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

Gorai.004G113700.1

Common Name

B456_004G113700, LOC105791106

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

HD-ZIP

Protein Properties

Length: 172aa MW: 19558.2 Da PI: 7.9626

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.004G113700.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.3	1.3e-18	61	114	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k++ ++ +q+++Le+ F +++ e++ +L+++lgL+ rqV +WFqNrRa++k Gorai.004G113700.1 61 KKRHLSMHQVKALEKNFDVGNKLEPERKVKLTEELGLQPRQVAIWFQNRRARWK 114 556899***********************************************9 PP
2	HD-ZIP_I/II	108.4	5.3e-35	60	131	1	72
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkrayda 72 ekkr+ls +qvk+LE++F+ +kLeperKv+l++eLglqprqva+WFqnrRAR+ktk lEkdy++Lk++ ++ Gorai.004G113700.1 60 EKKRHLSMHQVKALEKNFDVGNKLEPERKVKLTEELGLQPRQVAIWFQNRRARWKTKVLEKDYAMLKANREK 131 69*****************************************************************99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	6.42E-18	48	116	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.763	56	116	IPR001356	Homeobox domain
SMART	SM00389	1.3E-16	59	120	IPR001356	Homeobox domain
Pfam	PF00046	6.8E-16	61	114	IPR001356	Homeobox domain
CDD	cd00086	1.04E-14	61	116	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.4E-18	63	123	IPR009057	Homeodomain-like
PRINTS	PR00031	3.4E-5	87	96	IPR000047	Helix-turn-helix motif
PRINTS	PR00031	3.4E-5	96	112	IPR000047	Helix-turn-helix motif

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 172 aa Download sequence Send to blast
MKRLSPSPSL DAFMSISQPK VDYAEDKSSK KHQIYSKEFQ AMLDGLDEED SLEEGGQATE 60 KKRHLSMHQV KALEKNFDVG NKLEPERKVK LTEELGLQPR QVAIWFQNRR ARWKTKVLEK 120 DYAMLKANRE KEPPRNCSDC LHCPSDNRQL SGDDCPLVPP KSSPEMTVNG S*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Localized primarily to the hypocotyl of germinating seedlings. {ECO:0000269\|PubMed:12678559}.
Uniprot	TISSUE SPECIFICITY: Widely expressed. {ECO:0000269\|PubMed:16055682}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that acts as a positive regulator of ABA-responsiveness, mediating the inhibitory effect of ABA on growth during seedling establishment. Binds to the DNA sequence 5'-CAATNATTG-3'. {ECO:0000269\|PubMed:12678559}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by abscisic acid (ABA) and by salt stress. {ECO:0000269\|PubMed:12678559, ECO:0000269\|PubMed:16055682}.

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	AC243121	1e-172	AC243121.1 Gossypium raimondii clone GR__Ba0142D21-hnv, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012474465.1	1e-125	PREDICTED: homeobox-leucine zipper protein ATHB-6-like isoform X1
Refseq	XP_012474467.1	1e-125	PREDICTED: homeobox-leucine zipper protein ATHB-6-like isoform X1
Refseq	XP_012474468.1	1e-125	PREDICTED: homeobox-leucine zipper protein ATHB-6-like isoform X1
Swissprot	P46667	3e-36	ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBL	A0A0D2PA75	1e-124	A0A0D2PA75_GOSRA; Uncharacterized protein
STRING	Gorai.004G113700.1	1e-125	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM545	28	143

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22430.1	6e-36	homeobox protein 6

Link Out ? help Back to Top
Phytozome	Gorai.004G113700.1
Entrez Gene	105791106

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Cassan-Wang H, et al. Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis. Front Plant Sci, 2013. 4: p. 189 [PMID:23781226] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Song L, et al. A transcription factor hierarchy defines an environmental stress response network. Science, 2017. [PMID:27811239] Stamm P, et al. The Transcription Factor ATHB5 Affects GA-Mediated Plasticity in Hypocotyl Cell Growth during Seed Germination. Plant Physiol., 2017. 173(1): p. 907-917 [PMID:27872245]