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_009130555.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 231aa MW: 26776.9 Da PI: 4.9425

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009130555.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61	1.8e-19	68	121	4	57
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++++t+eq+ Le Fe+++++ ++e++A +lgL+ rqV vWFqNrRa++k+ XP_009130555.1 68 KRKLTDEQVIMLEYSFENEHKLESGRKEKIAGELGLDPRQVAVWFQNRRARWKN 121 4589************************************************95 PP
2	HD-ZIP_I/II	116.7	1.3e-37	67	158	2	93
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 +kr+l++eqv +LE sFe+e+kLe+ rK+++a eLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+ + +++Le++v +L+e+l+e XP_009130555.1 67 RKRKLTDEQVIMLEYSFENEHKLESGRKEKIAGELGLDPRQVAVWFQNRRARWKNKKLEEEYAKLKSQHDSDVLGQCQLESQVIKLTEQLSE 158 8***************************************************************************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	5.01E-18	61	124	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.568	62	122	IPR001356	Homeobox domain
SMART	SM00389	1.1E-17	65	126	IPR001356	Homeobox domain
CDD	cd00086	4.46E-15	67	123	No hit	No description
Pfam	PF00046	9.9E-17	68	121	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.7E-20	69	129	IPR009057	Homeodomain-like
PRINTS	PR00031	2.4E-5	93	102	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	97	120	IPR017970	Homeobox, conserved site
PRINTS	PR00031	2.4E-5	102	118	IPR000047	Helix-turn-helix motif

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

Sequence ? help Back to Top
Protein Sequence Length: 231 aa Download sequence Send to blast
MDQTVLSSQV YPYTIQTQSE CIIVNQIDGS SSGDGSKPVK RRRKRRSKGS SSATNEDDVR 60 AMERMFRKRK LTDEQVIMLE YSFENEHKLE SGRKEKIAGE LGLDPRQVAV WFQNRRARWK 120 NKKLEEEYAK LKSQHDSDVL GQCQLESQVI KLTEQLSEAQ NEIRKLSELV VVQETSTNSS 180 SSSFSIEAND APTDFEFSPM DTINDNIPLY MLDNNYYLQN MEYWDGLYVQ F

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	39	45	KRRRKRR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in root meristem, late flowers and siliques. {ECO:0000269\|PubMed:15567172, ECO:0000269\|PubMed:16055682}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that may play a regulatory role in auxin/cytokinin signaling during root development. {ECO:0000269\|PubMed:15567172}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009130555.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By abscisic acid (ABA), by salt stress, by indole-3-acetic acid (IAA) and during darkness conditions. Down-regulated by cytokinin. {ECO:0000269\|PubMed:15567172, 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	AC189258	0.0	AC189258.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB021J09, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009130555.1	1e-172	PREDICTED: homeobox-leucine zipper protein ATHB-53-like
Swissprot	Q9LVR0	1e-102	ATB53_ARATH; Homeobox-leucine zipper protein ATHB-53
TrEMBL	M4ESN9	1e-171	M4ESN9_BRARP; Uncharacterized protein
STRING	Bra031819.1-P	1e-172	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12602	17	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66700.1	1e-101	homeobox 53

Publications ? help Back to Top
González-Grandío E, et al. Abscisic acid signaling is controlled by a BRANCHED1/HD-ZIP I cascade in Arabidopsis axillary buds. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(2): p. E245-E254 [PMID:28028241]