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

NNU_009676-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

C2H2

Protein Properties

Length: 416aa MW: 46284 Da PI: 9.2086

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_009676-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.9	3.6e-05	8	28	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H NNU_009676-RA 8 CEICGKGFQRDQNLQLHRRGH 28 *******************88 PP
2	zf-C2H2	13.7	0.00019	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ NNU_009676-RA 82 WKCEKCSKRYAVQSDWKAHSKTC 104 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.62E-6	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.5E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.076	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.489	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.3E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.62E-6	77	102	No hit	No description
SMART	SM00355	130	82	102	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: 416 aa Download sequence Send to blast
MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EPRKRVYVCP EKTCVHHHPS 60 RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 120 DSFITHRAFC DALAEETARI TAASNIHNVT AGNINYHFLG TSSARPNMVQ HFSPVFKPIQ 180 SSNDGAIDQS RPGLSLWMNQ GSQSSQALMN NNLPELHQIG SAGLGTLFAT DPLISSCSNI 240 PSQMDYPVNW DFGNKLSSTN TGELTSTSLP LTNLKEVGSP RFSSAPSLYS TQHHHNQLPP 300 PIMSATALLQ KAAAIGSTWN EPSFLESFGV KCNNSQVVQD GNKYNGLFAP NSVPTNLTTD 360 LENSASDLSS MNNQLQMYPR KRQNTQKDDT EGGQTRDFLG VGVHQTICPS TINGWI

Sequence ? help Back to Top

Protein Sequence Length: 416 aa Download sequence Send to blast

MATNRFLCEI CGKGFQRDQN LQLHRRGHNL PWKLKQRTSK EPRKRVYVCP EKTCVHHHPS  60
RALGDLTGIK KHFCRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  120
DSFITHRAFC DALAEETARI TAASNIHNVT AGNINYHFLG TSSARPNMVQ HFSPVFKPIQ  180
SSNDGAIDQS RPGLSLWMNQ GSQSSQALMN NNLPELHQIG SAGLGTLFAT DPLISSCSNI  240
PSQMDYPVNW DFGNKLSSTN TGELTSTSLP LTNLKEVGSP RFSSAPSLYS TQHHHNQLPP  300
PIMSATALLQ KAAAIGSTWN EPSFLESFGV KCNNSQVVQD GNKYNGLFAP NSVPTNLTTD  360
LENSASDLSS MNNQLQMYPR KRQNTQKDDT EGGQTRDFLG VGVHQTICPS TINGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-37	78	145	3	70	Zinc finger protein JACKDAW
5b3h_F	5e-37	78	145	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}.

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010260340.1	0.0	PREDICTED: zinc finger protein MAGPIE-like
Swissprot	Q9ZWA6	1e-127	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A1U8A607	0.0	A0A1U8A607_NELNU; zinc finger protein MAGPIE-like
STRING	XP_010260340.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.2	1e-130	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]