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

OGLUM01G47420.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

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: 467aa MW: 49086 Da PI: 8.0165

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM01G47420.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.8	4.3e-06	81	103	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H OGLUM01G47420.1 81 FVCEICGKGFQRDQNLQLHRRGH 103 89*******************88 PP
2	zf-C2H2	10.7	0.0016	164	186	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC Cgk++ +s+ k H +++ OGLUM01G47420.1 164 WKCDRCGKRYAVHSDWKAHSKVC 186 58*****************9877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.54E-8	80	103	No hit	No description
SMART	SM00355	0.012	81	103	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.3E-5	81	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.614	81	103	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	83	103	IPR007087	Zinc finger, C2H2
SMART	SM00355	240	129	159	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.1E-4	152	185	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.54E-8	159	184	No hit	No description
SMART	SM00355	160	164	184	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: 467 aa Download sequence Send to blast
MEEFELQQQP YYSKLLLGSP LEIANVDDSD LQLVAGVPSD PPPAPPTAVK KKKKRSLPGT 60 PDPSAEVVAL SPRTLLATNR FVCEICGKGF QRDQNLQLHR RGHNLPWKLR QRGGAGGGGG 120 GEPPRKRVYV CPEASCVHHS PSRALGDLTG IKKHFCRKHG EKKWKCDRCG KRYAVHSDWK 180 AHSKVCGTRE YKRDSFVTHR AFCDALAQEN NKLAQPMNMA AVTSALQGQQ QAHHPVADDD 240 DAAGVKSPHL KMFPDVDNIV AAATAGNPLL PPPLSMAGCM LSSLAAPLSS PFLPGCKLGV 300 DAARDAAMVF PPAPAPAGSA AAIMSATALL QKAAELGATT STGCYGGVAF PAMGIAGGLD 360 RLPAIGHHLA PYDDVVVPAA LQGQTATQLV GFDLGGLLPG QLYGGGGGAM TRAIGSLMHG 420 GDQHAGVVDR RRGEGVRVVD YMGVDDDDDH GCFDGVGPFG PHIGPWA

Sequence ? help Back to Top

Protein Sequence Length: 467 aa Download sequence Send to blast

MEEFELQQQP YYSKLLLGSP LEIANVDDSD LQLVAGVPSD PPPAPPTAVK KKKKRSLPGT  60
PDPSAEVVAL SPRTLLATNR FVCEICGKGF QRDQNLQLHR RGHNLPWKLR QRGGAGGGGG  120
GEPPRKRVYV CPEASCVHHS PSRALGDLTG IKKHFCRKHG EKKWKCDRCG KRYAVHSDWK  180
AHSKVCGTRE YKRDSFVTHR AFCDALAQEN NKLAQPMNMA AVTSALQGQQ QAHHPVADDD  240
DAAGVKSPHL KMFPDVDNIV AAATAGNPLL PPPLSMAGCM LSSLAAPLSS PFLPGCKLGV  300
DAARDAAMVF PPAPAPAGSA AAIMSATALL QKAAELGATT STGCYGGVAF PAMGIAGGLD  360
RLPAIGHHLA PYDDVVVPAA LQGQTATQLV GFDLGGLLPG QLYGGGGGAM TRAIGSLMHG  420
GDQHAGVVDR RRGEGVRVVD YMGVDDDDDH GCFDGVGPFG PHIGPWA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-23	160	218	3	70	Zinc finger protein JACKDAW
5b3h_F	3e-23	160	218	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	3e-93	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0D9YJQ7	0.0	A0A0D9YJQ7_9ORYZ; Uncharacterized protein
STRING	OGLUM01G47420.1	0.0	(Oryza glumipatula)

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	6e-90	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]