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

EcC015423.40

Organism

Eucalyptus camaldulensis

Taxonomic ID

34316

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Myrtales; Myrtaceae; Myrtoideae; Eucalypteae; Eucalyptus

Family

Whirly

Protein Properties

Length: 284aa MW: 31121 Da PI: 10.1948

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
EcC015423.40	genome	ECGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	217.6	1.1e-67	107	245	1	139
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkve 97 s+yk+kaal+v++++p+f++ldsg+ kl+r+G++ll++a+a++ r ydW++kq+f+ls+te+++l++l++++sceffhdp++++s+eGk+rk+lkve EcC015423.40 107 SIYKGKAALTVEPRAPEFTSLDSGAYKLSREGFVLLQFAPAAGARVYDWSRKQVFSLSVTEIGNLISLGPRDSCEFFHDPFKGKSDEGKIRKVLKVE 203 7********************************************************************************************** PP Whirly 98 PlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 PlpdGsG+f+nlsv+n+lv+ +es+++Pv+kae++vl+s+++ EcC015423.40 204 PLPDGSGHFFNLSVQNKLVNLDESIYIPVTKAEYTVLNSAFN 245 ************************************9996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	4.0E-78	96	267	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	1.41E-76	99	284	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	4.5E-61	108	242	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:0003677	Molecular Function	DNA binding
GO:0030570	Molecular Function	pectate lyase activity

Sequence ? help Back to Top
Protein Sequence Length: 284 aa Download sequence Send to blast
MLQLHMLASS PASSPSPRLS LLRDSFSSPP QQSLRGGSTL NPRKTSRVSL PRAPHGLRSL 60 KCRQSEYFDQ QQRFASSTAP AADGSSSPSF SPSGGGTASP KVFVGHSIYK GKAALTVEPR 120 APEFTSLDSG AYKLSREGFV LLQFAPAAGA RVYDWSRKQV FSLSVTEIGN LISLGPRDSC 180 EFFHDPFKGK SDEGKIRKVL KVEPLPDGSG HFFNLSVQNK LVNLDESIYI PVTKAEYTVL 240 NSAFNFILPY LLGWHAYANS IKPNDRNRGN NANSRYGGDF EWSR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1l3a_A	1e-110	96	283	32	219	p24: plant transcriptional regulator PBF-2
1l3a_B	1e-110	96	283	32	219	p24: plant transcriptional regulator PBF-2
1l3a_C	1e-110	96	283	32	219	p24: plant transcriptional regulator PBF-2
1l3a_D	1e-110	96	283	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}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010066947.1	0.0	PREDICTED: single-stranded DNA-binding protein WHY1, chloroplastic isoform X2
Swissprot	Q9M9S3	1e-118	WHY1_ARATH; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBL	A0A059BFX4	0.0	A0A059BFX4_EUCGR; Uncharacterized protein
STRING	XP_010066947.1	0.0	(Eucalyptus grandis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14410.1	1e-115	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]