Plant Transcription factor database - Universität Potsdam
version: 3.0

Populus trichocarpa 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 70 gene models in this family



Gene modelDescriptionDomains
172196 gw1.I.796.1 PHD
199022 gw1.IV.4111.1 DUF906 PHD
202575 gw1.IX.3040.1 Acetyltransf_1 Agenet PHD
203051 gw1.IX.3516.1 AAA BAH PHD
205490 gw1.V.891.1 PHD
209701 gw1.V.5102.1 PHD
231190 gw1.X.5887.1 PHD
231582 gw1.X.6279.1 PHD
232952 gw1.XI.932.1 PHD
242943 gw1.XIII.3192.1 PHD
244954 gw1.XIV.1697.1 PHD PWWP SET
246366 gw1.XIV.3109.1 FYRC FYRN PHD PWWP SET
250856 gw1.XV.292.1 PHD SET
250990 gw1.XV.426.1 PHD PWWP SET
257156 gw1.XVI.3095.1 PHD
261278 gw1.XVIII.1819.1 Chromo DUF1086 DUF1087 Helicase_C PHD ResIII SNF2_N
282292 gw1.28.866.1 PHD
294068 gw1.66.741.1 PHD SAP zf-MIZ
294621 gw1.70.74.1 PHD SET
410632 gw1.II.1967.1 PHD
411536 gw1.II.2871.1 BAH PHD
411644 gw1.II.2979.1 PHD
415868 gw1.VI.241.1 Chromo DUF1086 DUF1087 Helicase_C PHD ResIII SNF2_N
421736 gw1.XII.196.1 PHD PWWP SET
422428 gw1.XII.888.1 PHD SET
550449 eugene3.00012890 PHD
551783 eugene3.00021098 Acetyltransf_1 Agenet PHD
554189 eugene3.00030822 Chromo Helicase_C PHD SNF2_N
556513 eugene3.00041226 BAH PHD
558337 eugene3.00091597 PHD
559297 eugene3.00050912 PHD
563767 eugene3.00080362 PHD SAP
564690 eugene3.00081285 PHD
570740 eugene3.00130104 PHD zf-C3HC4
571214 eugene3.00130578 PHD
573000 eugene3.00141045 BAH PHD
577738 eugene3.00170480 HEAT PHD
581093 eugene3.01250091 PHD SNF2_N TPR_2
581257 eugene3.01270078 Chromo Helicase_C PHD SNF2_N
583008 eugene3.14670002 PHD
583180 eugene3.01470065 PHD
584461 eugene3.01630030 PHD
589901 eugene3.00290084 PHD
650404 grail3.0001128001 PHD
652863 grail3.0023008301 PHD
668458 grail3.0080003701 PHD
712459 estExt_Genewise1_v1.C_LG_III1972 PHD
727486 estExt_Genewise1_v1.C_LG_XI1484 BAH PHD
736187 estExt_Genewise1_v1.C_LG_XVII0701 PHD
738146 estExt_Genewise1_v1.C_LG_XIX0172 PHD
753204 fgenesh4_pg.C_LG_I002807 BAH PHD
754527 fgenesh4_pg.C_LG_II000707 PHD
755391 fgenesh4_pg.C_LG_II001571 PHD SET
755635 fgenesh4_pg.C_LG_II001815 BRCT PHD
755956 fgenesh4_pg.C_LG_II002136 FYRC FYRN PHD PWWP SET
759447 fgenesh4_pg.C_LG_IV001075 PHD
762263 fgenesh4_pg.C_LG_VI000573 PHD
770060 fgenesh4_pg.C_LG_X001550 PHD
774721 fgenesh4_pg.C_LG_XIV000631 BRCT PHD
780260 fgenesh4_pg.C_LG_XIX000399 PHD
784819 fgenesh4_pg.C_scaffold_133000080 PHD
798206 fgenesh4_pm.C_LG_I001209 PHD
798727 fgenesh4_pm.C_LG_II000416 PHD
802638 fgenesh4_pm.C_LG_VII000124 PHD SET
811745 fgenesh4_pm.C_scaffold_168000007 PHD
821156 estExt_fgenesh4_pg.C_LG_IX0442 BAH PHD
826052 estExt_fgenesh4_pg.C_LG_XVIII1191 PHD
828090 estExt_fgenesh4_pg.C_1350050 DUF906 PHD ZZ zf-TAZ
828245 estExt_fgenesh4_pg.C_1460020 Acetyltransf_1 PHD
828520 estExt_fgenesh4_pg.C_1660031 BAH PHD

General references

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