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

XP_010551512.1

Organism

Tarenaya hassleriana

Taxonomic ID

28532

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya

Family

Whirly

Protein Properties

Length: 269aa MW: 29716.8 Da PI: 9.3273

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010551512.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	212.7	3.8e-66	92	229	2	139
Whirly 2 vyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkv 96 +yk+kaal+v+++ p+f+ ldsg++kl+++G++lle+a+a+++r+ydW++kq+f+ls++e+++lv+l++k+sceffhdp ++ s+eGkvrk+lk+ XP_010551512.1 92 IYKGKAALTVQPRSPEFVCLDSGAFKLSKEGFVLLEFAPAAGVRQYDWSRKQVFSLSVAEIGNLVSLGPKDSCEFFHDPNKGRSDEGKVRKVLKI 186 9******************************************************************************************** PP Whirly 97 ePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 ePl+dGsG+f+nlsv+n+l++++es+++Pv++ae avl s+++ XP_010551512.1 187 EPLADGSGHFFNLSVQNKLLNVDESIYIPVTRAELAVLVSAFN 229 *************************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	5.6E-78	79	252	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	8.63E-74	85	269	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	6.3E-60	92	226	IPR013742	Plant transcription factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0045910	Biological Process	negative regulation of DNA recombination
GO:0009570	Cellular Component	chloroplast stroma
GO:0003677	Molecular Function	DNA binding
GO:0003723	Molecular Function	RNA binding

Sequence ? help Back to Top
Protein Sequence Length: 269 aa Download sequence Send to blast
MSLQLQALAF PLLRTKTINP NANHSAFLSP SSVGLECHGV CLGDNRKKMK KKKQAVKCRQ 60 SDYVDRPRFS DYSTSAETSG ASPFRVFVGH TIYKGKAALT VQPRSPEFVC LDSGAFKLSK 120 EGFVLLEFAP AAGVRQYDWS RKQVFSLSVA EIGNLVSLGP KDSCEFFHDP NKGRSDEGKV 180 RKVLKIEPLA DGSGHFFNLS VQNKLLNVDE SIYIPVTRAE LAVLVSAFNF ILPYLMGWHA 240 FASSTKLEDA NHTNNASPSY GGGDYEWNR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1l3a_A	1e-106	80	268	32	219	p24: plant transcriptional regulator PBF-2
1l3a_B	1e-106	80	268	32	219	p24: plant transcriptional regulator PBF-2
1l3a_C	1e-106	80	268	32	219	p24: plant transcriptional regulator PBF-2
1l3a_D	1e-106	80	268	32	219	p24: plant transcriptional regulator PBF-2
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Functional Description ? help Back to Top
Source	Description
UniProt	Single-stranded DNA-binding protein that functions in both chloroplasts and nucleus. In chloroplasts, maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. In nucleus, modulates telomere length homeostasis by inhibiting the action of the telomerase at the extreme termini of chromosomes. Is recruited to a distal element upstream of the kinesin KP1 to mediate the transcriptional repression of KP1. Is required for full salicylic acid-dependent plant disease resistance responses. Can bind double-stranded DNA in vivo. {ECO:0000269\|PubMed:14960277, ECO:0000269\|PubMed:17217467, ECO:0000269\|PubMed:19666500, ECO:0000269\|PubMed:19669906, ECO:0000269\|PubMed:20551348, ECO:0000269\|PubMed:21911368}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_010551512.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By salicylic acid (SA) and infection by H.parasitica. {ECO:0000269\|PubMed:14960277, ECO:0000269\|PubMed:19669906}.

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_010551512.1	0.0	PREDICTED: single-stranded DNA-binding protein WHY1, chloroplastic-like
Swissprot	Q9M9S3	1e-123	WHY1_ARATH; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBL	A0A078JMC5	1e-122	A0A078JMC5_BRANA; BnaCnng51250D protein
TrEMBL	A0A3P6G8M8	1e-122	A0A3P6G8M8_BRAOL; Uncharacterized protein (Fragment)
STRING	XP_010551512.1	0.0	(Tarenaya hassleriana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5023	27	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14410.1	1e-124	ssDNA-binding transcriptional regulator

Publications ? help Back to Top
Lepage É,Zampini É,Brisson N Plastid genome instability leads to reactive oxygen species production and plastid-to-nucleus retrograde signaling in Arabidopsis. Plant Physiol., 2013. 163(2): p. 867-81 [PMID:23969600] Carella P,Wilson DC,Cameron RK Some things get better with age: differences in salicylic acid accumulation and defense signaling in young and mature Arabidopsis. Front Plant Sci, 2014. 5: p. 775 [PMID:25620972] Zampini É,Lepage É,Tremblay-Belzile S,Truche S,Brisson N Organelle DNA rearrangement mapping reveals U-turn-like inversions as a major source of genomic instability in Arabidopsis and humans. Genome Res., 2015. 25(5): p. 645-54 [PMID:25800675] Ren Y,Li Y,Jiang Y,Wu B,Miao Y Phosphorylation of WHIRLY1 by CIPK14 Shifts Its Localization and Dual Functions in Arabidopsis. Mol Plant, 2017. 10(5): p. 749-763 [PMID:28412544] Karpinska B,Alomrani SO,Foyer CH Inhibitor-induced oxidation of the nucleus and cytosol in Arabidopsis thaliana: implications for organelle to nucleus retrograde signalling. Philos. Trans. R. Soc. Lond., B, Biol. Sci., 2018. [PMID:28808105] Huang D,Lin W,Deng B,Ren Y,Miao Y Dual-Located WHIRLY1 Interacting with LHCA1 Alters Photochemical Activities of Photosystem I and Is Involved in Light Adaptation in Arabidopsis. Int J Mol Sci, 2018. [PMID:29112140] Guan Z,Wang W,Yu X,Lin W,Miao Y Comparative Proteomic Analysis of Coregulation of CIPK14 and WHIRLY1/3 Mediated Pale Yellowing of Leaves in Arabidopsis. Int J Mol Sci, 2018. [PMID:30065159]