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

KHN08699.1

Organism

Glycine soja

Taxonomic ID

3848

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

Whirly

Protein Properties

Length: 263aa MW: 29877.6 Da PI: 10.2295

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHN08699.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	119.9	1.7e-37	81	224	1	139
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerk..ydWekkqsfalsatevaelvdlaskesceffhdpaakgsneGkvrkalkve 97 svy k+ l+v ++ p+fe+ sg++k++++G ++l++a++++ + ydW++kq+f+ls+ e+++l+ l++++s ef h++ + +s + +vrk+lkve KHN08699.1 81 SVYTKKGMLTVIPRPPEFESKSSGAFKVSKEGYVVLQFAPSVGADEpiYDWNHKQTFSLSVSEMGTLIILGARDSWEFSHETVKLKSSKIDVRKVLKVE 179 79*************************************9976444*********************************************** PP Whirly 98 PlpdGsGlfvnlsvtnslvk...gnesfsvPvskaefavlrsllv 139 Pl d +G++++l v ++ + ++s+ +Pv++a+ vlrsl++ KHN08699.1 180 PLLDATGHLFSLRVLKKPANmegIQKSIFLPVTRADLEVLRSLFN 224 **********987655222689**************996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	8.9E-53	72	244	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	1.57E-46	74	263	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	4.7E-42	82	222	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

Sequence ? help Back to Top
Protein Sequence Length: 263 aa Download sequence Send to blast
MSQIQSITLK HLSLPTHTFV PSKFKIPLNR NFSLTPRFTF SSSLSVKCYH PNLVQPKPFP 60 PLPQRPPFAE LPQQRVYVGY SVYTKKGMLT VIPRPPEFES KSSGAFKVSK EGYVVLQFAP 120 SVGADEPIYD WNHKQTFSLS VSEMGTLIIL GARDSWEFSH ETVKLKSSKI DVRKVLKVEP 180 LLDATGHLFS LRVLKKPANM EGIQKSIFLP VTRADLEVLR SLFNYIMPYL LGWNAFGNSI 240 KPEVYSQVNS TNPRYGADNE WNR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1l3a_A	4e-64	75	262	37	219	p24: plant transcriptional regulator PBF-2
1l3a_B	4e-64	75	262	37	219	p24: plant transcriptional regulator PBF-2
1l3a_C	4e-64	75	262	37	219	p24: plant transcriptional regulator PBF-2
1l3a_D	4e-64	75	262	37	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	KHN08699.1

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_003519051.1	0.0	single-stranded DNA-binding protein WHY1, chloroplastic isoform X1
Refseq	XP_028193433.1	0.0	single-stranded DNA-binding protein WHY1, chloroplastic-like isoform X1
Swissprot	Q9M9S3	1e-71	WHY1_ARATH; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBL	A0A0B2PLX5	0.0	A0A0B2PLX5_GLYSO; Single-stranded DNA-binding protein WHY1, chloroplastic
STRING	GLYMA02G02390.2	0.0	(Glycine max)

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	2e-72	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] Qi X, et al. Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nat Commun, 2014. 5: p. 4340 [PMID:25004933] 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]