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

Rsa1.0_00335.1_g00022.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

HD-ZIP

Protein Properties

Length: 230aa MW: 26574.9 Da PI: 8.4141

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00335.1_g00022.1	genome	RGD	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	130	4	56
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 + ++t+ ql Le+ F+++ +++ +++ +L+++lgL+ rq+ vWFqNrRa++k Rsa1.0_00335.1_g00022.1 78 KKRLTSGQLASLERSFQEEIKLDSDRKLKLSRELGLQPRQIAVWFQNRRARWK 130 45699***********************************************9 PP
2	HD-ZIP_I/II	114.3	7.4e-37	77	167	2	92
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeL 87 kk+rl++ q+++LE+sF+ee kL+++rK +l+reLglqprq+avWFqnrRAR+k+kqlE+ y++L+++yd +++e++ L++ev++L Rsa1.0_00335.1_g00022.1 77 KKKRLTSGQLASLERSFQEEIKLDSDRKLKLSRELGLQPRQIAVWFQNRRARWKAKQLEQLYDSLRQEYDVVSREKHLLHEEVRKL 162 9************************************************************************************* PP HD-ZIP_I/II 88 reelk 92 r+ l+ Rsa1.0_00335.1_g00022.1 163 RALLR 167 *8775 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.82E-18	63	134	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.649	72	132	IPR001356	Homeobox domain
SMART	SM00389	3.0E-16	74	136	IPR001356	Homeobox domain
CDD	cd00086	1.77E-14	77	133	No hit	No description
Pfam	PF00046	5.4E-16	78	130	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	6.4E-19	79	139	IPR009057	Homeodomain-like
PRINTS	PR00031	5.6E-5	103	112	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	107	130	IPR017970	Homeobox, conserved site
PRINTS	PR00031	5.6E-5	112	128	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: 230 aa Download sequence Send to blast
MEWTTTRNVE NVRIPFMTPP WPESSSFNSL HSSNYDPYAV SSYTPADTQL GPVTSVPESE 60 KTISAYQFSS NNNEMIKKKR LTSGQLASLE RSFQEEIKLD SDRKLKLSRE LGLQPRQIAV 120 WFQNRRARWK AKQLEQLYDS LRQEYDVVSR EKHLLHEEVR KLRALLRDHG LIKKQISGGE 180 DTTEIPSVVI GHPRVENLNN NQISGENQIY GIDQYNNPML IVSSCWPPFP

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	124	132	RRARWKAKQ

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00335.1_g00022.1

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	1e-103	AC232522.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB073I16, complete sequence.
GenBank	EU352029	1e-103	EU352029.1 Arabidopsis lyrata At5g03790-like protein gene, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018444845.1	1e-152	PREDICTED: putative homeobox-leucine zipper protein ATHB-51
Swissprot	Q9LZR0	1e-137	ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBL	A0A0D3EI30	1e-142	A0A0D3EI30_BRAOL; Uncharacterized protein
STRING	Bo9g181720.1	1e-143	(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-132	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]