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

Sopen01g003420.1

Organism

Solanum pennellii

Taxonomic ID

28526

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

C2H2

Protein Properties

Length: 640aa MW: 70164.9 Da PI: 8.8448

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopen01g003420.1	genome	spenn	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.1	1.6e-05	86	108	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H Sopen01g003420.1 86 FVCEVCNKGFQREQNLQLHRRGH 108 89*******************88 PP
2	zf-C2H2	14.9	7.6e-05	162	184	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ykC++C+k + +s+ k H +t+ Sopen01g003420.1 162 YKCEKCSKKYAVQSDWKAHTKTC 184 9********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	9.0E-6	85	108	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	7.15E-8	85	108	No hit	No description
Pfam	PF12171	4.2E-5	86	108	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	86	108	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	86	108	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	88	108	IPR007087	Zinc finger, C2H2
SMART	SM00355	140	127	157	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.7E-5	150	183	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	7.15E-8	157	182	No hit	No description
SMART	SM00355	71	162	182	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: 640 aa Download sequence Send to blast
MSGEPSSIMF LAMREEQQQQ QQQQQHEVLL HHQQQQQQHH GEPPSSSTIQ SQQQATKKRR 60 NQPGTPNPDA EIIALSPKTL MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKSTK 120 EVKRKVYLCP EPSCVHHEPS RALGDLTGIK KHYSRKHGEK KYKCEKCSKK YAVQSDWKAH 180 TKTCGTREYR CDCGTLFSRR DSFITHRAFC DALAQESARN PPSLSSIGSH LYGSSNNNNI 240 SLGGLSKLNS QIPDHHEMLH FGGSNNNNTS GGAHHHHHQN QFDNNNNNNN NNNLIGSSAF 300 RPSTSFFQLP ADQTSHQDYG VINNNKSSIH GLMQLPNLHN NNASVATGSS SIFNLNFFQN 360 NNNNNNNNNI VDNDHNNTIS GGLGGLLLPS PHQFSNNTSG EGSNNSSNIF SSGTILNDHH 420 HHHHHHMSSS IPSLYVSSSP APPMSATALL QKAAQMGSTT SCNNSSTSAS LLKAFGSVAG 480 VGGSSSSMTK SDLHPPPAVN FGGVFGHEDP MGAGNHLHGL VVNAYGPQDQ NQDYGGVVGG 540 YNTNNNNKMN SYDQPPPQKK QMIGKPFSMD IAMGEEANRL TRDFLGVGEI VRTMSGGGGG 600 FSSSQQQMSS LDNNNNNNNF ESRKNQSHHH QQPFGGGTFQ

Sequence ? help Back to Top

Protein Sequence Length: 640 aa Download sequence Send to blast

MSGEPSSIMF LAMREEQQQQ QQQQQHEVLL HHQQQQQQHH GEPPSSSTIQ SQQQATKKRR  60
NQPGTPNPDA EIIALSPKTL MATNRFVCEV CNKGFQREQN LQLHRRGHNL PWKLKQKSTK  120
EVKRKVYLCP EPSCVHHEPS RALGDLTGIK KHYSRKHGEK KYKCEKCSKK YAVQSDWKAH  180
TKTCGTREYR CDCGTLFSRR DSFITHRAFC DALAQESARN PPSLSSIGSH LYGSSNNNNI  240
SLGGLSKLNS QIPDHHEMLH FGGSNNNNTS GGAHHHHHQN QFDNNNNNNN NNNLIGSSAF  300
RPSTSFFQLP ADQTSHQDYG VINNNKSSIH GLMQLPNLHN NNASVATGSS SIFNLNFFQN  360
NNNNNNNNNI VDNDHNNTIS GGLGGLLLPS PHQFSNNTSG EGSNNSSNIF SSGTILNDHH  420
HHHHHHMSSS IPSLYVSSSP APPMSATALL QKAAQMGSTT SCNNSSTSAS LLKAFGSVAG  480
VGGSSSSMTK SDLHPPPAVN FGGVFGHEDP MGAGNHLHGL VVNAYGPQDQ NQDYGGVVGG  540
YNTNNNNKMN SYDQPPPQKK QMIGKPFSMD IAMGEEANRL TRDFLGVGEI VRTMSGGGGG  600
FSSSQQQMSS LDNNNNNNNF ESRKNQSHHH QQPFGGGTFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-33	158	219	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-33	158	219	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:24821766, ECO:0000305\|PubMed:19726569}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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	HG975440	0.0	HG975440.1 Solanum pennellii chromosome ch01, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015062713.2	0.0	protein indeterminate-domain 4, chloroplastic-like isoform X1
Swissprot	Q8GYC1	1e-117	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0V0IN59	0.0	A0A0V0IN59_SOLCH; Putative zinc finger protein MAGPIE-like
STRING	XP_009786293.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

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]