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

Sevir.6G252400.1.p

Organism

Setaria viridis

Taxonomic ID

4556

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

C2H2

Protein Properties

Length: 530aa MW: 54673.1 Da PI: 9.7927

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.6G252400.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.4	1.3e-05	66	88	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H Sevir.6G252400.1.p 66 FVCEVCNKGFQREQNLQLHRRGH 88 89*******************88 PP
2	zf-C2H2	13.2	0.00026	142	164	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Sevir.6G252400.1.p 142 WKCDKCNKRYAVQSDWKAHSKTC 164 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.5E-7	65	88	No hit	No description
Gene3D	G3DSA:3.30.160.60	7.2E-6	65	88	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0041	66	88	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	3.4E-5	66	88	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	66	88	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	68	88	IPR007087	Zinc finger, C2H2
SMART	SM00355	300	107	137	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.9E-5	130	163	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.5E-7	137	162	No hit	No description
SMART	SM00355	110	142	162	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: 530 aa Download sequence Send to blast
MAASAHLFGL GDAQMQPRPP PQQAAPPPPA APPAPKKKRN QPGNPKDPDA EVIALSPKTL 60 LATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNPK ETRRRVYLCP EPTCVHHDPS 120 RALGDLTGIK KHYCRKHGEK KWKCDKCNKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 180 DSFITHRAFC DALAQENARV PPIGAGMYGA GGMAFGLSGM AASQLQSFQD QAHSSATTAI 240 SGNPAAQFEH LMPTSTSFRG AQPASSSSSP FYLGGAEDGN QSQPGHTSLL HGKPAFHGLM 300 QLPEQHGQPG SNGLLNLGFF SGASSGGQDA RLVFPGQFNG AAGGNGRGDG GEHGNSSANT 360 ESAAIFSGNL MGNQMTGGGG GGFSSSLYNS AGTVAPPQMS ATALLQKAAQ MGATSSGGGG 420 GSANSLLKGL GSGGALNGRA AGAAGFMAGE SSSRSASQAE NESQFRDLMN SLAASGSSGF 480 PGLDDGKPST RDFLGVGGGV VRSMGGAAGL PLRHGAAGIG MGSLDPEMK*

Sequence ? help Back to Top

Protein Sequence Length: 530 aa Download sequence Send to blast

MAASAHLFGL GDAQMQPRPP PQQAAPPPPA APPAPKKKRN QPGNPKDPDA EVIALSPKTL  60
LATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNPK ETRRRVYLCP EPTCVHHDPS  120
RALGDLTGIK KHYCRKHGEK KWKCDKCNKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  180
DSFITHRAFC DALAQENARV PPIGAGMYGA GGMAFGLSGM AASQLQSFQD QAHSSATTAI  240
SGNPAAQFEH LMPTSTSFRG AQPASSSSSP FYLGGAEDGN QSQPGHTSLL HGKPAFHGLM  300
QLPEQHGQPG SNGLLNLGFF SGASSGGQDA RLVFPGQFNG AAGGNGRGDG GEHGNSSANT  360
ESAAIFSGNL MGNQMTGGGG GGFSSSLYNS AGTVAPPQMS ATALLQKAAQ MGATSSGGGG  420
GSANSLLKGL GSGGALNGRA AGAAGFMAGE SSSRSASQAE NESQFRDLMN SLAASGSSGF  480
PGLDDGKPST RDFLGVGGGV VRSMGGAAGL PLRHGAAGIG MGSLDPEMK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-34	138	200	3	65	Zinc finger protein JACKDAW
5b3h_F	5e-34	138	200	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sevir.6G252400.1.p

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	BT053822	0.0	BT053822.1 Zea mays full-length cDNA clone ZM_BFb0209O02 mRNA, complete cds.
GenBank	BT053956	0.0	BT053956.1 Zea mays full-length cDNA clone ZM_BFc0072P10 mRNA, complete cds.
GenBank	EU975957	0.0	EU975957.1 Zea mays clone 506559 INDETERMINATE-related protein 1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004974170.1	0.0	protein indeterminate-domain 5, chloroplastic isoform X1
Swissprot	Q9ZUL3	1e-120	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	K3YH28	0.0	K3YH28_SETIT; Uncharacterized protein
STRING	Si013546m	0.0	(Setaria italica)

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
AT2G02080.1	1e-111	indeterminate(ID)-domain 4

Link Out ? help Back to Top
Phytozome	Sevir.6G252400.1.p

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]