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

Cla002080

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

C2H2

Protein Properties

Length: 429aa MW: 47057.1 Da PI: 8.8326

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla002080	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19	3.9e-06	51	73	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H Cla002080 51 FVCEICGKGFQRDQNLQLHRRGH 73 89*******************88 PP
2	zf-C2H2	13.6	0.00019	127	149	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Cla002080 127 WKCEKCSKRYAVQSDWKAHSKTC 149 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.46E-6	50	73	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.2E-5	51	73	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.614	51	73	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.012	51	73	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	53	73	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.4E-4	115	148	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.46E-6	122	147	No hit	No description
SMART	SM00355	130	127	147	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: 429 aa Download sequence Send to blast
MADDEFSDCF LQIPLTGSNP SKKKRNLPGT PDPEAEVIAL SPKTLMATNR FVCEICGKGF 60 QRDQNLQLHR RGHNLPWKLK QRSSKEPKKR VYVCPEKSCV HHHPSRALGD LTGIKKHFCR 120 KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYKCDCGT LFSRRDSFIT HRAFCDALAE 180 ETARVKAGTT ISNNFNYNLM GAGSCRDDET GLFMAQQLGS IFKPISVKEA TMAISSSGVS 240 LRSNNNYNNL QMIGGMMMNN NSGGVMYCED SLWGSSVQMG DYNQNQGLLM NNGGGVSSLY 300 SHQLQQLNQT QMGNMSATAL LQKAAEIGPT SSTTSAPSLL LLQQQQGFLF NNNGTQYCNS 360 SSTTNPIVVV ENGNNEMYTA KRRRTESEIE CGSGSGTMGP GTGAGETRDF LGVGAKTICH 420 ASASINGWI

Sequence ? help Back to Top

Protein Sequence Length: 429 aa Download sequence Send to blast

MADDEFSDCF LQIPLTGSNP SKKKRNLPGT PDPEAEVIAL SPKTLMATNR FVCEICGKGF  60
QRDQNLQLHR RGHNLPWKLK QRSSKEPKKR VYVCPEKSCV HHHPSRALGD LTGIKKHFCR  120
KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYKCDCGT LFSRRDSFIT HRAFCDALAE  180
ETARVKAGTT ISNNFNYNLM GAGSCRDDET GLFMAQQLGS IFKPISVKEA TMAISSSGVS  240
LRSNNNYNNL QMIGGMMMNN NSGGVMYCED SLWGSSVQMG DYNQNQGLLM NNGGGVSSLY  300
SHQLQQLNQT QMGNMSATAL LQKAAEIGPT SSTTSAPSLL LLQQQQGFLF NNNGTQYCNS  360
SSTTNPIVVV ENGNNEMYTA KRRRTESEIE CGSGSGTMGP GTGAGETRDF LGVGAKTICH  420
ASASINGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-36	123	194	3	71	Zinc finger protein JACKDAW
5b3h_F	2e-36	123	194	3	71	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}.

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681916	1e-162	LN681916.1 Cucumis melo genomic scaffold, anchoredscaffold00037.
GenBank	LN713265	1e-162	LN713265.1 Cucumis melo genomic chromosome, chr_11.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004138788.1	0.0	PREDICTED: zinc finger protein MAGPIE
Swissprot	Q9ZWA6	1e-132	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A0A0LQA1	0.0	A0A0A0LQA1_CUCSA; Uncharacterized protein
STRING	XP_004170825.1	0.0	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF181	34	275

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-119	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]