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

RrC267_p3

Organism

Raphanus raphanistrum

Taxonomic ID

109996

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: 177aa MW: 20462.3 Da PI: 9.7483

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC267_p3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58.2	1.4e-18	35	88	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+ ++t+ ql Le+ F+ + +++ +++ +L+++lgL rq+ vWFqNrRa++k RrC267_p3 35 KKKRLTSGQLASLERSFQDEIKLDSDRKLKLSRELGLHPRQIAVWFQNRRARWK 88 45679************************************************9 PP
2	HD-ZIP_I/II	110.8	9.3e-36	35	124	2	89
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekev..eeLre 89 kk+rl++ q+++LE+sF+ e kL+++rK +l+reLgl+prq+avWFqnrRAR+k+kqlE+ y++L+++yd +++e+++L++ev ++Lr+ RrC267_p3 35 KKKRLTSGQLASLERSFQDEIKLDSDRKLKLSRELGLHPRQIAVWFQNRRARWKAKQLEQLYDSLRQEYDVVSREKQMLHEEVcvKKLRS 124 9***************999*********************************************************9963366665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	5.43E-18	23	92	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.536	30	90	IPR001356	Homeobox domain
SMART	SM00389	3.8E-16	34	94	IPR001356	Homeobox domain
Pfam	PF00046	4.3E-16	35	88	IPR001356	Homeobox domain
CDD	cd00086	1.17E-13	35	91	No hit	No description
Gene3D	G3DSA:1.10.10.60	4.0E-19	37	97	IPR009057	Homeodomain-like
PRINTS	PR00031	5.8E-5	61	70	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	65	88	IPR017970	Homeobox, conserved site
PRINTS	PR00031	5.8E-5	70	86	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: 177 aa Download sequence Send to blast
MHADTQTGPV ISVPESEKII NNEYRLPSNN KEITKKKRLT SGQLASLERS FQDEIKLDSD 60 RKLKLSRELG LHPRQIAVWF QNRRARWKAK QLEQLYDSLR QEYDVVSREK QMLHEEVCVK 120 KLRSILRDQG LIKKQISGVT SGEDTTEIAS VVTTKVYGPD QYNNQMVVAS SCWTPYP

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	82	90	RRARWKAKQ

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

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-148	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_018475508.1	1e-123	PREDICTED: putative homeobox-leucine zipper protein ATHB-51
Swissprot	Q9LZR0	1e-89	ATB51_ARATH; Putative homeobox-leucine zipper protein ATHB-51
TrEMBL	A0A078FE97	1e-109	A0A078FE97_BRANA; BnaA03g01050D protein
STRING	Bo3g002560.1	1e-109	(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	5e-92	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]