PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

XP_010540892.1

Organism

Tarenaya hassleriana

Taxonomic ID

28532

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya

Family

C2H2

Protein Properties

Length: 477aa MW: 52253.4 Da PI: 8.7007

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010540892.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.8	4.4e-06	54	76	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H XP_010540892.1 54 FVCEICGKGFQRDQNLQLHRRGH 76 89*******************88 PP
2	zf-C2H2	19.5	2.6e-06	132	154	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ykC++C+k++ +s+ k H++t+ XP_010540892.1 132 YKCEKCSKRYAVPSDWKAHMKTC 154 9********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	9.98E-8	53	76	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-5	54	76	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.614	54	76	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.012	54	76	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	56	76	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	5.0E-6	120	153	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.98E-8	127	153	No hit	No description
SMART	SM00355	26	132	152	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: 477 aa Download sequence Send to blast
MVAEDAISSG FVANPNPHQS LPLAKKKRNL PGNPDPEAEV IALSPNTLMA TNRFVCEICG 60 KGFQRDQNLQ LHRRGHNLPW KLKQRANKDA AVRKRVYVCP EKACVHHHPS RALGDLTGIK 120 KHFCRKHGDK KYKCEKCSKR YAVPSDWKAH MKTCGTREYR CDCGSVFSRR DSFITHRAFC 180 DALAEETARI NAVSQFTGGN YHHLMGTPLM FGPNTTSHNF SSLPKPIDYS LTDETRPASL 240 SLWTAQGQQT QNGIPMANSH ANPQAQFHQI GLMNSRSSLI NNDHNLISCS SNPQSFDNNY 300 NNLHNLNWVF GSKLSSSSNE EFIFGGNVNN KDATTVGVPS LYSKQHQITT GQAEPAAGNS 360 ATALLQKAAQ IGATTTDPSF LASFGLRTGN GPCTVLPVQD GNKYYGDMFG SNSMVTSLGS 420 DHDTENSTNE ISTLNQLPTQ PPAKRRRVEE GEGGGGGEGQ TRDFLGVGVE PMSHPWI

Sequence ? help Back to Top

Protein Sequence Length: 477 aa Download sequence Send to blast

MVAEDAISSG FVANPNPHQS LPLAKKKRNL PGNPDPEAEV IALSPNTLMA TNRFVCEICG  60
KGFQRDQNLQ LHRRGHNLPW KLKQRANKDA AVRKRVYVCP EKACVHHHPS RALGDLTGIK  120
KHFCRKHGDK KYKCEKCSKR YAVPSDWKAH MKTCGTREYR CDCGSVFSRR DSFITHRAFC  180
DALAEETARI NAVSQFTGGN YHHLMGTPLM FGPNTTSHNF SSLPKPIDYS LTDETRPASL  240
SLWTAQGQQT QNGIPMANSH ANPQAQFHQI GLMNSRSSLI NNDHNLISCS SNPQSFDNNY  300
NNLHNLNWVF GSKLSSSSNE EFIFGGNVNN KDATTVGVPS LYSKQHQITT GQAEPAAGNS  360
ATALLQKAAQ IGATTTDPSF LASFGLRTGN GPCTVLPVQD GNKYYGDMFG SNSMVTSLGS  420
DHDTENSTNE ISTLNQLPTQ PPAKRRRVEE GEGGGGGEGQ TRDFLGVGVE PMSHPWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-33	128	194	3	69	Zinc finger protein JACKDAW
5b3h_F	6e-33	128	194	3	69	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	443	447	KRRRV

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_010540892.1

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	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010540892.1	0.0	PREDICTED: zinc finger protein NUTCRACKER-like
Swissprot	Q9ZWA6	1e-140	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A061E4I0	0.0	A0A061E4I0_THECC; C2H2 and C2HC zinc fingers superfamily protein
STRING	XP_010540892.1	0.0	(Tarenaya hassleriana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3710	26	60

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-136	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]