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

ORUFI09G20760.1

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: 465aa MW: 47690.9 Da PI: 9.1474

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORUFI09G20760.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.6	1.1e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H ORUFI09G20760.1 6 FVCEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	12.8	0.00037	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C +C+k++ +s+ k H +t+ ORUFI09G20760.1 82 WRCDKCSKRYAVQSDWKAHSKTC 104 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.2E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.73E-7	5	28	No hit	No description
PROSITE profile	PS50157	11.094	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	6	28	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.9E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.5E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.73E-7	77	102	No hit	No description
SMART	SM00355	150	82	102	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: 465 aa Download sequence Send to blast
MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNPK EARRRVYLCP EPSCVHHDPS 60 RALGDLTGIK KHYCRKHGEK KWRCDKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 120 DSFITHRAFC DALAQENARM PPIGAGVYGG AGNMTLGLTG MAAPQLPAGF PDQAGQPSAS 180 AGDVLRLGGG SNGASQFDHL MASSSGSSMF RSQGSSSSSF YLANGAAHHA PAQDFGPEDG 240 QSQAGQGSLL HGKPAAFHDL MQLPVQHQQS GNGNLLNLGF FSGSNGGVDQ FNGGAGNGGQ 300 GSIVTSSGLA GNHGGGGGGF PSLYNSSEPA GTLPQMSATA LLQKAAQMGA TTSSYNAGGA 360 GGASSLLRGA SSHGISAGEG PANERASYQN LIMGSMASGG GGAGFAGSFS GASGFGGAVD 420 DGKLSTRDFL GVGVVQGISG SAAMGPPRHG AAGLHVGSLD PANMN

Sequence ? help Back to Top

Protein Sequence Length: 465 aa Download sequence Send to blast

MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNPK EARRRVYLCP EPSCVHHDPS  60
RALGDLTGIK KHYCRKHGEK KWRCDKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  120
DSFITHRAFC DALAQENARM PPIGAGVYGG AGNMTLGLTG MAAPQLPAGF PDQAGQPSAS  180
AGDVLRLGGG SNGASQFDHL MASSSGSSMF RSQGSSSSSF YLANGAAHHA PAQDFGPEDG  240
QSQAGQGSLL HGKPAAFHDL MQLPVQHQQS GNGNLLNLGF FSGSNGGVDQ FNGGAGNGGQ  300
GSIVTSSGLA GNHGGGGGGF PSLYNSSEPA GTLPQMSATA LLQKAAQMGA TTSSYNAGGA  360
GGASSLLRGA SSHGISAGEG PANERASYQN LIMGSMASGG GGAGFAGSFS GASGFGGAVD  420
DGKLSTRDFL GVGVVQGISG SAAMGPPRHG AAGLHVGSLD PANMN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	8e-35	78	140	3	65	Zinc finger protein JACKDAW
5b3h_F	8e-35	78	140	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK101181	0.0	AK101181.1 Oryza sativa Japonica Group cDNA clone:J033029F02, full insert sequence.
GenBank	AK101950	0.0	AK101950.1 Oryza sativa Japonica Group cDNA clone:J033075E02, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015612461.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_015612462.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_015612463.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_015612465.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_015612466.1	0.0	protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-110	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0E0B6D4	0.0	A0A0E0B6D4_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0QUX9	0.0	A0A0E0QUX9_ORYRU; Uncharacterized protein
STRING	OGLUM09G19710.1	0.0	(Oryza glumipatula)
STRING	ORUFI09G20760.1	0.0	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1733	37	98

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	3e-98	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]