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_009130780.1

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: 218aa MW: 25143.4 Da PI: 9.2331

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009130780.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.6	2.1e-18	78	131	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+ ++t+ ql Le+ F+ + +++ +++ +L+++lgL+ rq+ vWFqNrRa++k XP_009130780.1 78 KKKRLTSGQLASLERSFQDEIKLDSDRKLKLSRELGLQPRQIAVWFQNRRARWK 131 45679************************************************9 PP
2	HD-ZIP_I/II	115.6	3e-37	78	168	2	92
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 kk+rl++ q+++LE+sF+ e kL+++rK +l+reLglqprq+avWFqnrRAR+k+kqlE+ y++L+++yd + +e+++L++ev++Lr+ l+ XP_009130780.1 78 KKKRLTSGQLASLERSFQDEIKLDSDRKLKLSRELGLQPRQIAVWFQNRRARWKAKQLEQLYDSLRKEYDVVCREKQMLHEEVKKLRAILR 168 9***************999****************************************************************8765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	6.84E-18	66	135	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.552	73	133	IPR001356	Homeobox domain
SMART	SM00389	6.8E-16	77	137	IPR001356	Homeobox domain
Pfam	PF00046	7.5E-16	78	131	IPR001356	Homeobox domain
CDD	cd00086	1.06E-14	78	134	No hit	No description
Gene3D	G3DSA:1.10.10.60	4.3E-19	80	140	IPR009057	Homeodomain-like
PRINTS	PR00031	5.2E-5	104	113	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	108	131	IPR017970	Homeobox, conserved site
PRINTS	PR00031	5.2E-5	113	129	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: 218 aa Download sequence Send to blast
MEWSTTNNLE NMRVAFMLPT WPESSSFNSL HNFNYDPYAA GNSYTPADTQ TGPVISVPEP 60 DKIINAYRLP SNNNEITKKK RLTSGQLASL ERSFQDEIKL DSDRKLKLSR ELGLQPRQIA 120 VWFQNRRARW KAKQLEQLYD SLRKEYDVVC REKQMLHEEV KKLRAILRDH GLIKKQISGV 180 TSGEDTTEIP SVVTTKVYGT DQYNNQMVVA SSCWPPYP

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	125	133	RRARWKAKQ

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Widely expressed. {ECO:0000269\|PubMed:16055682}.

Functional Description ? help Back to Top
Source	Description
UniProt	Putative transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009130780.1

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	AC232522	0.0	AC232522.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB073I16, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009130780.1	1e-164	PREDICTED: putative homeobox-leucine zipper protein ATHB-51 isoform X1
Swissprot	Q9LZR0	1e-124	ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBL	A0A3P5ZY03	1e-156	A0A3P5ZY03_BRAOL; Uncharacterized protein
STRING	Bo3g002560.1	1e-154	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1660	28	88

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G03790.1	1e-127	homeobox 51

Publications ? help Back to Top
Andres RJ, et al. Modifications to a LATE MERISTEM IDENTITY1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.). Proc. Natl. Acad. Sci. U.S.A., 2017. 114(1): p. E57-E66 [PMID:27999177] Vuolo F, et al. LMI1 homeodomain protein regulates organ proportions by spatial modulation of endoreduplication. Genes Dev., 2018. 32(21-22): p. 1361-1366 [PMID:30366902]