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

OGLUM01G23770.1

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: 534aa MW: 56948.4 Da PI: 7.8703

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM01G23770.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.6	5.1e-06	95	117	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H OGLUM01G23770.1 95 FVCEICGKGFQRDQNLQLHRRGH 117 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.67E-7	94	117	No hit	No description
PROSITE profile	PS50157	11.614	95	117	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.5E-5	95	117	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.012	95	117	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	97	117	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	137	167	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.67E-7	167	192	No hit	No description
SMART	SM00355	160	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: 534 aa Download sequence Send to blast
MFHHHLQQQQ QQEEEEGGGL FLVEEAAEAA DQQQESSMSN LTSSASTAPP PPPPPSSGNN 60 GNNSNKRKRS LPGNPDPEAE VVALSPATLM ATNRFVCEIC GKGFQRDQNL QLHRRGHNLP 120 WKLKQRGSKE AVRKKVYICP EASCVHHDPS RALGDLTGIK KHFFRKHGEK KWKCDKCSKK 180 YAVHSDWKAH SKICGTREYK CDCGTIFSRR DSFITHRAFC DALTEESAKA IGGIPAAMAA 240 PGHHHHHHHH HHHQLLFSPP PVMAHHQELA ALQEQQQQQH HQDVMQSPHQ HQQQQLVQQN 300 CGYAVKPEMA PWPTTMPYDH HHPLLQPLCN ANAAATAQSS ATSAPPTTPQ LPAAAAAAHL 360 SATALLQKAA QMGATIGGAG TGAAGAHYAH MASPAGAGAP AGGSATFGLG LSCLNTHQDG 420 GGGGGNGLIP AGMMGHLART ASHGRSGEDV AGAGGGGGDG MTRDFLGLRA FSHRDILLAG 480 FDSSCMGHVN AAAGMAGYEP PPPHHGQPQH QHQQQQQQQQ GGSNEPWHGM GSHS

Sequence ? help Back to Top

Protein Sequence Length: 534 aa Download sequence Send to blast

MFHHHLQQQQ QQEEEEGGGL FLVEEAAEAA DQQQESSMSN LTSSASTAPP PPPPPSSGNN  60
GNNSNKRKRS LPGNPDPEAE VVALSPATLM ATNRFVCEIC GKGFQRDQNL QLHRRGHNLP  120
WKLKQRGSKE AVRKKVYICP EASCVHHDPS RALGDLTGIK KHFFRKHGEK KWKCDKCSKK  180
YAVHSDWKAH SKICGTREYK CDCGTIFSRR DSFITHRAFC DALTEESAKA IGGIPAAMAA  240
PGHHHHHHHH HHHQLLFSPP PVMAHHQELA ALQEQQQQQH HQDVMQSPHQ HQQQQLVQQN  300
CGYAVKPEMA PWPTTMPYDH HHPLLQPLCN ANAAATAQSS ATSAPPTTPQ LPAAAAAAHL  360
SATALLQKAA QMGATIGGAG TGAAGAHYAH MASPAGAGAP AGGSATFGLG LSCLNTHQDG  420
GGGGGNGLIP AGMMGHLART ASHGRSGEDV AGAGGGGGDG MTRDFLGLRA FSHRDILLAG  480
FDSSCMGHVN AAAGMAGYEP PPPHHGQPQH QHQQQQQQQQ GGSNEPWHGM GSHS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-33	168	229	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-33	168	229	3	64	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	121	134	KLKQRGSKEAVRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

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	AK289209	0.0	AK289209.1 Oryza sativa Japonica Group cDNA, clone: J100058I16, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015622202.1	0.0	protein indeterminate-domain 7
Swissprot	Q9ZWA6	1e-113	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A0D9YAR5	0.0	A0A0D9YAR5_9ORYZ; Uncharacterized protein
STRING	OGLUM01G23770.1	0.0	(Oryza glumipatula)

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
AT1G55110.1	6e-89	indeterminate(ID)-domain 7

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]