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

Csa06g017320.1

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: 243aa MW: 26330.4 Da PI: 5.493

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa06g017320.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	13.9	0.00016	216	238	2	23
EETTTTEEESSHHHHHHHHHH.T CS zf-C2H2 2 kCpdCgksFsrksnLkrHirt.H 23 +C+ C+k+F++ L++H + H Csa06g017320.1 216 SCGSCKKTFNSGNALESHNKAkH 238 6*****************88766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50157	10.429	215	242	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	217	238	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 243 aa Download sequence Send to blast
MEFWGIEVKP GKPVKVTPEE DTLIHVSQVS LGECKNKKEE FVSVHVKVGN QKLVMGNLST 60 ENIPQLFCDL VFEKEFELSH NWGKGSLYFV GYTSPNIADN DGEDFSDSEE EEEELEEVPA 120 TITANGNAKP KAKPAQVTKN AKPADGMVVD ADEDSEEEEE TPTPKKPVSS KKRANEEAPK 180 TPVSSKKAKV AVTPQKTDEK KKGGKNQSPK SASQVSCGSC KKTFNSGNAL ESHNKAKHAA 240 AK*

Functional Description ? help Back to Top
Source	Description
UniProt	Probably mediates the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Required for histone H3 'Lys-9' deacetylation. Involved in rRNA gene silencing in nucleolar dominance. Seems to be implicated in the regulation of genes involved in seeds development. {ECO:0000269\|PubMed:10792817, ECO:0000269\|PubMed:12694598, ECO:0000269\|PubMed:14992728, ECO:0000269\|PubMed:15144374}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa06g017320.1

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	AF195545	2e-86	AF195545.1 Arabidopsis thaliana putative histone deacetylase (HD2A) mRNA, complete cds.
GenBank	AY065396	2e-86	AY065396.1 Arabidopsis thaliana putative histone deacetylase (At3g44750) mRNA, complete cds.
GenBank	AY096729	2e-86	AY096729.1 Arabidopsis thaliana putative histone deacetylase (At3g44750) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010514800.1	1e-175	PREDICTED: histone deacetylase HDT1
Swissprot	Q9FVE6	1e-104	HDT1_ARATH; Histone deacetylase HDT1
TrEMBL	R0FQZ9	1e-107	R0FQZ9_9BRAS; Uncharacterized protein
STRING	XP_010514800.1	1e-174	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2027	26	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G44750.1	5e-97	histone deacetylase 3

Publications ? help Back to Top
Song Y,Wu K,Dhaubhadel S,An L,Tian L Arabidopsis DNA methyltransferase AtDNMT2 associates with histone deacetylase AtHD2s activity. Biochem. Biophys. Res. Commun., 2010. 396(2): p. 187-92 [PMID:20331964] Lee K,Park OS,Jung SJ,Seo PJ Histone deacetylation-mediated cellular dedifferentiation in Arabidopsis. J. Plant Physiol., 2016. 191: p. 95-100 [PMID:26724747] Han Z, et al. AtHD2D Gene Plays a Role in Plant Growth, Development, and Response to Abiotic Stresses in Arabidopsis thaliana. Front Plant Sci, 2016. 7: p. 310 [PMID:27066015] Li H, et al. Plant-Specific Histone Deacetylases HDT1/2 Regulate GIBBERELLIN 2-OXIDASE2 Expression to Control Arabidopsis Root Meristem Cell Number. Plant Cell, 2017. 29(9): p. 2183-2196 [PMID:28855334]