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

KFK24843.1

Organism

Arabis alpina

Taxonomic ID

50452

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 546aa MW: 59402.6 Da PI: 3.8839

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KFK24843.1	genome	MPIPBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14	0.00015	519	542	1	23
EEETTTTEEESSHHHHHHHHHH.T CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirt.H 23 + C+ C+++F++ L++H + H KFK24843.1 519 FGCNSCNRTFTSETGLQSHTKAkH 542 56*****************99877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50157	11.344	519	546	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	521	542	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: 546 aa Download sequence Send to blast
MEFWGVEVTS GASLSVDPGE GMIMHISQVA LGKNETNENE SVQVYLKVGY QKLLMGTLSH 60 DKFPNLSTEI VLEEGFEWSH SWKNGSVYFT GYKVDAYESD DDDTSDDDEV VVAKGVRQVN 120 FQVPNQDVKA MQDDDDSGGS KNKFQSDNDT SSDDDSEDTS SDDDSEAEEV VAAEAHNDEE 180 AEDDSSHDDE DDSAAEDDDD DDDDDDDSAD DDDDDDSSDD DALKPRNDET LSASSRIFFV 240 FFESLHLTAM EFWGVEVKSG VSLPVNPGEG MIVHISQVAL GKNETNEKVS VRLSLKVGGQ 300 KLVIGTLSHE KFPQLSTEIV LERSFELSHN WKNGSVYFSG YKVDASEPDD DEMADGDEVA 360 APRPAGVKQV NFQLPAEDVK ANQDEVESDD DTSSDDSSSD DSETEEVKVV TTEAVNEEDA 420 EDDSDDDEDD SSDEDEDDSS DEETPKKAEE PKKRSAEAST SNNAVSNKKA KFVTPQKSTE 480 SKKPHVHIAT PHPSKGGKNS ASNGESSKQK QTPKSAGAFG CNSCNRTFTS ETGLQSHTKA 540 KHSAAA

Sequence ? help Back to Top

Protein Sequence Length: 546 aa Download sequence Send to blast

MEFWGVEVTS GASLSVDPGE GMIMHISQVA LGKNETNENE SVQVYLKVGY QKLLMGTLSH  60
DKFPNLSTEI VLEEGFEWSH SWKNGSVYFT GYKVDAYESD DDDTSDDDEV VVAKGVRQVN  120
FQVPNQDVKA MQDDDDSGGS KNKFQSDNDT SSDDDSEDTS SDDDSEAEEV VAAEAHNDEE  180
AEDDSSHDDE DDSAAEDDDD DDDDDDDSAD DDDDDDSSDD DALKPRNDET LSASSRIFFV  240
FFESLHLTAM EFWGVEVKSG VSLPVNPGEG MIVHISQVAL GKNETNEKVS VRLSLKVGGQ  300
KLVIGTLSHE KFPQLSTEIV LERSFELSHN WKNGSVYFSG YKVDASEPDD DEMADGDEVA  360
APRPAGVKQV NFQLPAEDVK ANQDEVESDD DTSSDDSSSD DSETEEVKVV TTEAVNEEDA  420
EDDSDDDEDD SSDEDEDDSS DEETPKKAEE PKKRSAEAST SNNAVSNKKA KFVTPQKSTE  480
SKKPHVHIAT PHPSKGGKNS ASNGESSKQK QTPKSAGAFG CNSCNRTFTS ETGLQSHTKA  540
KHSAAA

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	KFK24843.1

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_006398832.1	1e-106	histone deacetylase HDT3
Swissprot	Q9LZR5	2e-97	HDT3_ARATH; Histone deacetylase HDT3
TrEMBL	A0A087G4P1	0.0	A0A087G4P1_ARAAL; Uncharacterized protein
STRING	A0A087G4P2	0.0	(Arabis alpina)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G03740.1	5e-51	histone deacetylase 2C

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]