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

XP_013622099.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

HD-ZIP

Protein Properties

Length: 305aa MW: 34039 Da PI: 4.7413

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013622099.1	genome	NCBI	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	71	124	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ eq+++Le+ Fe ++++ e++ +LA+++gL+ rqV +WFqNrRa++k XP_013622099.1 71 KKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQEIGLQPRQVAIWFQNRRARWK 124 56689************************************************9 PP
2	HD-ZIP_I/II	129.6	1.2e-41	70	162	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 ekkrrls eqvk+LE++Fe ++kLeperKv+la+e+glqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L++++++L++e+k+ XP_013622099.1 70 EKKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQEIGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQRDNDSLHAEIKQ 162 69****************************************************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.42E-19	61	128	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.556	66	126	IPR001356	Homeobox domain
SMART	SM00389	3.5E-18	69	130	IPR001356	Homeobox domain
CDD	cd00086	5.43E-18	71	127	No hit	No description
Pfam	PF00046	8.4E-16	71	124	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.8E-20	73	133	IPR009057	Homeodomain-like
PRINTS	PR00031	1.8E-5	97	106	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	101	124	IPR017970	Homeobox, conserved site
PRINTS	PR00031	1.8E-5	106	122	IPR000047	Helix-turn-helix motif
Pfam	PF02183	1.5E-17	126	167	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 305 aa Download sequence Send to blast
MKRSRGSSDS LSGFLPICHP ATDNQLSPRP TATGFLYSGS GDHSPMFDCL GDGSLEDITV 60 GHASSTAATE KKRRLSVEQV KALEKNFEID NKLEPERKVK LAQEIGLQPR QVAIWFQNRR 120 ARWKTKQLER DYGVLKSNFD SLKRSRDSLQ RDNDSLHAEI KQLRAKLNVD GISRSSSNAS 180 TEENVLVKAD ETVMPSNEVL ELNQRPLPPP PHIPTEAPAL ELEYEMLSIF PRAEIFREDP 240 ADSSDSSAIL NDDYSPTAAE AAPATAVEMS TMGCFGQFVK MEEHEDLFSG EEACKLFADN 300 EQWYC

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	118	126	RRARWKTKQ
2	139	144	DSLKRS

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013622099.1

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	AK353247	1e-149	AK353247.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-23-D07.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013622099.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-5-like
Swissprot	P46667	1e-156	ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBL	A0A0D3BEU2	0.0	A0A0D3BEU2_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6AUV3	0.0	A0A3P6AUV3_BRAOL; Uncharacterized protein
STRING	Bo3g099330.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12986	15	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G65310.1	1e-146	homeobox protein 5

Publications ? help Back to Top
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]