Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis thaliana PHD Family

Description

Bienz. 2006: 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.

Members of this family
  SHOULD possess PHD domain
  SHOULD NOT possess Alfin-like DDT Homeobox JmjC JmjN Myb_DNA-binding zf-CCCH domains

Domain alignments

This family is also present in:

References

There are 59 gene models in this family



Gene modelDescriptionDomains
AT1G05380.1 DNA binding PHD
AT1G05380.2 similar to PHD finger transcription factor, putative [Arabidopsis thaliana] (TAIR:AT4G14920.1); similar to unnamed protein product [Vitis vinifera] (GB:CAO71166.1); contains InterPro domain Acyl-CoA N-acyltransferase (InterPro:IPR016181); contains InterP PHD
AT1G05830.1 trithorax protein, putative / PHD finger family protein / SET domain-containing protein FYRC FYRN PHD PWWP SET
AT1G05830.2 trithorax protein, putative / PHD finger family protein / SET domain-containing protein FYRC FYRN PHD PWWP SET
AT1G32810.2 protein binding / zinc ion binding PHD
AT1G33420.1 PHD finger family protein PHD
AT1G43770.1 PHD finger family protein PHD
AT1G43770.2 PHD finger family protein PHD
AT1G50620.1 PHD finger family protein PHD
AT1G54390.3 PHD finger protein-related PHD
AT1G54390.4 PHD finger protein-related PHD
AT1G54390.5 PHD finger protein-related PHD
AT1G66170.1 MMD1 (MALE MEIOCYTE DEATH 1); DNA binding PHD
AT1G68030.1 PHD finger protein-related PHD
AT1G77250.1 PHD finger family protein PHD
AT1G77800.1 PHD finger family protein PHD
AT1G79350.1 EMB1135 (EMBRYO DEFECTIVE 1135); DNA binding PHD
AT2G01810.1 PHD finger family protein PHD
AT2G19260.1 ELM2 domain-containing protein / PHD finger family protein PHD
AT2G25170.1 PKL (PICKLE) Chromo DUF1086 DUF1087 Helicase_C PHD ResIII SNF2_N
AT2G31650.1 ATX1 (ARABIDOPSIS HOMOLOGUE OF TRITHORAX); histone-lysine N-methyltransferase/ phosphatidylinositol-5-phosphate binding FYRC FYRN PHD PWWP SET
AT2G36720.1 PHD finger transcription factor, putative PHD
AT2G37520.1 PHD finger family protein PHD
AT2G40770.1 SNF2 domain-containing protein / helicase domain-containing protein / zinc finger (C3HC4 type RING finger) family protein Helicase_C PHD SNF2_N TPR_2 zf-C3HC4
AT3G01460.1 MBD9 (METHYL-CPG-BINDING DOMAIN 9); DNA binding FYRC FYRN MBD PHD
AT3G05670.1 PHD finger family protein PHD zf-C3HC4
AT3G14740.1 PHD finger family protein PHD
AT3G14740.2 PHD finger family protein PHD
AT3G14980.1 PHD finger transcription factor, putative Acetyltransf_1 PHD
AT3G20280.1 PHD finger family protein PHD
AT3G20280.2 PHD finger family protein PHD
AT3G24010.1 PHD finger family protein PHD
AT3G53680.1 PHD finger transcription factor, putative PHD
AT3G61740.1 DNA binding PHD PWWP SET
AT3G61740.2 similar to PHD finger protein-related / SET domain-containing protein (TX4) [Arabidopsis thaliana] (TAIR:AT4G27910.1); similar to SDG29 (SET DOMAIN GROUP 29), DNA binding [Arabidopsis thaliana] (TAIR:AT5G53430.1); similar to unnamed protein product [Viti PHD PWWP SET
AT4G12620.1 ATORC1B/ORC1B/UNE13 (ORIGIN OF REPLICATION COMPLEX 1B); DNA binding / protein binding AAA BAH PHD
AT4G14700.1 ATORC1A/ORC1A (ORIGIN OF REPLICATION COMPLEX 1A); DNA binding AAA BAH PHD
AT4G14920.1 PHD finger transcription factor, putative PHD
AT4G22140.1 DNA binding BAH PHD
AT4G22140.2 DNA binding BAH PHD
AT4G27910.1 PHD finger protein-related / SET domain-containing protein (TX4) PHD PWWP SET
AT4G39100.1 SHL1 (SHORT LIFE) BAH PHD
AT5G09790.1 ATXR5 (SETDOMAIN GROUP 15); DNA binding PHD SET
AT5G09790.2 ATXR5 (SETDOMAIN GROUP 15) PHD SET
AT5G15540.1 EMB2773 (EMBRYO DEFECTIVE 2773); binding / protein binding / zinc ion binding HEAT PHD
AT5G16680.1 PHD finger family protein PHD
AT5G22260.1 MS1 (MALE STERILITY 1); DNA binding PHD
AT5G24330.1 ATXR6 (Arabidopsis thaliana Trithorax- related protein 6); DNA binding PHD SET
AT5G36670.1 PHD finger family protein AT_hook PHD
AT5G36740.1 PHD finger family protein AT_hook PHD
AT5G44800.1 CHR4/MI-2-LIKE (chromatin remodeling 4); ATP binding / DNA binding / chromatin binding / helicase Chromo Helicase_C PHD SNF2_N
AT5G53430.1 SDG29 (SET DOMAIN GROUP 29); DNA binding PHD PWWP SET
AT5G58610.1 PHD finger transcription factor, putative Acetyltransf_1 Agenet PHD
AT5G60410.1 ATSIZ1/SIZ1; DNA binding / SUMO ligase PHD SAP zf-MIZ
AT5G60410.2 ATSIZ1/SIZ1; DNA binding PHD SAP zf-MIZ
AT5G60410.3 ATSIZ1/SIZ1; DNA binding PHD SAP zf-MIZ
AT5G60410.4 ATSIZ1/SIZ1; DNA binding PHD SAP zf-MIZ
AT5G60410.5 ATSIZ1/SIZ1 PHD SAP zf-MIZ
AT5G63900.1 PHD finger family protein PHD

General references

Bienz, M. 2006. The PHD finger, a nuclear protein-interaction domain. Trends Biochem. Sci. 31(1):35-40 PUBMEDID:16297627