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_024934-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: 429aa MW: 47891.1 Da PI: 8.905

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_024934-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	3.7e-05	33	53	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H NNU_024934-RA 33 CEICGKGFQRDQNLQLHRRGH 53 *******************88 PP
2	zf-C2H2	13.6	0.00019	107	129	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ NNU_024934-RA 107 WKCEKCSKRYAVQSDWKAHSKTC 129 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	3.6E-5	30	53	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.66E-6	30	53	No hit	No description
SMART	SM00355	0.076	31	53	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.489	31	53	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	33	53	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.4E-4	95	128	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.66E-6	102	127	No hit	No description
SMART	SM00355	130	107	127	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: 429 aa Download sequence Send to blast
MLEKMAGEAI SDPEAEVIAL SPKTLMATNR FLCEICGKGF QRDQNLQLHR RGHNLPWKLR 60 QRTSKEPKKR VYVCPEKTCV HHHPSRALGD LTGIKKHFCR KHGEKKWKCE KCSKRYAVQS 120 DWKAHSKTCG TREYRCDCGT LFSRRDSFIT HRAFCEALAE ETARVTAAYK MNNANAGNIS 180 YPFMGTSLRS NMVQHFSSVF KPIPSSNGAM DQTRPGLSLW MDQESQTNQA MSNNLTELHQ 240 MGSSSIGTVY ADPFSNPPHT DYQVNWAFGN KLSSTNAGEL TSTTPPLTNL KEVGSPRLAS 300 APSLYSTQHY HHQLPPAIMS ATALLQKAAE IGATSTNPSF LESYGLKCNN NQIQDGNKYN 360 DLFSPSLIPT NLGSDLDNSV RDLTTLNHLQ MYPRKRPKTL NDDAEEGQTR DFLGVGVQTI 420 CPSSINGWI

Sequence ? help Back to Top

Protein Sequence Length: 429 aa Download sequence Send to blast

MLEKMAGEAI SDPEAEVIAL SPKTLMATNR FLCEICGKGF QRDQNLQLHR RGHNLPWKLR  60
QRTSKEPKKR VYVCPEKTCV HHHPSRALGD LTGIKKHFCR KHGEKKWKCE KCSKRYAVQS  120
DWKAHSKTCG TREYRCDCGT LFSRRDSFIT HRAFCEALAE ETARVTAAYK MNNANAGNIS  180
YPFMGTSLRS NMVQHFSSVF KPIPSSNGAM DQTRPGLSLW MDQESQTNQA MSNNLTELHQ  240
MGSSSIGTVY ADPFSNPPHT DYQVNWAFGN KLSSTNAGEL TSTTPPLTNL KEVGSPRLAS  300
APSLYSTQHY HHQLPPAIMS ATALLQKAAE IGATSTNPSF LESYGLKCNN NQIQDGNKYN  360
DLFSPSLIPT NLGSDLDNSV RDLTTLNHLQ MYPRKRPKTL NDDAEEGQTR DFLGVGVQTI  420
CPSSINGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-35	103	167	3	67	Zinc finger protein JACKDAW
5b3h_F	3e-35	103	167	3	67	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	392	398	PRKRPKT

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010245572.1	0.0	PREDICTED: zinc finger protein MAGPIE-like
Swissprot	Q9ZWA6	1e-134	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A1U7ZCF8	0.0	A0A1U7ZCF8_NELNU; zinc finger protein MAGPIE-like
STRING	XP_010245572.1	0.0	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-137	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]