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

Csa06g002100.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina

Family

C2H2

Protein Properties

Length: 192aa MW: 21622.7 Da PI: 10.3569

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa06g002100.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.1	7.2e-06	78	100	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Csa06g002100.1 78 FICEVCNKGFQREQNLQLHRRGH 100 89*******************88 PP
2	zf-C2H2	14.4	0.00011	154	176	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Csa06g002100.1 154 WKCDKCSKRYAVQSDWKAHSKTC 176 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.69E-8	77	100	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.5E-6	77	100	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0052	78	100	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	6.9E-6	78	100	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	78	100	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	80	100	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	119	149	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.0E-5	142	175	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.69E-8	149	174	No hit	No description
SMART	SM00355	140	154	174	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: 192 aa Download sequence Send to blast
MAASSSSAAS FFGGRQDDQS HLLPPNSSAA APPPPPPHHQ PPLEAPPQKK KRNQPRTPNS 60 DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKS TKEVKRKVYL 120 CPEPSCVHHD PSRALGDLTG IKKHYYRKHG EKKWKCDKCS KRYAVQSDWK AHSKTCGTKE 180 YRCDCGTLFS R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-22	150	191	3	44	Zinc finger protein JACKDAW
5b3h_F	4e-22	150	191	3	44	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa06g002100.1

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	AJ621495	0.0	AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene).
GenBank	AY056174	0.0	AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBank	BT001215	0.0	BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010513965.1	1e-141	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-109	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0D3E7J0	1e-123	A0A0D3E7J0_BRAOL; Uncharacterized protein
STRING	XP_010513965.1	1e-141	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-104	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]