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

Spipo0G0181800

Organism

Spirodela polyrhiza

Taxonomic ID

29656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela

Family

C2H2

Protein Properties

Length: 174aa MW: 19746.8 Da PI: 10.6211

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Spipo0G0181800	genome	MIPS/IBIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.3	6.3e-06	59	81	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Spipo0G0181800 59 FICEVCNKGFQREQNLQLHRRGH 81 89*******************88 PP
2	zf-C2H2	17.1	1.6e-05	135	157	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+Lk H +++ Spipo0G0181800 135 WKCDKCSKRYAVQSDLKAHSKVC 157 58*****************9887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.07E-8	58	81	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.3E-6	58	81	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	6.0E-6	59	81	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	59	81	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	59	81	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	61	81	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	9.8E-6	123	155	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.07E-8	130	155	No hit	No description
PROSITE profile	PS50157	8.642	135	163	IPR007087	Zinc finger, C2H2
SMART	SM00355	62	135	155	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: 174 aa Download sequence Send to blast
MQQQQKRSLS TTTSSAAAAA AAPPPAPPPK KKRNQPGTPN PDAEVIALSP KTLMATNRFI 60 CEVCNKGFQR EQNLQLHRRG HNLPWKLRQK STKEVRQRVY LCPEPTCVHH DPSRALGDLT 120 GIKKHFCRKH GEKKWKCDKC SKRYAVQSDL KAHSKVCGTR EYRCDCGTLF SRRE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-21	131	174	3	46	Zinc finger protein JACKDAW
5b3h_F	4e-21	131	174	3	46	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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008811075.1	1e-105	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_008811077.1	1e-105	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_017701960.1	1e-105	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_017701961.1	1e-105	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_026666290.1	1e-105	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-101	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A2H3ZAW8	1e-104	A0A2H3ZAW8_PHODC; protein indeterminate-domain 5, chloroplastic-like
STRING	XP_008811073.1	1e-105	(Phoenix dactylifera)

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-99	indeterminate(ID)-domain 4

Link Out ? help Back to Top
Phytozome	Spipo0G0181800

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]