TOBFAC: The database of tobacco transcription factors
Family: PHD
Minimum number of tobacco PHD genes: 59
Count of tobacco PHD sequences: 68
Pfam accession: PHD
SHOULD possess PHD domain but SHOULD NOT possess DDT Homeobox JmjC JmjN domains
PHD proteins seem to be found universally in the nucleus, and their functions tend to lie in the control of chromatin or transcription. Increasing evidence indicates that PHD fingers bind to specific nuclear protein partners, for which they apparently use their loop 2 surface. Perhaps each PHD finger has its own cognate nuclear ligand, much like RING fingers have their cognate E2 ligases. No doubt the list of specific PHD finger ligands will grow, and the set of these ligands is likely to reveal whether PHD fingers have a common function in the nucleus.
The homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger.
The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions.
Bienz, M. The PHD finger, a nuclear protein-interaction domain. Trends Biochem. Sci. 2006. 31(1):35-40 PMID: 16297627
Number of contigs: 57
Number of singlets: 31
Number of N terminal – 19
Number of C terminal – 9
Number of full – 40
Total minimum number – 59
| Family | Genbank ID | Name |
Paul J Rushton
Marta T. Bokowiec
Xianfeng (Jeff) Chen
Thomas (Tom) W Laudeman
Jennifer F. Brannock
Michael P. Timko