PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

C2H2

Protein Properties

Length: 461aa MW: 50768.2 Da PI: 9.2061

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vang0184s00190.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.7	8.7e-05	60	82	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C k F r nL+ H r H Vang0184s00190.1 60 FVCEICLKGFQRDQNLQLHRRGH 82 89*******************88 PP
2	zf-C2H2	13.5	0.00021	136	158	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Vang0184s00190.1 136 WKCEKCSKRYAVQSDWKAHSKTC 158 58*****************9998 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-4	59	82	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.35E-5	59	82	No hit	No description
PROSITE profile	PS50157	10.305	60	82	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	62	82	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.5E-4	124	157	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.35E-5	131	156	No hit	No description

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: 461 aa Download sequence Send to blast
MLQKMDDGEI SNAFPLQNPS TAASNQPPVL KRKRNLPGNP DPEAEVIALS PKTLMATNRF 60 VCEICLKGFQ RDQNLQLHRR GHNLPWKLKQ RSSKEVRKRV YVCPEKTCVH HHPSRALGDL 120 TGIKKHFCRK HGEKKWKCEK CSKRYAVQSD WKAHSKTCGT REYKCDCGTI FSRRDSFITH 180 RAFCDALAEE TARVNAATNI SNYSIMQNPL GSNMATHFSS FYKPNSCAEE PVPGNQTSKG 240 LSLWMSQTSQ AHQTIANNNL HEFHQLGSGT SPTSIYCGGN PLAPCSNPPP SNYQLNWVFG 300 NKVSPNGSQE LSSTASLPLV NNIVKDNPNL QLISVPSLYS SQHQSHQTTS ANMSATALLQ 360 KAAQIGTTSS DPSLFLGSIG LKCNSPGQDG NKFCGMYGSS SVLTGHEGEN NYSGDLSQMP 420 PTKRRHVQNE ESVWGQTRDF LGVGGANHLP PFINQRMDLI *

Sequence ? help Back to Top

Protein Sequence Length: 461 aa Download sequence Send to blast

MLQKMDDGEI SNAFPLQNPS TAASNQPPVL KRKRNLPGNP DPEAEVIALS PKTLMATNRF  60
VCEICLKGFQ RDQNLQLHRR GHNLPWKLKQ RSSKEVRKRV YVCPEKTCVH HHPSRALGDL  120
TGIKKHFCRK HGEKKWKCEK CSKRYAVQSD WKAHSKTCGT REYKCDCGTI FSRRDSFITH  180
RAFCDALAEE TARVNAATNI SNYSIMQNPL GSNMATHFSS FYKPNSCAEE PVPGNQTSKG  240
LSLWMSQTSQ AHQTIANNNL HEFHQLGSGT SPTSIYCGGN PLAPCSNPPP SNYQLNWVFG  300
NKVSPNGSQE LSSTASLPLV NNIVKDNPNL QLISVPSLYS SQHQSHQTTS ANMSATALLQ  360
KAAQIGTTSS DPSLFLGSIG LKCNSPGQDG NKFCGMYGSS SVLTGHEGEN NYSGDLSQMP  420
PTKRRHVQNE ESVWGQTRDF LGVGGANHLP PFINQRMDLI *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-36	132	199	3	70	Zinc finger protein JACKDAW
5b3h_F	2e-36	132	199	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vang0184s00190.1

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	AP015040	0.0	AP015040.1 Vigna angularis var. angularis DNA, chromosome 7, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017423261.1	0.0	PREDICTED: LOW QUALITY PROTEIN: zinc finger protein MAGPIE
Swissprot	Q9ZWA6	1e-141	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A0S3SHL7	0.0	A0A0S3SHL7_PHAAN; Uncharacterized protein
STRING	XP_007149800.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4626	29	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-141	C2H2 family 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]