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

OBART01G43110.1

Organism

Oryza barthii

Taxonomic ID

65489

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C2H2

Protein Properties

Length: 460aa MW: 48775.7 Da PI: 8.1456

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART01G43110.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.9	4.2e-06	81	103	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H OBART01G43110.1 81 FVCEICGKGFQRDQNLQLHRRGH 103 89*******************88 PP
2	zf-C2H2	10.7	0.0016	157	179	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC Cgk++ +s+ k H +++ OBART01G43110.1 157 WKCDRCGKRYAVHSDWKAHSKVC 179 58*****************9877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.12E-7	80	103	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-5	81	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.012	81	103	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.614	81	103	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	83	103	IPR007087	Zinc finger, C2H2
SMART	SM00355	240	122	152	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.0E-4	145	178	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.12E-7	152	177	No hit	No description
SMART	SM00355	160	157	177	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: 460 aa Download sequence Send to blast
MEEFELQQQP YYSKLLLGSP LEIANVDDSD LQLVAGVPSD PPPAPPTAVK KKKKRSLPGT 60 PDPSAEVVAL SPRTLLATNR FVCEICGKGF QRDQNLQLHR RGHNLPWKLR QRSGKEPRKR 120 VYVCPEASCV HHSPSRALGD LTGIKKHFCR KHGEKKWKCD RCGKRYAVHS DWKAHSKVCG 180 TREYKRDSFV THRAFCDALA QENNKLAQPM NMAAVTSALQ GQQQAHHPVA DDDDAAGVKS 240 PHLKMFPDVD NIVAAATAGN PLLPPPLSMA GCMLSSLAAP LSSPFLPGCK LGVDAARDAA 300 MVFPPPPAPA GSAAAIMSAT ALLQKAAELG ATTSTGCYGG VAFPAMGIAG GLDRLPSIGH 360 HLAPYDDVVV PAALQGQTAT QLVGFDLGGL LPGQLYGGGG GAMTRAIGSL MHGGDQHAGV 420 VDRRRGEGVR VVDYMGVDDD DDHGCFDGVG PFGPHIGPWA

Sequence ? help Back to Top

Protein Sequence Length: 460 aa Download sequence Send to blast

MEEFELQQQP YYSKLLLGSP LEIANVDDSD LQLVAGVPSD PPPAPPTAVK KKKKRSLPGT  60
PDPSAEVVAL SPRTLLATNR FVCEICGKGF QRDQNLQLHR RGHNLPWKLR QRSGKEPRKR  120
VYVCPEASCV HHSPSRALGD LTGIKKHFCR KHGEKKWKCD RCGKRYAVHS DWKAHSKVCG  180
TREYKRDSFV THRAFCDALA QENNKLAQPM NMAAVTSALQ GQQQAHHPVA DDDDAAGVKS  240
PHLKMFPDVD NIVAAATAGN PLLPPPLSMA GCMLSSLAAP LSSPFLPGCK LGVDAARDAA  300
MVFPPPPAPA GSAAAIMSAT ALLQKAAELG ATTSTGCYGG VAFPAMGIAG GLDRLPSIGH  360
HLAPYDDVVV PAALQGQTAT QLVGFDLGGL LPGQLYGGGG GAMTRAIGSL MHGGDQHAGV  420
VDRRRGEGVR VVDYMGVDDD DDHGCFDGVG PFGPHIGPWA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-23	153	211	3	70	Zinc finger protein JACKDAW
5b3h_F	3e-23	153	211	3	70	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}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK070390	0.0	AK070390.1 Oryza sativa Japonica Group cDNA clone:J023050E05, full insert sequence.
GenBank	AP003246	0.0	AP003246.3 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0423A12.
GenBank	AP003266	0.0	AP003266.3 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0492G09.
GenBank	AP014957	0.0	AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015635962.1	0.0	protein indeterminate-domain 12
Swissprot	Q9SCQ6	9e-98	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0D3EYD2	0.0	A0A0D3EYD2_9ORYZ; Uncharacterized protein
STRING	OBART01G43110.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12554	25	34

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	9e-95	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]