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

RrC1961_p5

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

HB-other

Protein Properties

Length: 160aa MW: 18545.9 Da PI: 10.1517

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1961_p5	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	53.4	4.5e-17	15	68	3	52
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrR 52 k ++t+eq+e+Le+l++ +++ps +r++L ++ +++ +q+kvWFqNrR RrC1961_p5 15 KYVRYTPEQVEALERLYNDCPKPSSMRRQQLIREYpilsNIEPKQIKVWFQNRR 68 5679************************************************** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	13.815	10	68	IPR001356	Homeobox domain
SMART	SM00389	3.2E-11	12	78	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.92E-14	14	69	IPR009057	Homeodomain-like
Pfam	PF00046	1.2E-14	15	68	IPR001356	Homeobox domain
CDD	cd00086	2.57E-12	15	68	No hit	No description
Gene3D	G3DSA:1.10.10.60	3.8E-16	17	68	IPR009057	Homeodomain-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 160 aa Download sequence Send to blast
MGGGSNSSHN IDNGKYVRYT PEQVEALERL YNDCPKPSSM RRQQLIREYP ILSNIEPKQI 60 KVWFQNRRSF SLLLIKKQRK EASRLQAVNR KLTAMNKLLM EENDRLQKQV SHLVYENSYF 120 RQHPQNQGNL ATTDTSCESV VTSGQHHLTP QHQPRDASPA

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of vascular development. May promote differentiation of precambial and cambial cells. {ECO:0000269\|PubMed:11402194, ECO:0000269\|PubMed:15598805}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. Repressed by miR165. {ECO:0000269\|PubMed:17237362, ECO:0000269\|PubMed:8575317}.

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	AJ441292	6e-89	AJ441292.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 8 (hb-8 gene).
GenBank	AL161582	6e-89	AL161582.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 78.
GenBank	AY099631	6e-89	AY099631.1 Arabidopsis thaliana HD-zip transcription factor (athb-8) (At4g32880) mRNA, complete cds.
GenBank	BT008798	6e-89	BT008798.1 Arabidopsis thaliana At4g32880 gene, complete cds.
GenBank	CP002687	6e-89	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBank	Z50851	6e-89	Z50851.1 A.thaliana athb-8 gene.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009125299.1	1e-100	PREDICTED: homeobox-leucine zipper protein ATHB-8
Refseq	XP_009125305.1	1e-100	PREDICTED: homeobox-leucine zipper protein ATHB-8
Refseq	XP_013660015.1	1e-100	homeobox-leucine zipper protein ATHB-8
Refseq	XP_013660082.1	1e-100	homeobox-leucine zipper protein ATHB-8
Refseq	XP_018471819.1	1e-100	PREDICTED: homeobox-leucine zipper protein ATHB-8
Swissprot	Q39123	1e-100	ATHB8_ARATH; Homeobox-leucine zipper protein ATHB-8
TrEMBL	A0A0D3A2G0	1e-100	A0A0D3A2G0_BRAOL; Uncharacterized protein
STRING	Bra011392.1-P	1e-100	(Brassica rapa)
STRING	Bo1g009850.1	1e-101	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM18074	5	9

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G32880.1	1e-103	homeobox gene 8

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Hategan L,Godza B,Kozma-Bognar L,Bishop GJ,Szekeres M Differential expression of the brassinosteroid receptor-encoding BRI1 gene in Arabidopsis. Planta, 2014. 239(5): p. 989-1001 [PMID:24488524] Baima S, et al. Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module. Mol Plant, 2014. 7(6): p. 1006-1025 [PMID:24777988] Kakehi J, et al. Mutations in ribosomal proteins, RPL4 and RACK1, suppress the phenotype of a thermospermine-deficient mutant of Arabidopsis thaliana. PLoS ONE, 2015. 10(1): p. e0117309 [PMID:25625317] Jia X, et al. Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic. Plant Sci., 2015. 233: p. 11-21 [PMID:25711809] Liu S, et al. Expression of wild-type PtrIAA14.1, a poplar Aux/IAA gene causes morphological changes in Arabidopsis. Front Plant Sci, 2015. 6: p. 388 [PMID:26082787] Yamaguchi YL, et al. Root-Knot and Cyst Nematodes Activate Procambium-Associated Genes in Arabidopsis Roots. Front Plant Sci, 2017. 8: p. 1195 [PMID:28747918] Yamazaki K, et al. Suppression of DELLA signaling induces procambial cell formation in culture. Plant J., 2018. 94(1): p. 48-59 [PMID:29383774]