PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

C2H2

Protein Properties

Length: 491aa MW: 53606.1 Da PI: 9.7343

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01010284001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.5	2.4e-05	68	90	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H GSVIVT01010284001 68 FICEVCNKGFQREQNLQLHRRGH 90 89*******************88 PP
2	zf-C2H2	13.4	0.00023	144	166	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ GSVIVT01010284001 144 WKCEKCSKRYAVQSDWKAHSKTC 166 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.31E-7	67	90	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.3E-6	67	90	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	68	90	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	68	90	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.3E-5	68	90	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	70	90	IPR007087	Zinc finger, C2H2
SMART	SM00355	60	109	139	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.7E-5	132	165	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.31E-7	139	164	No hit	No description
SMART	SM00355	130	144	164	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: 491 aa Download sequence Send to blast
MAASSTPAQL FGIREEEQNQ VKQQHSAVPS SSNAPAAAPP KKKRNQPGTP NAEVIALSPK 60 TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKT TKEVRRKVYL CPEPGCVHHD 120 PARALGDLTG IKKHYSRKHG EKKWKCEKCS KRYAVQSDWK AHSKTCGTRE YRCDCGTLFS 180 RRDSFITHRA FCDALAQESA RHPTPMSTIG SHLYGSSNMG LGLSQEFHED QQSQHGGLLT 240 NKPFHGLVHL PDLQNNTNNP SSAANLFNLS FFSNSSNTNS MLSNTNNANN STNMPSSGFN 300 IIGDQISSGV PSLFSTSLQN ENAVSHMSAT ALLQKAAQMG STSSNNSASL LRGFAGSSSA 360 NAKSDRPLVG PNFGGVFGEN ESHLQDLMNS LGGGSSSIFG GGSGGLHQNL TANMGGSDRL 420 TRDFLGVGQM VRTISGGFSQ RDLPPPVIQE EITRKKKQLQ VQELWLFHGN AFFLFLWSRT 480 LWMDDDVLTC *

Sequence ? help Back to Top

Protein Sequence Length: 491 aa Download sequence Send to blast

MAASSTPAQL FGIREEEQNQ VKQQHSAVPS SSNAPAAAPP KKKRNQPGTP NAEVIALSPK  60
TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKT TKEVRRKVYL CPEPGCVHHD  120
PARALGDLTG IKKHYSRKHG EKKWKCEKCS KRYAVQSDWK AHSKTCGTRE YRCDCGTLFS  180
RRDSFITHRA FCDALAQESA RHPTPMSTIG SHLYGSSNMG LGLSQEFHED QQSQHGGLLT  240
NKPFHGLVHL PDLQNNTNNP SSAANLFNLS FFSNSSNTNS MLSNTNNANN STNMPSSGFN  300
IIGDQISSGV PSLFSTSLQN ENAVSHMSAT ALLQKAAQMG STSSNNSASL LRGFAGSSSA  360
NAKSDRPLVG PNFGGVFGEN ESHLQDLMNS LGGGSSSIFG GGSGGLHQNL TANMGGSDRL  420
TRDFLGVGQM VRTISGGFSQ RDLPPPVIQE EITRKKKQLQ VQELWLFHGN AFFLFLWSRT  480
LWMDDDVLTC *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-35	140	201	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-35	140	201	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Vvi.3465	0.0	flower\| fruit\| inflorescence\| leaf

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00256	DAP	Transfer from AT2G02080	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM486639	0.0	AM486639.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X099428.3, clone ENTAV 115.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002268279.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Swissprot	Q8GYC1	1e-138	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	F6HG27	0.0	F6HG27_VITVI; Uncharacterized protein
STRING	VIT_01s0010g02100.t01	0.0	(Vitis vinifera)

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

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-116	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	GSVIVT01010284001

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]