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_009112326.1

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: 225aa MW: 25962.1 Da PI: 6.152

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009112326.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	62.6	5.9e-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_009112326.1 67 KRKVTDEQMNMLEYSFENEHKLESGRKEKIARELGLDPRQVAVWFQNRRARWKN 120 4589************************************************95 PP
2	HD-ZIP_I/II	116.2	1.9e-37	66	157	2	93
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 +kr++++eq+++LE sFe+e+kLe+ rK+++areLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d++ +++Le++v L+e+l+e XP_009112326.1 66 RKRKVTDEQMNMLEYSFENEHKLESGRKEKIARELGLDPRQVAVWFQNRRARWKNKKLEEEYAKLKSQHDTVLLGQSHLESQVLILTEQLTE 157 89*************************************************************************************99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00389	5.5E-16	64	125	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.01E-17	66	124	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.552	66	121	IPR001356	Homeobox domain
CDD	cd00086	8.89E-16	66	122	No hit	No description
Pfam	PF00046	3.4E-17	67	120	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.4E-20	71	121	IPR009057	Homeodomain-like
PRINTS	PR00031	1.0E-5	92	101	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	96	119	IPR017970	Homeobox, conserved site
PRINTS	PR00031	1.0E-5	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:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 225 aa Download sequence Send to blast
MDQMVLGSQV YPYTTQTHSQ CIIVNQIDGA PSGDGSKPVK RRRKRRSKGS SATNEDDVAS 60 IGALLRKRKV TDEQMNMLEY SFENEHKLES GRKEKIAREL GLDPRQVAVW FQNRRARWKN 120 KKLEEEYAKL KSQHDTVLLG QSHLESQVLI LTEQLTEAQN EIQKLSERLV QETSTNSSSS 180 SLSVEANYAP IEFEFAPVDT NYNIPFYMMD NNYLQNMEYW DGLYV

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	39	45	KRRRKRR

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009112326.1

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	AC189225	0.0	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_009112326.1	1e-169	PREDICTED: homeobox-leucine zipper protein ATHB-53-like
Swissprot	Q9LVR0	1e-109	ATB53_ARATH; Homeobox-leucine zipper protein ATHB-53
TrEMBL	M4F7U3	1e-168	M4F7U3_BRARP; Uncharacterized protein
STRING	Bra037154.1-P	1e-169	(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-108	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]