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

Traes_4AL_FE94301FD.1

Organism

Triticum aestivum

Taxonomic ID

4565

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum

Family

Whirly

Protein Properties

Length: 266aa MW: 29745.7 Da PI: 9.4905

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Traes_4AL_FE94301FD.1	genome	IWGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	192.4	6.9e-60	91	229	1	139
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelanataerkydWekkqsfalsatevaelvdlaskesceffhdpaakgsneG 88 s+yk+kaal +++ p+f+ l+sg+ k+ ++G++ll++a+a+++r+ydW +kq+f+ls+ e+++l+ l+ +sceffhdp+++ s+eG Traes_4AL_FE94301FD.1 91 SIYKGKAALAFDPRPPQFVPLESGAYKVAKEGFVLLQFAPAVGPRQYDWTRKQVFSLSVWEMGTLLTLGLTDSCEFFHDPFKGRSDEG 178 7************************************************************************************* PP Whirly 89 kvrkalkvePlpdGsGlfvnlsvtnslvkgnesfsvPvskaefavlrsllv 139 kvrk+lkveP pdG G f+nlsv+n l++++e++++P++k+e+av+ s ++ Traes_4AL_FE94301FD.1 179 KVRKVLKVEPTPDGNGRFFNLSVQNRLLNVDENIYIPITKGEYAVIVSTFN 229 ********************************************99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	2.3E-78	81	251	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	1.57E-74	84	266	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	1.5E-58	92	226	IPR013742	Plant transcription factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006281	Biological Process	DNA repair
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:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0003723	Molecular Function	RNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 266 aa Download sequence Send to blast
MPPPLSVSLP SPQPLSLLPR HARAPHSHSL ALAQPLSTRA PPSSACSVVP ARHSDYFXXX 60 XXXXXXXXXX PLERDPPVPG GQAGRVFASY SIYKGKAALA FDPRPPQFVP LESGAYKVAK 120 EGFVLLQFAP AVGPRQYDWT RKQVFSLSVW EMGTLLTLGL TDSCEFFHDP FKGRSDEGKV 180 RKVLKVEPTP DGNGRFFNLS VQNRLLNVDE NIYIPITKGE YAVIVSTFNY IIPHIMGWST 240 FTNSIKPEES QPYNRPQSSP ELEWRR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1l3a_A	9e-91	80	264	32	218	p24: plant transcriptional regulator PBF-2
1l3a_B	9e-91	80	264	32	218	p24: plant transcriptional regulator PBF-2
1l3a_C	9e-91	80	264	32	218	p24: plant transcriptional regulator PBF-2
1l3a_D	9e-91	80	264	32	218	p24: plant transcriptional regulator PBF-2
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Functional Description ? help Back to Top
Source	Description
UniProt	Single-stranded DNA and RNA binding protein that maintains plastid genome stability by preventing break-induced and short homology-dependent illegitimate recombinations. Functions in RNA metabolism and is involved in the maturation of the atpF and 23S ribosomal RNAs. {ECO:0000269\|PubMed:18676978, ECO:0000269\|PubMed:19666500}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353795	0.0	AK353795.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1002M22.
GenBank	AK365452	0.0	AK365452.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv2034E15.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020186783.1	1e-180	single-stranded DNA-binding protein WHY1, chloroplastic-like
Swissprot	B2LXS7	1e-125	WHY1_MAIZE; Single-stranded DNA-binding protein WHY1, chloroplastic
TrEMBL	A0A446RGW2	0.0	A0A446RGW2_TRITD; Uncharacterized protein
STRING	Traes_4AL_FE94301FD.1	0.0	(Triticum aestivum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3012	38	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02740.2	5e-95	ssDNA-binding transcriptional regulator

Publications ? help Back to Top
Soderlund C, et al. Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs. PLoS Genet., 2009. 5(11): p. e1000740 [PMID:19936069] Brenchley R, et al. Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature, 2012. 491(7426): p. 705-10 [PMID:23192148]