Can assemble in a complex with LMO2 and TAL1/SCL but does not interact with TAL1/SCL directly (PubMed:9391090). Strongly interacts with…
Nucleus
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1RUT | X-ray | 1.3 Å | X=336-375 |
| 6PTL | X-ray | 2.5 Å | A=50-236 |
| 4JCJ | X-ray | 3.0 Å | A/B/C=336-366 |
| 1J2O | NMR | A=336-375 | |
| 1M3V | NMR | A=336-375 | |
| 2JTN | NMR | A=331-375 | |
| 2L6Y | NMR | B=336-348 | |
| 2L6Z | NMR | C=336-348 | |
| 2LXD | NMR | A=336-375 |
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