Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis lyrata PHD Family


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:


There are 47 gene models in this family

Gene modelDescriptionDomains
311665 fgenesh1_pm.C_scaffold_1000445 FYRC FYRN PHD PWWP SET
327388 fgenesh1_pm.C_scaffold_6002608 BAH PHD
329405 fgenesh1_pm.C_scaffold_7001632 BAH PHD
330015 fgenesh1_pm.C_scaffold_7002242 PHD
339050 fgenesh1_pg.C_scaffold_2001149 PHD
339887 fgenesh1_pg.C_scaffold_2001986 DUF248 PHD
344116 fgenesh1_pg.C_scaffold_4000458 Chromo DUF1086 DUF1087 Helicase_C PHD ResIII SNF2_N
358079 fgenesh1_pg.C_scaffold_8001866 Agenet PHD
470539 fgenesh2_kg.1__493__AT1G05380.2 PHD
473467 fgenesh2_kg.1__3421__AT1G32810.2 PHD
474193 fgenesh2_kg.1__4147__AT1G50620.1 PHD
476946 fgenesh2_kg.2__2076__AT1G77800.1 PHD
477100 fgenesh2_kg.2__2230__AT1G79350.1 PHD
477858 fgenesh2_kg.3__559__AT3G05670.1 PHD zf-C3HC4
478922 fgenesh2_kg.3__1623__AT3G14980.1 Acetyltransf_1 PHD
479934 fgenesh2_kg.3__2635__AT3G24010.1 PHD
480540 fgenesh2_kg.3__3241__AT2G19260.1 PHD
482652 fgenesh2_kg.4__1712__AT2G36720.1 PHD
482747 fgenesh2_kg.4__1807__AT2G37520.1 PHD
483135 fgenesh2_kg.4__2195__AT2G40770.1 Helicase_C PHD SNF2_N zf-C3HC4
484096 fgenesh2_kg.5__88__AT2G01810.1 PHD
487800 fgenesh2_kg.6__934__AT5G09790.2 PHD SET
489076 fgenesh2_kg.6__2210__AT5G22260.1 PHD
489297 fgenesh2_kg.6__2431__AT5G24330.1 PHD SET
490065 fgenesh2_kg.6__3199__AT4G12620.1 AAA BAH PHD
490678 fgenesh2_kg.7__111__AT4G39100.1 BAH PHD
493435 fgenesh2_kg.7__2868__AT4G14700.1 AAA BAH PHD
496189 fgenesh2_kg.8__2005__AT5G60410.5 PHD SAP zf-MIZ
496581 fgenesh2_kg.8__2397__AT5G63900.1 PHD
865811 Al_scaffold_0005_1290 PHD SAP zf-MIZ
866789 Al_scaffold_0005_2268 PHD
872885 Al_scaffold_0003_1526 PHD
882070 Al_scaffold_0001_3837 PHD
882071 Al_scaffold_0001_3838 PHD
890923 scaffold_103717.1 PHD
891770 scaffold_104564.1 PHD
894251 scaffold_201325.1 PHD
896104 scaffold_300074.1 FYRC FYRN MBD PHD
899705 scaffold_303675.1 PHD
907712 scaffold_503416.1 PHD
907732 scaffold_503436.1 PHD PWWP SET
909528 scaffold_601585.1 PHD
909771 scaffold_601828.1 PHD
913734 scaffold_701476.1 PHD PWWP SET
915773 scaffold_703515.1 AT_hook PHD
917093 scaffold_800493.1 Chromo Helicase_C PHD SNF2_N
918421 scaffold_801821.1 PHD PWWP SET

General references

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