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

Niben101Scf00509g00020.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

C2H2

Protein Properties

Length: 473aa MW: 52285.7 Da PI: 10.0564

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf00509g00020.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.8e-05	67	89	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Niben101Scf00509g00020.1 67 FICEICNKGFQRDQNLQLHRRGH 89 89*******************88 PP
2	zf-C2H2	11.3	0.0011	143	165	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H + + Niben101Scf00509g00020.1 143 WKCDKCSKKYAVQSDWKAHSKIC 165 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.2E-5	66	89	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.96E-7	66	89	No hit	No description
PROSITE profile	PS50157	10.845	67	89	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.022	67	89	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	5.6E-5	67	89	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	69	89	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	108	138	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.2E-4	131	164	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.96E-7	138	163	No hit	No description
SMART	SM00355	150	143	163	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 473 aa Download sequence Send to blast
MMSDNGLSSL PSSIRGFIQD PNPSNNIPNP NPNPTSNKRK RNLPGNPDPD AEVIALSPKS 60 LMATNRFICE ICNKGFQRDQ NLQLHRRGHN LPWKLKQRTN KEVKKKVYIC PEKTCVHHDP 120 SRALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVQSDWKA HSKICGTREY KCDCGTLFSR 180 KDSFITHRAF CDALAEESAR FTSVPNTANL NLRNQLMNGG MTNHQQQRGI NSQFGSLFRP 240 ELMGLGLDPS SQLYLDGQKP RLPLWLDNAN SGNLNDFLAT PSSSSLPYDL VQMASHNSNN 300 QWLINGNGAS SSSMASPRVV LKEEEEINRR NLSENTINSS KYYNNSQQET TPPQAAHMSA 360 TALLQKAAQI GSTRSSNSAL FSSTGFGHMG PSKFGSTLAT HDNIQGNNAL LLGDTNANSL 420 MMMQNKGKQV NIPSGNTEGS LTRDFLGVGG NENRPFLQQR ELAKFGNSAS SIF

Sequence ? help Back to Top

Protein Sequence Length: 473 aa Download sequence Send to blast

MMSDNGLSSL PSSIRGFIQD PNPSNNIPNP NPNPTSNKRK RNLPGNPDPD AEVIALSPKS  60
LMATNRFICE ICNKGFQRDQ NLQLHRRGHN LPWKLKQRTN KEVKKKVYIC PEKTCVHHDP  120
SRALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVQSDWKA HSKICGTREY KCDCGTLFSR  180
KDSFITHRAF CDALAEESAR FTSVPNTANL NLRNQLMNGG MTNHQQQRGI NSQFGSLFRP  240
ELMGLGLDPS SQLYLDGQKP RLPLWLDNAN SGNLNDFLAT PSSSSLPYDL VQMASHNSNN  300
QWLINGNGAS SSSMASPRVV LKEEEEINRR NLSENTINSS KYYNNSQQET TPPQAAHMSA  360
TALLQKAAQI GSTRSSNSAL FSSTGFGHMG PSKFGSTLAT HDNIQGNNAL LLGDTNANSL  420
MMMQNKGKQV NIPSGNTEGS LTRDFLGVGG NENRPFLQQR ELAKFGNSAS SIF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-37	139	206	3	70	Zinc finger protein JACKDAW
5b3h_F	2e-37	139	206	3	70	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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). {ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019234944.1	0.0	PREDICTED: protein indeterminate-domain 9-like isoform X1
Swissprot	Q944L3	1e-126	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	A0A1J6KXM9	0.0	A0A1J6KXM9_NICAT; Protein indeterminate-domain 9
STRING	XP_009771226.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G45260.1	1e-116	C2H2-like zinc finger protein

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]