Coiled-coil region of Oberon; Oberon_cc is the coiled-coil region of Oberon proteins from plants. Oberon is necessary for maintenance and/or establishment of both the shoot and root apical meristems in Arabidopsis. Most Oberon proteins carry a PHD finger domain, pfam07227 and this coiled-coil domain. Oberon proteins mediate the TMO7 (the direct target of MP) expression through modification of, or binding to, chromatin at the TMO7 locus. TMO7 stands for the target of Monopteros 7 (or Auxin response factor 7).

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063710151 425 KKARMGLEECEREVEEKAKQVAELQMERQKKKQQIEEVERIVRLKQAEAEMFQLKANEAKVEAERLERIVKAKKEKTEEE 504
Cdd:pfam16312   1 KRARLALDACDRELEDKAREASELKFERQRKKQQIEELESIVRLKQAEAEMFQLKADEARREAEGLQRIALAKSEKSEEE 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1063710151 505 YASNYLKLRLSEAEAEKEYLFEKIKEQESGGNGGEASQAVMYSKIREML 553
Cdd:pfam16312  81 YASRYLKLRLEEAEEERRYKFEELKLLENSHRDYDNMKMRMQSKIQDLL 129

Coiled-coil region of Oberon; Oberon_cc is the coiled-coil region of Oberon proteins from plants. Oberon is necessary for maintenance and/or establishment of both the shoot and root apical meristems in Arabidopsis. Most Oberon proteins carry a PHD finger domain, pfam07227 and this coiled-coil domain. Oberon proteins mediate the TMO7 (the direct target of MP) expression through modification of, or binding to, chromatin at the TMO7 locus. TMO7 stands for the target of Monopteros 7 (or Auxin response factor 7).

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063710151 425 KKARMGLEECEREVEEKAKQVAELQMERQKKKQQIEEVERIVRLKQAEAEMFQLKANEAKVEAERLERIVKAKKEKTEEE 504
Cdd:pfam16312   1 KRARLALDACDRELEDKAREASELKFERQRKKQQIEELESIVRLKQAEAEMFQLKADEARREAEGLQRIALAKSEKSEEE 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1063710151 505 YASNYLKLRLSEAEAEKEYLFEKIKEQESGGNGGEASQAVMYSKIREML 553
Cdd:pfam16312  81 YASRYLKLRLEEAEEERRYKFEELKLLENSHRDYDNMKMRMQSKIQDLL 129

PHD zinc finger; The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the RING finger and the FYVE finger. It is not yet known if PHD fingers have a common molecular function. Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. Other reports suggesting that the PHD finger is a ubiquitin ligase have been refuted as these domains were RING fingers misidentified as PHD fingers.

                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063710151  238 MCVICNKFDfavNTCRWIGCDVCSHWTHTDCairdgeismgVSPKSVSGMGEMLFKCRAC 297
Cdd:smart00249   1 YCSVCGKPD---DGGELLQCDGCDRWYHQTC----------LGPPLLEEEPDGKWYCPKC 47

Coiled-coil region of Oberon; Oberon_cc is the coiled-coil region of Oberon proteins from plants. Oberon is necessary for maintenance and/or establishment of both the shoot and root apical meristems in Arabidopsis. Most Oberon proteins carry a PHD finger domain, pfam07227 and this coiled-coil domain. Oberon proteins mediate the TMO7 (the direct target of MP) expression through modification of, or binding to, chromatin at the TMO7 locus. TMO7 stands for the target of Monopteros 7 (or Auxin response factor 7).

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063710151 425 KKARMGLEECEREVEEKAKQVAELQMERQKKKQQIEEVERIVRLKQAEAEMFQLKANEAKVEAERLERIVKAKKEKTEEE 504
Cdd:pfam16312   1 KRARLALDACDRELEDKAREASELKFERQRKKQQIEELESIVRLKQAEAEMFQLKADEARREAEGLQRIALAKSEKSEEE 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1063710151 505 YASNYLKLRLSEAEAEKEYLFEKIKEQESGGNGGEASQAVMYSKIREML 553
Cdd:pfam16312  81 YASRYLKLRLEEAEEERRYKFEELKLLENSHRDYDNMKMRMQSKIQDLL 129

PHD finger found in Transcription factor 19 (TCF-19), Lysine-specific demethylase KDM5A and KDM5B, and other similar proteins; TCF-19 was identified as a putative trans-activating factor with expression beginning at the late G1-S boundary in dividing cells. It functions as a novel islet factor necessary for proliferation and survival in the INS-1 beta cell line. It plays an important role in susceptibility to both Type 1 Diabetes Mellitus (T1DM) and Type 2 Diabetes Mellitus (T2DM); it has been suggested that it may positively impact beta cell mass under conditions of beta cell stress and increased insulin demand. KDM5A was originally identified as a retinoblastoma protein (Rb)-binding partner and its inactivation may be important for Rb to promote differentiation. It is involved in transcription through interaction with TBP, p107, nuclear receptors, Myc, Sin3/HDAC, Mad1, RBP-J, CLOCK, and BMAL1. KDM5B has a restricted expression pattern in the testis, ovary, and transiently in the mammary gland of the pregnant female and has been shown to be upregulated in breast cancer, prostate cancer, and lung cancer, suggesting a potential role in tumorigenesis. Both KDM5A and KDM5B function as trimethylated histone H3 lysine 4 (H3K4me3) demethylases. This family also includes Caenorhabditis elegans Lysine-specific demethylase 7 homolog (ceKDM7A). ceKDM7A (also termed JmjC domain-containing protein 1.2, PHD finger protein 8 homolog, or PHF8 homolog) is a plant homeodomain (PHD)- and JmjC domain-containing protein that functions as a histone demethylase specific for H3K9me2 and H3K27me2. The binding of the PHD finger to H3K4me3 guides H3K9me2- and H3K27me2-specific demethylation by its catalytic JmjC domain in a trans-histone regulation mechanism. In addition, this family includes plant protein OBERON 1 and OBERON 2, Alfin1-like (AL) proteins, histone acetyltransferases (HATs) HAC, and AT-rich interactive domain-containing protein 4 (ARID4).

                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063710151 238 MCVICNKFDFAvNTCRWIGCDVCSHWTHTDCAIRDGEIsmgvspksvsGMGEMLFKCRAC 297
Cdd:cd15517     1 VCGICNLETAA-VDELWVQCDGCDKWFHQFCLGLSNER----------YADEDKFKCPNC 49

PHD finger found in Arabidopsis thaliana AT-rich interactive domain-containing protein 4 (ARID4) and similar proteins; This family includes A. thaliana ARID4 (ARID domain-containing protein 4) and similar proteins. Their biological roles remain unclear, but they all contain an AT-rich interactive domain (ARID) and a plant homeodomain (PHD) finger at the C-terminus. ARID is a helix-turn-helix motif-based DNA-binding domain conserved in all eukaryotes. PHD fingers can recognize the unmodified and modified histone H3 tail, and some have been found to interact with non-histone proteins.

                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1063710151 239 CVICNK--FDFAVNTCRWIGCDVCSHWTHTDCAIRDG 273
Cdd:cd15615     2 CILCGQvyEENEGDEKEWVQCDSCSEWVHFECDGRTG 38

PHD finger found in transcription initiation factor TFIID subunit 3 (TAF3); TAF3 (also termed 140 kDa TATA box-binding protein-associated factor, TBP-associated factor 3, transcription initiation factor TFIID 140 kDa subunit (TAF140), or TAFII-140, is an integral component of TFIID) is a general initiation factor (GTF) that plays a key role in preinitiation complex (PIC) assembly through core promoter recognition. The interaction of H3K4me3 with TAF3 directs global TFIID recruitment to active genes, which regulates gene-selective functions of p53 in response to genotoxic stress. TAF3 is highly enriched in embryonic stem cells and is required for endoderm lineage differentiation and prevents premature specification of neuroectoderm and mesoderm. Moreover, TAF3, along with TRF3, forms a complex that is essential for myogenic differentiation. TAF3 contains a plant homeodomain (PHD) finger. This family also includes Drosophila melanogaster BIP2 (Bric-a-brac interacting protein 2) protein, which functions as an interacting partner of D. melanogaster p53 (Dmp53).

                          10        20        30
                  ....*....|....*....|....*....|..
gi 1063710151 238 MCVICNKFDFAVNtcrWIGCDVCSHWTHTDCA 269
Cdd:cd15522     1 ICPICKKPDDGSP---MIGCDECDDWYHWECV 29