PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_13763.1_g00001.1
Organism
Raphanus sativus
Taxonomic ID
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: 458aa    MW: 50382.3 Da    PI: 7.9006
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_13763.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox55.97.1e-182583357
                             --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
                 Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                             k  ++t+eq+e+Le+++ ++++p+  +r++L +++    +++ +q+kvWFqNrR ++k+
  Rsa1.0_13763.1_g00001.1 25 KYVRYTAEQVEALERVYSECPKPTSLRRQQLISECpilaHIEPKQIKVWFQNRRCRDKQ 83
                             56789***************************************************996 PP
2bZIP_120.69.5e-07771221863
                              HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS
                   bZIP_1  18 rrsRqRKkaeieeLeekvkeLeaeNkaLkkeleelkkevaklksev 63 
                              rr+R + ++e  +L+   ++L+a Nk L +e+++l+k+v+ l +e+
  Rsa1.0_13763.1_g00001.1  77 RRCRDKQRKEASRLQSVNQKLSAMNKLLMEENDRLQKQVSHLVTEN 122
                              9**************************************9987765 PP
3START165.53.7e-521623692204
                              HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECT CS
                    START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetleviss 87 
                              +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+ ++g a+ra+g+v  ++++ ve+l d++  W +++++ e+      
  Rsa1.0_13763.1_g00001.1 162 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQKCNGVAARACGLVSLEPMKIVEILKDRP-SWFRDCRSLEVFTMFPA 246
                              68999*****************************************************9999999999.***********999999 PP

                              T..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEE CS
                    START  88 g..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwv 167
                              g  g+++l++++++a+++l+p Rdf+++Ry+ +l  g++v++++S++     p+   s+++vRae+lpSg+li+p+++g+s +++v
  Rsa1.0_13763.1_g00001.1 247 GngGTIELIYMQTYAPTTLAPaRDFWTLRYTTSLDNGSFVVCERSLSGSGAGPNansSAQFVRAEMLPSGYLIRPCDGGGSIIHIV 332
                              999********************************************988888888899*************************** PP

                              E-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXX CS
                    START 168 ehvdlkgrlphwllrslvksglaegaktwvatlqrqc 204
                              +h++l+g++++ +lr+l++s+ + +++++ a+l++ +
  Rsa1.0_13763.1_g00001.1 333 DHINLEGWSVPDVLRPLYESSKVVAQRMTIAALRHIK 369
                              ********************************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007114.8842084IPR001356Homeobox domain
SMARTSM003891.6E-142288IPR001356Homeobox domain
SuperFamilySSF466892.65E-162287IPR009057Homeodomain-like
CDDcd000864.61E-152585No hitNo description
PfamPF000462.3E-152683IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.605.7E-182780IPR009057Homeodomain-like
CDDcd146861.60E-677116No hitNo description
Gene3DG3DSA:1.20.5.1702.4E-481130No hitNo description
PROSITE profilePS5084827.054152371IPR002913START domain
CDDcd088755.13E-73156370No hitNo description
Gene3DG3DSA:3.30.530.201.6E-21160366IPR023393START-like domain
SMARTSM002341.2E-42161371IPR002913START domain
PfamPF018521.0E-49162369IPR002913START domain
SuperFamilySSF559615.91E-36162372No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 458 aa     Download sequence    Send to blast
MAMAVANHNE SGGDNINRHL DSSGKYVRYT AEQVEALERV YSECPKPTSL RRQQLISECP  60
ILAHIEPKQI KVWFQNRRCR DKQRKEASRL QSVNQKLSAM NKLLMEENDR LQKQVSHLVT  120
ENGYMKQQLT TTVGADASCD SVDPTPHHSL RDANSPAGLL AIAEETLAEF LSKATGTAVD  180
WVQMPGMKPG PDSVGIFAIS QKCNGVAARA CGLVSLEPMK IVEILKDRPS WFRDCRSLEV  240
FTMFPAGNGG TIELIYMQTY APTTLAPARD FWTLRYTTSL DNGSFVVCER SLSGSGAGPN  300
ANSSAQFVRA EMLPSGYLIR PCDGGGSIIH IVDHINLEGW SVPDVLRPLY ESSKVVAQRM  360
TIAALRHIKQ VAHERNGEVV YGLGRQPAIL RTFSQRLSRG FNDAVNGFND DGWSIAHCNG  420
AEDITVAVNS TKHLNRFSDS LSFLGGVLCA KASMLLQV
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of interfascicular fiber (cortical cells) and secondary xylem differentiation in the inflorescence stems. Required for lateral shoot meristems (LSMs) and flower meristems (FMs) initiation. May be involved in the determination of vascular patterning and organ polarity (PubMed:10559440, PubMed:11169198, PubMed:11402186, PubMed:15111711, PubMed:15598805, PubMed:7555701). Directly regulates the expression of AGO10, ZPR1, ZPR2, ZPR3 and ZPR4 (PubMed:22781836). Required to regulate adaxial-abaxial polarity and leaf axial patterning (PubMed:20807212). {ECO:0000269|PubMed:10559440, ECO:0000269|PubMed:11169198, ECO:0000269|PubMed:11402186, ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:20807212, ECO:0000269|PubMed:22781836, ECO:0000269|PubMed:7555701}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_13763.1_g00001.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by ZPR and miR165. Induced by DOF5.1 (PubMed:20807212). {ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:20807212}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018434000.10.0PREDICTED: homeobox-leucine zipper protein REVOLUTA-like
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A0D3BHA50.0A0A0D3BHA5_BRAOL; Uncharacterized protein
STRINGBo3g128750.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM20222678
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60690.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Lian H,Li X,Liu Z,He Y
    HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis.
    J. Exp. Bot., 2013. 64(11): p. 3397-410
    [PMID:23918970]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. 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]
  4. 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]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Shi B, et al.
    Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis.
    PLoS Genet., 2016. 12(7): p. e1006168
    [PMID:27398935]