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_00125.1_g00012.1

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: 845aa MW: 92937.6 Da PI: 6.6282

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00125.1_g00012.1	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	17	75	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_00125.1_g00012.1 17 KYVRYTPEQVEALERLYHDCPKPSSIRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 75 5679*****************************************************97 PP
2	START	170.2	1.4e-53	161	369	2	205
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECT CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetleviss 87 +aee+++e+++ka+ ++ Wv+++ +++g++++ +++ s+++ g a+ra+g+v +++ v+e+++d++ W + ++++++++v+ + Rsa1.0_00125.1_g00012.1 161 IAEETLAEFLSKATGTAVEWVQMPGMKPGPDSIGIIAISHGCAGVAARACGLVGLEPT-RVAEIVKDRPSWLRECRAVDVMNVLPT 245 7899****************************************************.7777777777************9 PP T..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEE CS START 88 g..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwv 167 + g+++l +++l+a+++l+p Rdf+ +Ry+ l++g++v++++S+ s+q+ p+ +++vRae+lpSg+li+p+++g+s +++v Rsa1.0_00125.1_g00012.1 246 AngGTIELLYMQLYAPTTLAPpRDFWLLRYTSVLEDGSLVVCERSLKSTQNGPSmppVQHFVRAEMLPSGYLIRPCDGGGSIIHIV 331 999*********************************************9988899*********************** PP E-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS START 168 ehvdlkgrlphwllrslvksglaegaktwvatlqrqce 205 +h+dl++ +++++lr+l++s + ++kt++a+l+++++ Rsa1.0_00125.1_g00012.1 332 DHMDLEACSVPEVLRPLYESPKVLAQKTTMAALRQLKQ 369 ********************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.24	12	76	IPR001356	Homeobox domain
SMART	SM00389	1.2E-15	14	80	IPR001356	Homeobox domain
CDD	cd00086	1.33E-16	17	77	No hit	No description
SuperFamily	SSF46689	1.03E-16	17	80	IPR009057	Homeodomain-like
Pfam	PF00046	5.9E-16	18	75	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.5E-18	19	75	IPR009057	Homeodomain-like
CDD	cd14686	1.20E-6	69	108	No hit	No description
PROSITE profile	PS50848	24.897	151	379	IPR002913	START domain
CDD	cd08875	2.99E-73	155	370	No hit	No description
SMART	SM00234	1.8E-38	160	370	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	2.7E-21	160	346	IPR023393	START-like domain
SuperFamily	SSF55961	6.59E-36	160	370	No hit	No description
Pfam	PF01852	3.4E-51	161	369	IPR002913	START domain
Pfam	PF08670	5.8E-48	694	844	IPR013978	MEKHLA

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: 845 aa Download sequence Send to blast
MEMSYKDGKM GCMDNGKYVR YTPEQVEALE RLYHDCPKPS SIRRQQLIRE CPILSNIEPK 60 QIKVWFQNRR CREKQRKEAS RLQAVNRKLT AMNKLLMEEN DRLQKQVSQL VHENSYFRQH 120 TPNPSLPAKD TSCESVVTGG QHQLASHNPP RDASPAGLLS IAEETLAEFL SKATGTAVEW 180 VQMPGMKPGP DSIGIIAISH GCAGVAARAC GLVGLEPTRV AEIVKDRPSW LRECRAVDVM 240 NVLPTANGGT IELLYMQLYA PTTLAPPRDF WLLRYTSVLE DGSLVVCERS LKSTQNGPSM 300 PPVQHFVRAE MLPSGYLIRP CDGGGSIIHI VDHMDLEACS VPEVLRPLYE SPKVLAQKTT 360 MAALRQLKQI TQESSQTNSS VNGWGRRPAA LRALSQRLSR GFNEAVNGFT DEGWSVIGDS 420 MDDVTITVNS SLDKLMGLNL TFSNGFAPVS NVVLCAKASM LLQNVPPAIL LRFLREHRSE 480 WADNNIDAYL AAAVKVGPCS ARVGGFGGQV ILPLAHTIEH EEFMEVIKLE GLGHSPEDAI 540 VPRDIFLLQL CSGMDENAVG TCAELIFAPI DASFADDAPL LPSGFRIIPL DSTKEVSSPN 600 RTLDLASALE IGSAGTTKAS TDQSGNSTCA RSVMTIAFEF GVESHMQEHV ASMARQYVRG 660 IISSVQRVAL ALSPSHISSQ VGLRTPLGTP EAQTLARWIC QSYRSYMGVE LLKSNSEGSE 720 SILKNLWHYT DAIICCSMKA MPVFTFANQA GLDMLETTLV SLQDISLEKI FDDNGRKILC 780 SEFPQIMQQG FGSLQGGICI SSMGRPVSYE RAVAWKVLNE EENAHCMKKR NAHCICFVFI 840 NWSFV

Sequence ? help Back to Top

Protein Sequence Length: 845 aa Download sequence Send to blast

MEMSYKDGKM GCMDNGKYVR YTPEQVEALE RLYHDCPKPS SIRRQQLIRE CPILSNIEPK  60
QIKVWFQNRR CREKQRKEAS RLQAVNRKLT AMNKLLMEEN DRLQKQVSQL VHENSYFRQH  120
TPNPSLPAKD TSCESVVTGG QHQLASHNPP RDASPAGLLS IAEETLAEFL SKATGTAVEW  180
VQMPGMKPGP DSIGIIAISH GCAGVAARAC GLVGLEPTRV AEIVKDRPSW LRECRAVDVM  240
NVLPTANGGT IELLYMQLYA PTTLAPPRDF WLLRYTSVLE DGSLVVCERS LKSTQNGPSM  300
PPVQHFVRAE MLPSGYLIRP CDGGGSIIHI VDHMDLEACS VPEVLRPLYE SPKVLAQKTT  360
MAALRQLKQI TQESSQTNSS VNGWGRRPAA LRALSQRLSR GFNEAVNGFT DEGWSVIGDS  420
MDDVTITVNS SLDKLMGLNL TFSNGFAPVS NVVLCAKASM LLQNVPPAIL LRFLREHRSE  480
WADNNIDAYL AAAVKVGPCS ARVGGFGGQV ILPLAHTIEH EEFMEVIKLE GLGHSPEDAI  540
VPRDIFLLQL CSGMDENAVG TCAELIFAPI DASFADDAPL LPSGFRIIPL DSTKEVSSPN  600
RTLDLASALE IGSAGTTKAS TDQSGNSTCA RSVMTIAFEF GVESHMQEHV ASMARQYVRG  660
IISSVQRVAL ALSPSHISSQ VGLRTPLGTP EAQTLARWIC QSYRSYMGVE LLKSNSEGSE  720
SILKNLWHYT DAIICCSMKA MPVFTFANQA GLDMLETTLV SLQDISLEKI FDDNGRKILC  780
SEFPQIMQQG FGSLQGGICI SSMGRPVSYE RAVAWKVLNE EENAHCMKKR NAHCICFVFI  840
NWSFV

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of meristem development to promote lateral organ formation. May regulates procambial and vascular tissue formation or maintenance, and vascular development in inflorescence stems. {ECO:0000269\|PubMed:15598805, ECO:0000269\|PubMed:15705957, ECO:0000269\|PubMed:16617092}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00125.1_g00012.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. Repressed by miR165 and miR166. {ECO:0000269\|PubMed:15773855, ECO:0000269\|PubMed:16033795, ECO:0000269\|PubMed:16617092, ECO:0000269\|PubMed:17237362}.

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	AJ439449	0.0	AJ439449.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein (ATHB-15 gene).
GenBank	AY060556	0.0	AY060556.1 Arabidopsis thaliana At1g52150/F5F19_21 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018451524.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-15-like
Refseq	XP_018460807.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-15
Swissprot	Q9ZU11	0.0	ATB15_ARATH; Homeobox-leucine zipper protein ATHB-15
TrEMBL	V4KGD2	0.0	V4KGD2_EUTSA; Uncharacterized protein
STRING	XP_006392953.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2022	26	78

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G52150.1	0.0	HD-ZIP family protein

Publications ? help Back to Top
Yamada T,Sasaki Y,Hashimoto K,Nakajima K,Gasser CS CORONA, PHABULOSA and PHAVOLUTA collaborate with BELL1 to confine WUSCHEL expression to the nucellus in Arabidopsis ovules. Development, 2016. 143(3): p. 422-6 [PMID:26700684]