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_016475004.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

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: 520aa MW: 57087.7 Da PI: 9.4973

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016475004.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.5e-05	90	112	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H XP_016475004.1 90 FVCEICNKGFQRDQNLQLHRRGH 112 89*******************88 PP
2	zf-C2H2	15.6	4.7e-05	166	188	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ XP_016475004.1 166 WKCDKCSKKYAVQSDWKAHQKTC 188 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.7E-5	89	112	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	7.13E-8	89	112	No hit	No description
PROSITE profile	PS50157	10.949	90	112	IPR007087	Zinc finger, C2H2
Pfam	PF12171	8.3E-5	90	112	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	90	112	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	92	112	IPR007087	Zinc finger, C2H2
SMART	SM00355	77	131	161	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-5	154	187	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	7.13E-8	161	187	No hit	No description
SMART	SM00355	94	166	186	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: 520 aa Download sequence Send to blast
MSNISGEEGS FSSGNTGEEV QKHNQAAHLK TSNNISSITS TSNGSSSQSQ QQQNKHQPLA 60 KKKRNLPGTP DPNAEVIALS PTTLMATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ 120 RTTTEVRKRV YICPEPTCVH HNPARALGDL TGIKKHYSRK HGEKKWKCDK CSKKYAVQSD 180 WKAHQKTCGT REYKCDCGTI FSRRDSFITH RAFCDALAEE NNKVNQSLMN NMDPNLQSGQ 240 MHVLMSSNAS LGLSDFNNFD PKTPLKSLPQ ELLPIPFKSM NNNMAAGGMF STTSGNLFGS 300 PRSVASSSSG LQLSSNIPSN FNYLQDSSKN GTVQGQAPMS ATALLQKAAQ MGATASGSIN 360 SPMMQKSFVT SAMAGPYVSP SPYENFQTQP DNNRPSLAAV MNDMGMYSGI LMSNDQNING 420 GFVKNVAEHD QENNNTNDSS SVIRVRNQST VFGHNGNNDM LTVDFLGVGG SSRPPSLHEQ 480 QRLEAAINQQ RMQASAINPF HQQNISHGNN SAMEKPIWDV

Sequence ? help Back to Top

Protein Sequence Length: 520 aa Download sequence Send to blast

MSNISGEEGS FSSGNTGEEV QKHNQAAHLK TSNNISSITS TSNGSSSQSQ QQQNKHQPLA  60
KKKRNLPGTP DPNAEVIALS PTTLMATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ  120
RTTTEVRKRV YICPEPTCVH HNPARALGDL TGIKKHYSRK HGEKKWKCDK CSKKYAVQSD  180
WKAHQKTCGT REYKCDCGTI FSRRDSFITH RAFCDALAEE NNKVNQSLMN NMDPNLQSGQ  240
MHVLMSSNAS LGLSDFNNFD PKTPLKSLPQ ELLPIPFKSM NNNMAAGGMF STTSGNLFGS  300
PRSVASSSSG LQLSSNIPSN FNYLQDSSKN GTVQGQAPMS ATALLQKAAQ MGATASGSIN  360
SPMMQKSFVT SAMAGPYVSP SPYENFQTQP DNNRPSLAAV MNDMGMYSGI LMSNDQNING  420
GFVKNVAEHD QENNNTNDSS SVIRVRNQST VFGHNGNNDM LTVDFLGVGG SSRPPSLHEQ  480
QRLEAAINQQ RMQASAINPF HQQNISHGNN SAMEKPIWDV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	162	231	3	71	Zinc finger protein JACKDAW
5b3h_F	1e-34	162	231	3	71	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00403	DAP	Transfer from AT3G50700	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975448	1e-133	HG975448.1 Solanum pennellii chromosome ch09, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016475004.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-117	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A1S4AEF8	0.0	A0A1S4AEF8_TOBAC; protein indeterminate-domain 2-like
STRING	XP_009620710.1	0.0	(Nicotiana tomentosiformis)

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
AT3G50700.1	1e-106	indeterminate(ID)-domain 2

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]