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

OBART08G23150.1

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: 502aa MW: 51783.7 Da PI: 8.825

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART08G23150.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.5	1.2e-05	23	45	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H OBART08G23150.1 23 FVCEVCNKGFQREQNLQLHRRGH 45 89*******************88 PP
2	zf-C2H2	13.3	0.00024	100	122	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ OBART08G23150.1 100 WKCDKCNKRYAVQSDWKAHSKTC 122 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.2E-8	22	45	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.7E-6	22	45	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0041	23	45	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	3.2E-5	23	45	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	23	45	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	25	45	IPR007087	Zinc finger, C2H2
SMART	SM00355	31	65	95	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.1E-5	88	121	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.2E-8	95	120	No hit	No description
SMART	SM00355	110	100	120	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: 502 aa Download sequence Send to blast
MYVDPDAEVV ALSPHTLLAT NRFVCEVCNK GFQREQNLQL HRRGHNLPWK LKQKNPKEVV 60 RKKVYVCPEA GCVHHDPSRA LGDLTGIKKH YSRKHGEKKW KCDKCNKRYA VQSDWKAHSK 120 TCGTREYRCD CGTLFSRRDS FITHRAFCDA LAQESGRIMP PMGAALYAAA GAGMAIGGLT 180 GMAASHQLQP FQDHSSAITT AANAAAQFDH LMATSSAAAG SPAFRAAQPT SSSSSPFYLG 240 GGGDDGQAHT SLLHGKPAFH GLMQLPEQQG SNGGGLLNLS YFSGGNGGHH HHHQEGRLVF 300 PDQFNGVAAG NGARAGSGEH GNSGNNADSG SIFSGNMMGG GGGFSSLYSS SDQTVPPPQM 360 SATALLQKAA QMGATTSSGG AGSVNSLLRG LGSGGGGGTL NGKPAGAAGF IMSGESSSRS 420 TASQTAENES QLRELMMNTL SATGGGTGAG TVFVGGGFPG VDDGKLSTRD FLGVSGGAPG 480 LQLRHGGAAG MGMAGSLDQE MK

Sequence ? help Back to Top

Protein Sequence Length: 502 aa Download sequence Send to blast

MYVDPDAEVV ALSPHTLLAT NRFVCEVCNK GFQREQNLQL HRRGHNLPWK LKQKNPKEVV  60
RKKVYVCPEA GCVHHDPSRA LGDLTGIKKH YSRKHGEKKW KCDKCNKRYA VQSDWKAHSK  120
TCGTREYRCD CGTLFSRRDS FITHRAFCDA LAQESGRIMP PMGAALYAAA GAGMAIGGLT  180
GMAASHQLQP FQDHSSAITT AANAAAQFDH LMATSSAAAG SPAFRAAQPT SSSSSPFYLG  240
GGGDDGQAHT SLLHGKPAFH GLMQLPEQQG SNGGGLLNLS YFSGGNGGHH HHHQEGRLVF  300
PDQFNGVAAG NGARAGSGEH GNSGNNADSG SIFSGNMMGG GGGFSSLYSS SDQTVPPPQM  360
SATALLQKAA QMGATTSSGG AGSVNSLLRG LGSGGGGGTL NGKPAGAAGF IMSGESSSRS  420
TASQTAENES QLRELMMNTL SATGGGTGAG TVFVGGGFPG VDDGKLSTRD FLGVSGGAPG  480
LQLRHGGAAG MGMAGSLDQE MK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-33	96	158	3	65	Zinc finger protein JACKDAW
5b3h_F	1e-33	96	158	3	65	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	49	62	KLKQKNPKEVVRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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). {ECO:0000269\|PubMed:22898356, ECO:0000269\|PubMed:24821766}.

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	AK072128	0.0	AK072128.1 Oryza sativa Japonica Group cDNA clone:J013124C13, full insert sequence.
GenBank	AK099830	0.0	AK099830.1 Oryza sativa Japonica Group cDNA clone:J013105K20, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015650033.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883278.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883279.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883280.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883281.1	0.0	protein indeterminate-domain 6, chloroplastic
Swissprot	Q9ZUL3	1e-110	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0D3H321	0.0	A0A0D3H321_9ORYZ; Uncharacterized protein
STRING	OBART08G23150.1	0.0	(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
AT1G55110.1	1e-100	indeterminate(ID)-domain 7

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]