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

860911

Common Name

ARALYDRAFT_660355

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 314aa MW: 34760.5 Da PI: 6.4471

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
860911	genome	JGI	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	261	281	1	21
EEETTTTEEESSHHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHir 21 + C+ C+++F++ + L++H + 860911 261 FGCKSCTRTFTSEMGLQSHTK 281 56*****************76 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF05764	5.8E-8	139	284	No hit	No description

Sequence ? help Back to Top
Protein Sequence Length: 314 aa Download sequence Send to blast
MFMIHAKNSS KSRHKRPRIV LSLTNLNVLC LTKCVEVRNG PAHHIYPGEG RPLITRDDQP 60 YVHFISQVAL GENQNNGTEP IQLYLIVGSA KRLIGTLSHE RFPQLATAIV LERHFSLSHT 120 WKNGSVFFSD DVIDVDGHDD YDDCDFEDSG EEEEEKLTAE PDSEEDDEDD SSDDEVDDSS 180 EEETPKKPEA SKKRSAEANS SKNPAPNKKA KFETPQKTDS KKPHVHVATP HPSKQAGKNS 240 GGSSIGETSK QQQTPKSAGA FGCKSCTRTF TSEMGLQSHT KGQTQCSCLK RRRSSLMTTL 300 YNIYSRTLMS FGT*

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	860911

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF372889	0.0	AF372889.1 Arabidopsis thaliana AT5g03740/F17C15_160 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_195994.3	1e-86	histone deacetylase 2C
Swissprot	Q9LZR5	9e-88	HDT3_ARATH; Histone deacetylase HDT3
TrEMBL	D7LY92	0.0	D7LY92_ARALL; Predicted protein
STRING	Al_scaffold_0006_420	0.0	(Arabidopsis lyrata)

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	3e-51	histone deacetylase 2C

Link Out ? help Back to Top
Phytozome	860911
Entrez Gene	9307202

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]