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: 520aa MW: 55369.6 Da PI: 8.6244

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.014G180600.1	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	1.5e-05	85	107	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Potri.014G180600.1 85 FVCEICNKGFQRDQNLQLHRRGH 107 89*******************88 PP
2	zf-C2H2	15.7	4.3e-05	161	183	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC+ C+k + +s+ k H++t+ Potri.014G180600.1 161 WKCERCSKKYAVQSDWKAHMKTC 183 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	1.7E-5	84	107	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.15E-8	84	107	No hit	No description
Pfam	PF12171	8.3E-5	85	107	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	85	107	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	85	107	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	87	107	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	126	156	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.6E-5	149	182	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.15E-8	156	182	No hit	No description
SMART	SM00355	77	161	181	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: 520 aa Download sequence Send to blast
MVSFEQDKAE VLEGKRMVDV ENSLRMKVST ASGEDTIVSS FGNQDMPLSV AVPQPKKKRN 60 LPGMPDPDAE VVALSPKSLL ATNRFVCEIC NKGFQRDQNL QLHRRGHNLP WKLKQRTNKE 120 PRKRVYVCPE PSCVHHNPVR ALGDLTGIKK HFSRKHGEKK WKCERCSKKY AVQSDWKAHM 180 KTCGTREYKC DCGTLFSRRD SLITHRAFCD ALTEESARAQ TLATTGNEGN GCNVKCVVAS 240 PPPPPLTPST SVVSPGLSVQ SSELAENPIG LSPPTPAAIC LNASATSTSS TSSTSNVFAS 300 IFASSTASPA AIPQLASPSA FPMFCGLARS DCPPTMPTPR AMDPPSLSLS PSVYLSNTTS 360 SLFPTDQDRR HYTPSPQPAM SATALLQKAA QMGATTSNPS FLRGLGFPPS TNQDGNGNQW 420 DMKPENNTTF AAGLGLVLPT SDVMMDSSSL FGNKPTTLDL LGLGLDAASS ALLNYNGTGG 480 FNVGAAAAAA YGGGRRGNCE ETWDGVPERK PNGSTATSL*

Sequence ? help Back to Top

Protein Sequence Length: 520 aa Download sequence Send to blast

MVSFEQDKAE VLEGKRMVDV ENSLRMKVST ASGEDTIVSS FGNQDMPLSV AVPQPKKKRN  60
LPGMPDPDAE VVALSPKSLL ATNRFVCEIC NKGFQRDQNL QLHRRGHNLP WKLKQRTNKE  120
PRKRVYVCPE PSCVHHNPVR ALGDLTGIKK HFSRKHGEKK WKCERCSKKY AVQSDWKAHM  180
KTCGTREYKC DCGTLFSRRD SLITHRAFCD ALTEESARAQ TLATTGNEGN GCNVKCVVAS  240
PPPPPLTPST SVVSPGLSVQ SSELAENPIG LSPPTPAAIC LNASATSTSS TSSTSNVFAS  300
IFASSTASPA AIPQLASPSA FPMFCGLARS DCPPTMPTPR AMDPPSLSLS PSVYLSNTTS  360
SLFPTDQDRR HYTPSPQPAM SATALLQKAA QMGATTSNPS FLRGLGFPPS TNQDGNGNQW  420
DMKPENNTTF AAGLGLVLPT SDVMMDSSSL FGNKPTTLDL LGLGLDAASS ALLNYNGTGG  480
FNVGAAAAAA YGGGRRGNCE ETWDGVPERK PNGSTATSL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-36	157	223	3	69	Zinc finger protein JACKDAW
5b3h_F	1e-36	157	223	3	69	Zinc finger protein JACKDAW
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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.014G180600.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB193578	2e-98	AB193578.1 Salix hukaoana DNA, microsatellite, clone:Shuk197.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002320649.2	0.0	protein indeterminate-domain 2
Swissprot	Q9LVQ7	1e-141	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	B9IBT2	0.0	B9IBT2_POPTR; Uncharacterized protein
STRING	POPTR_0014s17900.1	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-124	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	Potri.014G180600.1
Entrez Gene	7497285

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]