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_7AL_C0DB55E98.2

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

Protein Properties

Length: 230aa MW: 25721.3 Da PI: 6.0361

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Traes_7AL_C0DB55E98.2	genome	IWGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	43.4	6.1e-14	125	212	3	87
EE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEE.TTS-EEEEEE.....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 3 kvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltled.esgrsWevkliy...rkksgryvltkGWkeFvkangLkegDfvvFkl 84 k+lt+sdv + gr+vlpkk ae+ + ++ ++ l++ d +W++k++ ++ks++y+l ++eFvk +gL++gD ++++ Traes_7AL_C0DB55E98.2 125 KELTKSDVANVGRIVLPKKDAEASlpPLCERDPVILQMDDmVLPITWKFKYSRfwpNNKSRMYILD-STSEFVKTHGLQAGDALIIY- 210 899****************98888666666766777775555***666788888778777.9**************998. PP -SS CS B3 85 dgr 87 ++ Traes_7AL_C0DB55E98.2 211 -KN 212 .44 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd10017	1.27E-19	122	221	No hit	No description
SuperFamily	SSF101936	1.28E-14	122	211	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.6E-19	122	218	IPR015300	DNA-binding pseudobarrel domain
SMART	SM01019	1.1E-4	123	223	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.8E-10	125	216	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 230 aa Download sequence Send to blast
MLNKNAYSYY PAPNQEHTHP FSLDNNQAKD PGSIPSFGIE SFNTTSLAPN MSAHMPPMEG 60 PLPTKEPEAP EDMPARVATI KDEMDARNGV ELKCETVDAL PELKQGHESC ASKFNSGEYQ 120 VILRKELTKS DVANVGRIVL PKKDAEASLP PLCERDPVIL QMDDMVLPIT WKFKYSRFWP 180 NNKSRMYILD STSEFVKTHG LQAGDALIIY KNPVPGKYIV RGEKAIQQTN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9c_A	1e-31	112	219	2	108	B3 domain-containing transcription factor LEC2
6j9c_D	1e-31	112	219	2	108	B3 domain-containing transcription factor LEC2
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription regulator involved in iron deficiency response and tolerance. May regulate directly iron transporters or other transcription factors involved in iron-deficiency response. Binds specifically to the DNA sequence 5'-CATGC-3' of the IDE1 element found in the promoter of the barley iron deficiency-inducible gene IDS2. {ECO:0000269\|PubMed:18025467}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated during the early stage of iron deficiency (at protein level). {ECO:0000269\|PubMed:27137867}.

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	AK373902	0.0	AK373902.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv3046N18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020169706.1	1e-170	B3 domain-containing protein IDEF1-like
Swissprot	Q6Z1Z3	1e-101	IDEF1_ORYSJ; B3 domain-containing protein IDEF1
TrEMBL	A0A453S423	1e-169	A0A453S423_AEGTS; Uncharacterized protein
TrEMBL	A0A453S579	1e-169	A0A453S579_AEGTS; Uncharacterized protein
STRING	Traes_7AL_C0DB55E98.2	1e-173	(Triticum aestivum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP11346	28	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24650.1	8e-34	B3 family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Kobayashi T, et al. The rice transcription factor IDEF1 is essential for the early response to iron deficiency, and induces vegetative expression of late embryogenesis abundant genes. Plant J., 2009. 60(6): p. 948-61 [PMID:19737364] Kobayashi T, et al. The spatial expression and regulation of transcription factors IDEF1 and IDEF2. Ann. Bot., 2010. 105(7): p. 1109-17 [PMID:20197292] Kobayashi T, et al. The rice transcription factor IDEF1 directly binds to iron and other divalent metals for sensing cellular iron status. Plant J., 2012. 69(1): p. 81-91 [PMID:21880076] Brenchley R, et al. Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature, 2012. 491(7426): p. 705-10 [PMID:23192148] Itai RN,Ogo Y,Kobayashi T,Nakanishi H,Nishizawa NK Rice genes involved in phytosiderophore biosynthesis are synchronously regulated during the early stages of iron deficiency in roots. Rice (N Y), 2013. 6(1): p. 16 [PMID:24280375] Kobayashi T,Nishizawa NK Iron sensors and signals in response to iron deficiency. Plant Sci., 2014. 224: p. 36-43 [PMID:24908504] Kobayashi T,Nakanishi Itai R,Nishizawa NK Iron deficiency responses in rice roots. Rice (N Y), 2014. 7(1): p. 27 [PMID:26224556] Tan S, et al. CSN6, a subunit of the COP9 signalosome, is involved in early response to iron deficiency in Oryza sativa. Sci Rep, 2016. 6: p. 25485 [PMID:27137867] Kobayashi T, et al. Jasmonate signaling is activated in the very early stages of iron deficiency responses in rice roots. Plant Mol. Biol., 2016. 91(4-5): p. 533-47 [PMID:27143046]