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_02058.1_g00004.1

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: 226aa MW: 25390.8 Da PI: 8.8046

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_02058.1_g00004.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.5	1.3e-19	15	73	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 k ++t+eq+e+Le+l++ +++ps +r++L +++ +++ +q+kvWFqNrR +ek+ Rsa1.0_02058.1_g00004.1 15 KYVRYTPEQVEALERLYNDCPKPSSMRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 73 5679*****************************************************97 PP
2	START	36.1	1.5e-12	159	225	2	69
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCG CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddk 69 +a e+++e+++ka+ ++ W +++ +++g++++ +++ s++++g a+ra+g+v +++ v+e+l+d+ Rsa1.0_02058.1_g00004.1 159 IADETLTEFISKATGTAVEWIQMPGMKPGPDSIGIVAISHGCTGIAARACGLVGLDPT-RVAEILKDR 225 68899*****************************************************.888888875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.37	10	74	IPR001356	Homeobox domain
SMART	SM00389	1.7E-15	12	78	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.05E-17	14	78	IPR009057	Homeodomain-like
CDD	cd00086	1.42E-16	15	75	No hit	No description
Pfam	PF00046	3.9E-17	16	73	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	5.0E-19	17	70	IPR009057	Homeodomain-like
CDD	cd14686	3.77E-6	67	106	No hit	No description
Gene3D	G3DSA:1.20.5.170	2.4E-4	71	108	No hit	No description
Pfam	PF01852	8.6E-10	159	225	IPR002913	START domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 226 aa Download sequence Send to blast
MGGGSNNSHH IDNGKYVRYT PEQVEALERL YNDCPKPSSM RRQQLIRECP ILSNIEPKQI 60 KVWFQNRRCR EKQRKEASRL QAVNRKLTAM NKLLMEENDR LQKQVSHLVY ENSYFRQHPQ 120 NGNLTTTDTS CESVVTSGQH HLTPQHQPRD ASPAGLLSIA DETLTEFISK ATGTAVEWIQ 180 MPGMKPGPDS IGIVAISHGC TGIAARACGL VGLDPTRVAE ILKDRY

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_02058.1_g00004.1

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	0.0	AJ441292.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein 8 (hb-8 gene).
GenBank	AY099631	0.0	AY099631.1 Arabidopsis thaliana HD-zip transcription factor (athb-8) (At4g32880) mRNA, complete cds.
GenBank	BT008798	0.0	BT008798.1 Arabidopsis thaliana At4g32880 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018447492.1	1e-162	PREDICTED: homeobox-leucine zipper protein ATHB-8-like
Swissprot	Q39123	1e-159	ATHB8_ARATH; Homeobox-leucine zipper protein ATHB-8
TrEMBL	A0A078GUE2	1e-160	A0A078GUE2_BRANA; BnaC03g66860D protein
TrEMBL	A0A078I587	1e-160	A0A078I587_BRANA; BnaA08g11980D protein
TrEMBL	A0A3P6B5V0	1e-159	A0A3P6B5V0_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6BUM0	1e-159	A0A3P6BUM0_BRACM; Uncharacterized protein
TrEMBL	M4F0E5	1e-159	M4F0E5_BRARP; Uncharacterized protein
TrEMBL	V4P388	1e-159	V4P388_EUTSA; Uncharacterized protein
STRING	Bra034539.1-P	1e-160	(Brassica rapa)

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-161	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]