PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

C2H2

Protein Properties

Length: 502aa MW: 53204.9 Da PI: 9.158

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.002G263600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	71	93	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Potri.002G263600.1 71 FVCEICNKGFQRDQNLQLHRRGH 93 89*******************88 PP
2	zf-C2H2	14	0.00015	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC+ C+k + +s+ k H++t+ Potri.002G263600.1 147 WKCERCSKKYAVQSDWKAHLKTC 169 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	2.4E-5	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	71	93	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	71	93	IPR007087	Zinc finger, C2H2
Pfam	PF12171	8.0E-5	71	93	IPR022755	Zinc finger, double-stranded RNA binding
SuperFamily	SSF57667	4.82E-7	71	93	No hit	No description
PROSITE pattern	PS00028	0	73	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	83	112	142	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.8E-5	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.82E-7	142	167	No hit	No description
SMART	SM00355	130	147	167	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 502 aa Download sequence Send to blast
MVGGENLSRI TVSKASGEDT ISNVSSFGNQ GMPHSITVPP PKKKRNLPGM PDPDAEVVAL 60 SPKTLVATIR FVCEICNKGF QRDQNLQLHR RGHNLPWKLK QRTNKEPRKR VYVCPESSCV 120 HHNPARALGD LTGIKKHFYR KHGEKKWKCE RCSKKYAVQS DWKAHLKTCG TKEYKCDCGT 180 LFSRRDSFVT HRAFCDALAE ESARAQTLAI MGREGNGCDI KRVGASPPPP PLTPSTSVVS 240 PGLSVQSSEL AENPIGLSPP PIACASATST SSTSSTSNVF ATTFASSTAT PAAIPQQASV 300 PSSFPNLFCG LARSDYPTTM PTPRAIEPPS LSLSPSFYLS NNTSSLFSTE QEHYHYTPSP 360 QPAMSATALL QKAAQMGATT SNPSFLRGLG LPRSTNQDSN CNKWDVKPEN NTTVAAGLGL 420 GLPSSDVMMG SSSLFGNKPA TLDLLGLGMD AASSALLNSY SGGFNVGAAT AAAYGGGGGR 480 GTSEETWDGV PERKPYGSTG A*

Sequence ? help Back to Top

Protein Sequence Length: 502 aa Download sequence Send to blast

MVGGENLSRI TVSKASGEDT ISNVSSFGNQ GMPHSITVPP PKKKRNLPGM PDPDAEVVAL  60
SPKTLVATIR FVCEICNKGF QRDQNLQLHR RGHNLPWKLK QRTNKEPRKR VYVCPESSCV  120
HHNPARALGD LTGIKKHFYR KHGEKKWKCE RCSKKYAVQS DWKAHLKTCG TKEYKCDCGT  180
LFSRRDSFVT HRAFCDALAE ESARAQTLAI MGREGNGCDI KRVGASPPPP PLTPSTSVVS  240
PGLSVQSSEL AENPIGLSPP PIACASATST SSTSSTSNVF ATTFASSTAT PAAIPQQASV  300
PSSFPNLFCG LARSDYPTTM PTPRAIEPPS LSLSPSFYLS NNTSSLFSTE QEHYHYTPSP  360
QPAMSATALL QKAAQMGATT SNPSFLRGLG LPRSTNQDSN CNKWDVKPEN NTTVAAGLGL  420
GLPSSDVMMG SSSLFGNKPA TLDLLGLGMD AASSALLNSY SGGFNVGAAT AAAYGGGGGR  480
GTSEETWDGV PERKPYGSTG A*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	8e-36	143	209	3	69	Zinc finger protein JACKDAW
5b3h_F	8e-36	143	209	3	69	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269\|PubMed:21571950}.
Uniprot	TISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269\|PubMed:21571950}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269\|PubMed:21571950, ECO:0000269\|PubMed:25035403}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.002G263600.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006386940.1	0.0	protein indeterminate-domain 2
Swissprot	Q9LVQ7	1e-136	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	U5GU12	0.0	U5GU12_POPTR; Uncharacterized protein
STRING	POPTR_0002s26430.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2218	32	86
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-112	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	Potri.002G263600.1
Entrez Gene	18096584

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]