Plant Transcription factor database - Universität Potsdam
version: 3.0

Oryza sativa subsp. indica 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 41 gene models in this family



Gene modelDescriptionDomains
OsIBCD000562 Chr01_839,1821,,,1,1821, PHD
OsIBCD000752 Chr01_1127,1218,,,1,1218, PHD PWWP
OsIBCD002207 Chr01_3527,3600,,,1,3600, PHD zf-C2HC_plant
OsIBCD002779 Chr01_4386,2730,,,1,2730, PHD SET
OsIBCD004053 Chr01_6245,2151,,,1,2151, PHD
OsIBCD004619 Chr01_7021,900,,,1,900, PHD SET
OsIBCD004796 Chr02_119,8013,,,1,8013, PHD SNF2_N
OsIBCD004884 Chr02_231,1107,,,1,1107, PHD SET
OsIBCD004994 Chr02_383,4761,,,1,4761, DUF906 PHD zf-TAZ
OsIBCD005377 Chr02_959,5652,,,1,5652, FYRN PHD
OsIBCD007785 Chr02_4865,2064,,,1,2064, PHD
OsIBCD008096 Chr02_5295,4380,,,1,4380, PHD
OsIBCD008561 Chr03_64,2901,,,1,2901, PHD
OsIBCD008838 Chr03_425,3456,,,1,3456, PHD
OsIBCD009575 Chr03_1460,1131,,,1,1131, PHD
OsIBCD009841 Chr03_1822,2379,,,1,2379, PHD zf-C3HC4
OsIBCD009852 Chr03_1838,4239,,,1,4239, BRCT PHD
OsIBCD011793 Chr03_5121,2094,,,1,2094, PHD
OsIBCD011969 Chr03_5367,4125,,,1,4125, Acetyltransf_1 PHD
OsIBCD012280 Chr03_5800,963,,,1,963, BAH PHD
OsIBCD014329 Chr04_2792,1377,,,1,1377, PHD
OsIBCD014387 Chr04_2883,4155,,,1,4155, PHD
OsIBCD015534 Chr04_4526,3642,,,1,3642, PHD
OsIBCD016105 Chr04_5298,4377,,,1,4377, PHD
OsIBCD016296 Chr05_228,2775,,,1,2775, PHD SAP zf-MIZ
OsIBCD019105 Chr06_9,2820,,,1,2820, PHD
OsIBCD019786 Chr06_1030,4479,,,1,4479, PHD
OsIBCD020180 Chr06_1664,3927,,,1,3927, PHD Pkinase Pkinase_Tyr
OsIBCD022499 Chr07_603,4119,,,1,4119, PHD
OsIBCD022581 Chr07_718,786,,,1,786, BAH PHD
OsIBCD023518 Chr07_2528,6828,,,1,6828, Chromo Helicase_C PHD SNF2_N
OsIBCD024671 Chr07_4227,2310,,,1,2310, PHD
OsIBCD024688 Chr07_4255,2046,,,1,2046, PHD
OsIBCD024746 Chr08_50,1692,,,1,1692, PHD
OsIBCD026548 Chr08_3216,687,,,1,687, BAH PHD
OsIBCD028402 Chr09_1757,774,,,1,774, BAH PHD
OsIBCD028447 Chr09_1827,1509,,,1,1509, BAH PHD
OsIBCD028746 Chr09_2276,2052,,,1,2052, PHD
OsIBCD029360 Chr09_3196,5226,,,1,5226, PHD SET
OsIBCD034777 Chr12_1683,3918,,,1,3918, PHD
OsIBCD037101 Chr01_6292,528,,,1,528, PHD

General references

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