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

Csa04g006540.1

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: 617aa MW: 66475.6 Da PI: 9.3329

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa04g006540.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.2e-05	81	103	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Csa04g006540.1 81 FICEVCNKGFQREQNLQLHRRGH 103 89*******************88 PP
2	zf-C2H2	12.4	0.00047	157	179	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Csa04g006540.1 157 WKCDKCSKRYAVQSDWKAHSKTC 179 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.87E-7	80	103	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.9E-6	80	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0052	81	103	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	3.0E-5	81	103	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	81	103	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	83	103	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	122	152	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.2E-5	145	178	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.87E-7	152	177	No hit	No description
SMART	SM00355	140	157	177	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: 617 aa Download sequence Send to blast
MAASSSSAAS FFGVRQDDQS HLLPPNSSAA APPPPPPHHQ PPQPPLEAPP QKKKRNQPRT 60 PNSDAEVIAL SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKSTKEVKRK 120 VYLCPEPSCV HHDPSRALGD LTGIKKHYYR KHGEKKWKCD KCSKRYAVQS DWKAHSKTCG 180 TKEYRCDCGT LFSRRDSFIT HRAFCDALAQ ESARHPTSLT SLPSHHFPYG QNTNNSNNNT 240 SSMILGLSHM GAPQNLDHQS SDVLRLGSGG GGAASRSSSD LIAANASGYF MQEQNPSFHD 300 QQDHHHHHHQ QGFLAANNNI KPSPMSFQQN LMQFSHDNHN PASSNLFNLS FLSGNNGVTS 360 ATSNPNAPAA AAVSSGNLMM SNHYDGENAV GGGGEGSTGL FPNNLMSSAD RISSGSVPSL 420 FSSSMQNPNS TPHMSATALL QKAAQMGSTS SNNNNNGSNN NNNNNNNNNN NNNNNASSIL 480 RSFGSGMYGE NESNLQDLMN SFSNPGATGS VNGVDSPFGS YGGVNKGLSA DKQSMTRDFL 540 GVGQIVRSMS GSGGFQQQQQ QQQQQQQQQQ QQQQHGNSRE RVGSSSDSAD RSSMNVNTGG 600 GPASTSPPYG IHHASF*

Sequence ? help Back to Top

Protein Sequence Length: 617 aa Download sequence Send to blast

MAASSSSAAS FFGVRQDDQS HLLPPNSSAA APPPPPPHHQ PPQPPLEAPP QKKKRNQPRT  60
PNSDAEVIAL SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKSTKEVKRK  120
VYLCPEPSCV HHDPSRALGD LTGIKKHYYR KHGEKKWKCD KCSKRYAVQS DWKAHSKTCG  180
TKEYRCDCGT LFSRRDSFIT HRAFCDALAQ ESARHPTSLT SLPSHHFPYG QNTNNSNNNT  240
SSMILGLSHM GAPQNLDHQS SDVLRLGSGG GGAASRSSSD LIAANASGYF MQEQNPSFHD  300
QQDHHHHHHQ QGFLAANNNI KPSPMSFQQN LMQFSHDNHN PASSNLFNLS FLSGNNGVTS  360
ATSNPNAPAA AAVSSGNLMM SNHYDGENAV GGGGEGSTGL FPNNLMSSAD RISSGSVPSL  420
FSSSMQNPNS TPHMSATALL QKAAQMGSTS SNNNNNGSNN NNNNNNNNNN NNNNNASSIL  480
RSFGSGMYGE NESNLQDLMN SFSNPGATGS VNGVDSPFGS YGGVNKGLSA DKQSMTRDFL  540
GVGQIVRSMS GSGGFQQQQQ QQQQQQQQQQ QQQQHGNSRE RVGSSSDSAD RSSMNVNTGG  600
GPASTSPPYG IHHASF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-33	153	214	3	64	Zinc finger protein JACKDAW
5b3h_F	4e-33	153	214	3	64	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	Csa04g006540.1

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_010502221.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	0.0	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A397Y3X1	0.0	A0A397Y3X1_BRACM; Uncharacterized protein
STRING	XP_010502221.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4373	26	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	0.0	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]