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

30075.m001183

Common Name

RCOM_1338430

Organism

Ricinus communis

Taxonomic ID

3988

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus

Family

HD-ZIP

Protein Properties

Length: 771aa MW: 85274.5 Da PI: 5.967

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
30075.m001183	genome	JCVI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.7	2.1e-18	23	81	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 k ++t+eq+e+Le+++ ++++ps +r++L +++ +++ +q+kvWFqNrR +ek+ 30075.m001183 23 KYVRYTPEQVEALERVYTECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 81 6789*****************************************************97 PP
2	START	179.7	1.7e-56	172	379	2	204
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEEE CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlmv 95 +aee+++e+++ka+ ++ Wv++ +++g++++ +++ s+++sg a+ra+g+v +++ v+e+l+d++ W ++++ +tl vi +g g+++l++ 30075.m001183 172 IAEETLAEFLSKATGTAVDWVQMIGMKPGPDSIGIVAVSRNCSGVAARACGLVSLEPT-KVAEILKDRPSWFRDCRCLDTLSVIPTGngGTIELIY 266 68999***************************************************.8888888888*********************** PP EXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHH CS START 96 aelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvks 187 ++++a+++l++ R+f+++Ry+ +l++g++vi+++S++ ++ p+ ss+vRae+lpSg+li+p+++g+s +++v+hvdl++++++++lr+l++s 30075.m001183 267 MQTYAPTTLAAaREFWTLRYTTTLEDGSLVICERSLTTTTGGPTgppASSFVRAEMLPSGYLIRPCEGGGSIIHIVDHVDLDAWSVPEVLRPLYES 362 ************************************9999999********************************************* PP HHHHHHHHHHHHTXXXX CS START 188 glaegaktwvatlqrqc 204 + + ++k+++a+l++ + 30075.m001183 363 SKILAQKMTMAALRHIR 379 ***********9865 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.661	18	82	IPR001356	Homeobox domain
SMART	SM00389	7.1E-15	20	86	IPR001356	Homeobox domain
Pfam	PF00046	5.0E-16	23	81	IPR001356	Homeobox domain
CDD	cd00086	3.48E-16	23	83	No hit	No description
SuperFamily	SSF46689	2.78E-16	23	85	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.6E-18	25	81	IPR009057	Homeodomain-like
CDD	cd14686	1.59E-6	75	114	No hit	No description
PROSITE profile	PS50848	26.613	162	390	IPR002913	START domain
CDD	cd08875	4.69E-72	166	382	No hit	No description
Gene3D	G3DSA:3.30.530.20	4.4E-22	170	376	IPR023393	START-like domain
SMART	SM00234	1.6E-53	171	381	IPR002913	START domain
SuperFamily	SSF55961	1.65E-38	172	383	No hit	No description
Pfam	PF01852	6.9E-54	172	379	IPR002913	START domain
SuperFamily	SSF55961	1.06E-5	419	504	No hit	No description
SuperFamily	SSF55961	1.06E-5	532	606	No hit	No description
Pfam	PF08670	9.9E-45	638	770	IPR013978	MEKHLA

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 771 aa Download sequence Send to blast
MYMALSMHNI KEANSNKQMD SSKYVRYTPE QVEALERVYT ECPKPSSLRR QQLIRECPIL 60 SNIEPKQIKV WFQNRRCREK QRKEASRLQT VNRKLTAMNK LLMEENDRLQ KQVSHLVYEN 120 GYMRQQLQTA SATTTDNSCE SVVINGQQQQ QQNPTPQHPQ RDANNPAGLL AIAEETLAEF 180 LSKATGTAVD WVQMIGMKPG PDSIGIVAVS RNCSGVAARA CGLVSLEPTK VAEILKDRPS 240 WFRDCRCLDT LSVIPTGNGG TIELIYMQTY APTTLAAARE FWTLRYTTTL EDGSLVICER 300 SLTTTTGGPT GPPASSFVRA EMLPSGYLIR PCEGGGSIIH IVDHVDLDAW SVPEVLRPLY 360 ESSKILAQKM TMAALRHIRQ IAQETSGEIQ YGGGRQPAVL RTFSQRLCRG FNDAVNGFSD 420 DGWSLLGGDG VEDVTIVINS TPNKFLGSQY TTSMFPTFGG GVLCAKASML LQNVPPALLV 480 RFLREHRSEW ADYGVDTYSA ACLKASPYAV PCARPGGFPS SQVILPLAHT VEHEEFLEVV 540 RLEGHAFSPE DVALARDMYL LQLCSGVDEN AVGACAQLVF APIDESFADD APLLPSGFRV 600 IPLDPKTDGP APTPMTVEKV MHCYTQVCHF QWHYLVIHTG GELFRVDPQA GDALLKQLWH 660 HSDAIMCCSL KTNASPVFTF ANQAGLDMLE TTLVALQDIM LDKILDEAGR KVLCSEFSKI 720 MQQGFAYLPA GICVSSMGRP VSYDQAIAWK VLNDDDSNHC LAFMFMNWSF V

Sequence ? help Back to Top

Protein Sequence Length: 771 aa Download sequence Send to blast

MYMALSMHNI KEANSNKQMD SSKYVRYTPE QVEALERVYT ECPKPSSLRR QQLIRECPIL  60
SNIEPKQIKV WFQNRRCREK QRKEASRLQT VNRKLTAMNK LLMEENDRLQ KQVSHLVYEN  120
GYMRQQLQTA SATTTDNSCE SVVINGQQQQ QQNPTPQHPQ RDANNPAGLL AIAEETLAEF  180
LSKATGTAVD WVQMIGMKPG PDSIGIVAVS RNCSGVAARA CGLVSLEPTK VAEILKDRPS  240
WFRDCRCLDT LSVIPTGNGG TIELIYMQTY APTTLAAARE FWTLRYTTTL EDGSLVICER  300
SLTTTTGGPT GPPASSFVRA EMLPSGYLIR PCEGGGSIIH IVDHVDLDAW SVPEVLRPLY  360
ESSKILAQKM TMAALRHIRQ IAQETSGEIQ YGGGRQPAVL RTFSQRLCRG FNDAVNGFSD  420
DGWSLLGGDG VEDVTIVINS TPNKFLGSQY TTSMFPTFGG GVLCAKASML LQNVPPALLV  480
RFLREHRSEW ADYGVDTYSA ACLKASPYAV PCARPGGFPS SQVILPLAHT VEHEEFLEVV  540
RLEGHAFSPE DVALARDMYL LQLCSGVDEN AVGACAQLVF APIDESFADD APLLPSGFRV  600
IPLDPKTDGP APTPMTVEKV MHCYTQVCHF QWHYLVIHTG GELFRVDPQA GDALLKQLWH  660
HSDAIMCCSL KTNASPVFTF ANQAGLDMLE TTLVALQDIM LDKILDEAGR KVLCSEFSKI  720
MQQGFAYLPA GICVSSMGRP VSYDQAIAWK VLNDDDSNHC LAFMFMNWSF V

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the determination of adaxial-abaxial polarity in ovule primordium. Specifies adaxial leaf fates. Binds to the DNA sequence 5'-GTAAT[GC]ATTAC-3'. {ECO:0000269\|PubMed:11395776, ECO:0000269\|PubMed:15598805, ECO:0000269\|PubMed:17900520, ECO:0000269\|PubMed:9747806}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	30075.m001183

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. Repressed by miR165 and miR166. {ECO:0000269\|PubMed:14999284, ECO:0000269\|PubMed:16033795, 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	AY919619	0.0	AY919619.1 Populus trichocarpa class III HD-Zip protein 4 (HB4) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015577248.1	0.0	homeobox-leucine zipper protein ATHB-14
Swissprot	O04292	0.0	ATBH9_ARATH; Homeobox-leucine zipper protein ATHB-9
TrEMBL	B9SB34	0.0	B9SB34_RICCO; Uncharacterized protein
STRING	XP_002523194.1	0.0	(Ricinus communis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5176	33	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G34710.1	0.0	HD-ZIP family protein

Link Out ? help Back to Top
Phytozome	30075.m001183

Publications ? help Back to Top
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] 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] Wójcik AM,Nodine MD,Gaj MD miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis. Front Plant Sci, 2017. 8: p. 2024 [PMID:29321785]