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

OBART02G27440.1

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: 215aa MW: 23740.2 Da PI: 10.2682

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART02G27440.1	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	4e-06	95	117	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H OBART02G27440.1 95 FVCEVCNKGFQREQNLQLHRRGH 117 89*******************88 PP
2	zf-C2H2	13.3	0.00025	172	194	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + OBART02G27440.1 172 WKCDKCSKRYAVQSDWKAHSKIC 194 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	2.3E-6	94	117	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.49E-8	94	117	No hit	No description
PROSITE profile	PS50157	11.094	95	117	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	95	117	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	1.1E-5	95	117	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	97	117	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.1E-4	160	193	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.49E-8	167	192	No hit	No description
SMART	SM00355	140	172	192	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: 215 aa Download sequence Send to blast
MASNSSAAAV AALFGIRDGD HEDQIKPLFA QQQQHHHHQP PMAPSNAAAA ASAAGSAAGQ 60 AAVAAPPAKK KRTLPDPDAE VIALSPKTLL ATNRFVCEVC NKGFQREQNL QLHRRGHNLP 120 WKLKQKNPLQ AQRRRVYLCP EPTCVHHDPS RALGDLTGIK KHFCRKHGEK KWKCDKCSKR 180 YAVQSDWKAH SKICGTREYR CDCGTLFSRL ISPSA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-22	168	209	3	44	Zinc finger protein JACKDAW
5b3h_F	6e-22	168	209	3	44	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	AK120603	0.0	AK120603.1 Oryza sativa Japonica Group cDNA clone:J013149P10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015626115.1	1e-155	protein indeterminate-domain 4, chloroplastic
Refseq	XP_015626116.1	1e-155	protein indeterminate-domain 4, chloroplastic
Refseq	XP_015626117.1	1e-155	protein indeterminate-domain 4, chloroplastic
Refseq	XP_015626118.1	1e-155	protein indeterminate-domain 4, chloroplastic
Swissprot	Q9SCQ6	7e-90	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0D3F8R4	1e-158	A0A0D3F8R4_9ORYZ; Uncharacterized protein
TrEMBL	A0A0D9YWA5	1e-153	A0A0D9YWA5_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0NJ25	1e-153	A0A0E0NJ25_ORYRU; Uncharacterized protein
TrEMBL	B8AGE9	1e-153	B8AGE9_ORYSI; Uncharacterized protein
TrEMBL	Q6EU15	1e-153	Q6EU15_ORYSJ; Finger protein pcp1-like
STRING	OGLUM02G28000.1	1e-154	(Oryza glumipatula)
STRING	ORUFI02G28900.1	1e-154	(Oryza rufipogon)
STRING	OS02T0672100-01	1e-154	(Oryza sativa)
STRING	OBART02G27440.1	1e-159	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G02670.1	2e-89	indeterminate(ID)-domain 12

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]