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

MELO3C019785P1

Organism

Cucumis melo

Taxonomic ID

3656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

Whirly

Protein Properties

Length: 274aa MW: 30657.9 Da PI: 9.5494

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MELO3C019785P1	genome	MELONOMICS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	210.1	2.3e-65	95	232	1	138
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalk 95 s+yk+kaal+v+++ p+f+ ldsg++k++r+G ++l++a+a+++r+ydW++kq+f+ls+te+++l+ l+++e+ceffhdp +++s+eGkvrk lk MELO3C019785P1 95 SIYKGKAALTVEPRPPEFTPLDSGAFKISREGLVMLQFAPAAGVRQYDWSRKQVFSLSVTELGSLIALGPREACEFFHDPYKGKSDEGKVRKILK 189 7******************************************************************************************** PP Whirly 96 vePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsll 138 vePlpdGsG+f+nlsv+n+l++++es+++P++kae++vl +++ MELO3C019785P1 190 VEPLPDGSGHFFNLSVQNKLINVDESIYIPITKAEYTVLVEAF 232 *************************************9988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	9.3E-76	86	254	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	2.43E-76	88	273	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	1.8E-60	96	230	IPR013742	Plant transcription factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006281	Biological Process	DNA repair
GO:0032211	Biological Process	negative regulation of telomere maintenance via telomerase
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0045910	Biological Process	negative regulation of DNA recombination
GO:0009508	Cellular Component	plastid chromosome
GO:0009570	Cellular Component	chloroplast stroma
GO:0003697	Molecular Function	single-stranded DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0003723	Molecular Function	RNA binding
GO:0042162	Molecular Function	telomeric DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 274 aa Download sequence Send to blast
MLRLQWLSSS LLPTFNPELS PETLSNPRLC SLNFRRPLLT LTTTRKPSPK CQYSWNTHQH 60 QQSSFEPASQ TDSFSPQSRA GAAAALPPRF FVGHSIYKGK AALTVEPRPP EFTPLDSGAF 120 KISREGLVML QFAPAAGVRQ YDWSRKQVFS LSVTELGSLI ALGPREACEF FHDPYKGKSD 180 EGKVRKILKV EPLPDGSGHF FNLSVQNKLI NVDESIYIPI TKAEYTVLVE AFKFILPHLM 240 GWHTIANTMT KPEDSSRGNT ANPRYGGDFE WNR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1l3a_A	1e-110	84	272	32	219	p24: plant transcriptional regulator PBF-2
1l3a_B	1e-110	84	272	32	219	p24: plant transcriptional regulator PBF-2
1l3a_C	1e-110	84	272	32	219	p24: plant transcriptional regulator PBF-2
1l3a_D	1e-110	84	272	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681821	1e-133	LN681821.1 Cucumis melo genomic scaffold, anchoredscaffold00040.
GenBank	LN713257	1e-133	LN713257.1 Cucumis melo genomic chromosome, chr_3.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008456468.1	0.0	PREDICTED: single-stranded DNA-binding protein WHY1, chloroplastic-like
Swissprot	Q9M9S3	1e-114	WHY1_ARATH; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBL	A0A1S3C3B0	0.0	A0A1S3C3B0_CUCME; single-stranded DNA-binding protein WHY1, chloroplastic-like
STRING	XP_008456468.1	0.0	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6416	32	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14410.1	1e-117	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]