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

ORUFI08G25660.1

Organism

Oryza rufipogon

Taxonomic ID

4529

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: 501aa MW: 51782.6 Da PI: 8.8279

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORUFI08G25660.1	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 ORUFI08G25660.1 23 FVCEVCNKGFQREQNLQLHRRGH 45 89*******************88 PP
2	zf-C2H2	13.3	0.00024	99	121	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ ORUFI08G25660.1 99 WKCDKCNKRYAVQSDWKAHSKTC 121 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.82E-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
Pfam	PF12171	3.2E-5	23	45	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0041	23	45	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.094	23	45	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	25	45	IPR007087	Zinc finger, C2H2
SMART	SM00355	140	64	94	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.1E-5	87	120	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.82E-8	94	119	No hit	No description
SMART	SM00355	110	99	119	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: 501 aa Download sequence Send to blast
MYVDPDAEVV ALSPHTLLAT NRFVCEVCNK GFQREQNLQL HRRGHNLPWK LKQKNPKETR 60 RRVYLCPEPS CVHHDPSRAL GDLTGIKKHY SRKHGEKKWK CDKCNKRYAV QSDWKAHSKT 120 CGTREYRCDC GTLFSRRDSF ITHRAFCDAL AQESGRIMPP MGAALYAAAG AGMAIGGLTG 180 MAASHQLQPF QDHSSAITTA ANAAAQFDHL MATSSAAAGS PAFRAAQPTS SSSSPFYLGG 240 GGDDGQAHTS LLHGKPAFHG LMQLPEQQGS NGGGLLNLSY FSGGNGGHHH HHQEGRLVFP 300 DQFNGVAAGN GARAGSGEHG NSGNNADSGS IFSGNMMGGG GGFSSLYSSS DQTVPPPQMS 360 ATALLQKAAQ MGATTSSGGA GSVNSLLRGL GSGGGGGALN GKPAGAAGFI MSGESSSRST 420 ASQTAENESQ LRELMMNTLS ATGGGTGAGT VFVGGGFPGV DDGKLSTRDF LGVSGGAPGL 480 QLRHGGAAGM GMAGSLDQEM K

Sequence ? help Back to Top

Protein Sequence Length: 501 aa Download sequence Send to blast

MYVDPDAEVV ALSPHTLLAT NRFVCEVCNK GFQREQNLQL HRRGHNLPWK LKQKNPKETR  60
RRVYLCPEPS CVHHDPSRAL GDLTGIKKHY SRKHGEKKWK CDKCNKRYAV QSDWKAHSKT  120
CGTREYRCDC GTLFSRRDSF ITHRAFCDAL AQESGRIMPP MGAALYAAAG AGMAIGGLTG  180
MAASHQLQPF QDHSSAITTA ANAAAQFDHL MATSSAAAGS PAFRAAQPTS SSSSPFYLGG  240
GGDDGQAHTS LLHGKPAFHG LMQLPEQQGS NGGGLLNLSY FSGGNGGHHH HHQEGRLVFP  300
DQFNGVAAGN GARAGSGEHG NSGNNADSGS IFSGNMMGGG GGFSSLYSSS DQTVPPPQMS  360
ATALLQKAAQ MGATTSSGGA GSVNSLLRGL GSGGGGGALN GKPAGAAGFI MSGESSSRST  420
ASQTAENESQ LRELMMNTLS ATGGGTGAGT VFVGGGFPGV DDGKLSTRDF LGVSGGAPGL  480
QLRHGGAAGM GMAGSLDQEM K

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-33	95	157	3	65	Zinc finger protein JACKDAW
5b3h_F	1e-33	95	157	3	65	Zinc finger protein JACKDAW
Search in ModeBase

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-114	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0E0QM79	0.0	A0A0E0QM79_ORYRU; Uncharacterized protein
STRING	ORUFI08G25660.1	0.0	(Oryza rufipogon)

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
AT2G02070.1	1e-102	indeterminate(ID)-domain 5

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]