PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

C2H2

Protein Properties

Length: 509aa MW: 56029.6 Da PI: 8.9851

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopen07g027520.1	genome	spenn	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.6	4.6e-05	56	76	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H Sopen07g027520.1 56 CEICGKGFQRDQNLQLHRRGH 76 *******************88 PP
2	zf-C2H2	12.7	0.00038	130	152	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Sopen07g027520.1 130 WKCDKCSKRYAVQSDWKAHSKTC 152 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.43E-6	53	76	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.5E-5	53	76	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.076	54	76	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.489	54	76	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	56	76	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	8.4E-5	118	151	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.43E-6	125	150	No hit	No description
SMART	SM00355	140	130	150	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 509 aa Download sequence Send to blast
MTEEVISNGF THDNSIEGSN PPPLKKKRNL PGNPDPEAEV IALSPKTLMA TNRFLCEICG 60 KGFQRDQNLQ LHRRGHNLPW KLKQRTSKEV RKRVYVCPEK VCVHHHPSRA LGDLTGIKKH 120 YCRKHGEKKW KCDKCSKRYA VQSDWKAHSK TCGTREYRCD CGTIFSRRDS FVTHRAFCDA 180 LAEETARVTA ASNMHNPLAM ANNINYHFIG APLGPNMAQH FSSLFKPVSN NNNNNNNNEN 240 SDPMRRDQLS LWNNIGVAQE QDQIGININN LREIHQINPL LHHTSAPAPA PTPTPVYDAN 300 TLLASSRSNA PPVSYNNNNH INWDQFIGSK ISPINNAEQL SNTSSANISV PSLFSCQQQI 360 ALSSPSANMS ATALLQKAAQ IGATTTTTTT ATTDPSIFLG NFSMNNCNTN NNKNNDNNKF 420 CGFYVSTPTT NNSISNSLGS DVDQSSSVND FSATIHPIQM YPPSKRRHIQ IEDSVKGVGV 480 GGGAGGQTRD FLGVGVQSIC HPSSINGWI

Sequence ? help Back to Top

Protein Sequence Length: 509 aa Download sequence Send to blast

MTEEVISNGF THDNSIEGSN PPPLKKKRNL PGNPDPEAEV IALSPKTLMA TNRFLCEICG  60
KGFQRDQNLQ LHRRGHNLPW KLKQRTSKEV RKRVYVCPEK VCVHHHPSRA LGDLTGIKKH  120
YCRKHGEKKW KCDKCSKRYA VQSDWKAHSK TCGTREYRCD CGTIFSRRDS FVTHRAFCDA  180
LAEETARVTA ASNMHNPLAM ANNINYHFIG APLGPNMAQH FSSLFKPVSN NNNNNNNNEN  240
SDPMRRDQLS LWNNIGVAQE QDQIGININN LREIHQINPL LHHTSAPAPA PTPTPVYDAN  300
TLLASSRSNA PPVSYNNNNH INWDQFIGSK ISPINNAEQL SNTSSANISV PSLFSCQQQI  360
ALSSPSANMS ATALLQKAAQ IGATTTTTTT ATTDPSIFLG NFSMNNCNTN NNKNNDNNKF  420
CGFYVSTPTT NNSISNSLGS DVDQSSSVND FSATIHPIQM YPPSKRRHIQ IEDSVKGVGV  480
GGGAGGQTRD FLGVGVQSIC HPSSINGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-35	126	193	3	70	Zinc finger protein JACKDAW
5b3h_F	1e-35	126	193	3	70	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00125	DAP	Transfer from AT1G03840	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

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	HG975446	0.0	HG975446.1 Solanum pennellii chromosome ch07, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015080934.1	0.0	zinc finger protein NUTCRACKER
Swissprot	Q9ZWA6	1e-154	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	M1AJS6	0.0	M1AJS6_SOLTU; Uncharacterized protein
STRING	Solyc07g053570.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44160.1	1e-129	C2H2-like zinc finger protein

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]