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

Bostr.28714s0001.1.p

Organism

Boechera stricta

Taxonomic ID

72658

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 188aa MW: 20212.2 Da PI: 4.4439

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bostr.28714s0001.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.7	4.3e-05	160	183	1	23
EEETTTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt.H 23 + C+ C+++F++ + L++H + H Bostr.28714s0001.1.p 160 FGCKSCSRTFTSEMGLQSHTKAkH 183 56*****************99877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50157	10.783	160	187	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	162	183	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009414	Biological Process	response to water deprivation
GO:0009651	Biological Process	response to salt stress
GO:0009737	Biological Process	response to abscisic acid
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0005730	Cellular Component	nucleolus
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 188 aa Download sequence Send to blast
EPAVAKSGVK QVNFQLPNED VKAKQDDDDD ESEEESSDNE EISSSEESGH EEEKKVTAEV 60 DSDEDDEDDS SDDEEDDSSD EDTPKKPEEP KKRSAEANSS KNTASNKKAK FVTPQKTETK 120 KPHVHIDTPH PSKQAGRNSG GSSNGQSSKQ QQTPKSAGAF GCKSCSRTFT SEMGLQSHTK 180 AKHSAAA*

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. Involved in the modulation of abscisic acid and stress-responsive genes. {ECO:0000269\|PubMed:12694598, ECO:0000269\|PubMed:16553900}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Bostr.28714s0001.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by abscisic acid. {ECO:0000269\|PubMed:16553900}.

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_006288331.1	1e-70	histone deacetylase HDT3 isoform X1
Swissprot	Q9LZR5	3e-65	HDT3_ARATH; Histone deacetylase HDT3
TrEMBL	R0GWD3	2e-69	R0GWD3_9BRAS; Uncharacterized protein
STRING	Bostr.28714s0001.1.p	1e-129	(Boechera stricta)

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
AT5G03740.1	2e-30	histone deacetylase 2C

Link Out ? help Back to Top
Phytozome	Bostr.28714s0001.1.p

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] Khan A, et al. The Arabidopsis STRESS RESPONSE SUPPRESSOR DEAD-box RNA helicases are nucleolar- and chromocenter-localized proteins that undergo stress-mediated relocalization and are involved in epigenetic gene silencing. Plant J., 2014. 79(1): p. 28-43 [PMID:24724701] 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] Buszewicz D, et al. HD2C histone deacetylase and a SWI/SNF chromatin remodelling complex interact and both are involved in mediating the heat stress response in Arabidopsis. Plant Cell Environ., 2016. 39(10): p. 2108-22 [PMID:27083783] Chen X, et al. Canonical and Noncanonical Actions of Arabidopsis Histone Deacetylases in Ribosomal RNA Processing. Plant Cell, 2018. 30(1): p. 134-152 [PMID:29343504] Huang KC,Lin WC,Cheng WH Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis. BMC Plant Biol., 2018. 18(1): p. 40 [PMID:29490615]