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_009103496.1

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: 224aa MW: 25729.8 Da PI: 7.5663

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009103496.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	63.2	3.9e-20	67	120	4	57
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++++t+eq++ Le Fe+++++ ++e++A++lgL+ rqV vWFqNrRa++k+ XP_009103496.1 67 KRKLTDEQVNMLEFSFENEHKLESGRKEKIAAELGLDPRQVAVWFQNRRARWKN 120 4589************************************************95 PP
2	HD-ZIP_I/II	119.6	1.7e-38	66	157	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_009103496.1 66 RKRKLTDEQVNMLEFSFENEHKLESGRKEKIAAELGLDPRQVAVWFQNRRARWKNKKLEEEYAKLKSQHDTVVLGQCQLESQVLKLSEQLSE 157 8***************************************************************************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00389	3.9E-18	64	125	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.34E-18	64	123	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.358	66	121	IPR001356	Homeobox domain
CDD	cd00086	2.45E-16	66	122	No hit	No description
Pfam	PF00046	2.3E-17	67	120	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.4E-20	68	128	IPR009057	Homeodomain-like
PRINTS	PR00031	7.4E-6	92	101	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	96	119	IPR017970	Homeobox, conserved site
PRINTS	PR00031	7.4E-6	101	117	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:0009733	Biological Process	response to auxin
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 224 aa Download sequence Send to blast
MDQNVLGTQV YPYTTQTHGQ CIIVNQIDGS SSGEGSKPVK RRRRRRSKGS SATSEDDMTA 60 IGVMLRKRKL TDEQVNMLEF SFENEHKLES GRKEKIAAEL GLDPRQVAVW FQNRRARWKN 120 KKLEEEYAKL KSQHDTVVLG QCQLESQVLK LSEQLSEAQN EIRKLSERLA QETLTNSPSS 180 PRSVEANGAP IHFEFPPDVN YNIPFYISDN SYLQNMEYWD GLYV

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	39	44	KRRRRR
2	39	45	KRRRRRR
3	40	45	RRRRRR
4	64	69	LRKRKL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.30562	0.0	root

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00591	DAP	Transfer from AT5G66700	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009103496.1

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	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC189225	1e-158	AC189225.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB011P07, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009103496.1	1e-169	PREDICTED: homeobox-leucine zipper protein ATHB-53
Swissprot	Q9LVR0	1e-108	ATB53_ARATH; Homeobox-leucine zipper protein ATHB-53
TrEMBL	A0A078JXM2	1e-167	A0A078JXM2_BRANA; BnaA07g37510D protein
TrEMBL	M4D6I4	1e-167	M4D6I4_BRARP; Uncharacterized protein
STRING	Bra012093.1-P	1e-168	(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-111	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]