Integration host factor subunit alpha (ihfA) is a 99-residue protein from Escherichia coli (strain K12). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P0A6X7.
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The mean pLDDT of this model is 95.6 (very high 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 | 94% |
| 70 to 90 | Confident: backbone generally right | 3% |
| 50 to 70 | Low: treat with caution | 2% |
| Below 50 | Very low: often disordered regions | 1% |
What pLDDT means and how to read it
One of the 2 subunits of integration host factor (IHF), a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. Binds to hundreds of transcriptionally inactive, AT-rich DNA sites, approximately half its binding sites are in non-coding DNA, which only accounts for about 10% of the genome (PubMed:16963779). IHF in combination with the datA locus promotes ATP hydrolysis of ATP-DnaA, called DDAH (datA-dependent DnaA-ATP hydrolysis) (PubMed:23277577). IHF binds oriC as replication initiates, dissociates within minutes and slowly reassociates during the cell cycle; IHF binding to datA is low before initiation, rises after…
Heterodimer of an alpha and a beta chain. Part of the relaxosome, a complex composed of plasmid-encoded TraI, TraM, TraY and host-encoded IHF bound to the F plasmid origin of transfer (oriT) (PubMed:7499339, PubMed:7499340)
Cytoplasm, nucleoid
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 1OWF | X-ray | 1.95 Å | A=1-99 |
| 2HT0 | X-ray | 2.0 Å | A=1-99 |
| 1OWG | X-ray | 2.1 Å | A=1-99 |
| 1IHF | X-ray | 2.2 Å | A=1-99 |
| 1OUZ | X-ray | 2.41 Å | A=1-99 |
| 2IIE | X-ray | 2.41 Å | A=3-94 |
| 2IIF | X-ray | 2.72 Å | A=3-94 |
| 9F10 | EM | 2.94 Å | C=1-99 |
| 9F0Z | EM | 3.42 Å | C=1-99 |
| 9F12 | EM | 3.42 Å | C=1-99 |
| 9F0Y | EM | 3.45 Å | C=1-99 |
| 5WFE | EM | 3.64 Å | K=1-99 |
| 9F11 | EM | 3.68 Å | C=1-99 |
| 9F0X | EM | 3.78 Å | C=1-99 |
| 5J0N | EM | 11.0 Å | I/K=2-97 |
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