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 Thecc1EG042062t3
Common NameTCM_042062
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family HD-ZIP
Protein Properties Length: 800aa    MW: 87110.2 Da    PI: 6.0244
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG042062t3genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.32.7e-182683457
                      -SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
          Homeobox  4 RttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                        ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Thecc1EG042062t3 26 YVRYTAEQVEALERVYAECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 83
                      5789****************************************************97 PP
2START159.52.6e-501653722204
                       HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEE CS
             START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galq 92 
                       +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +e+l+d++ W ++++  e+      g  g+++
  Thecc1EG042062t3 165 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISQSCSGVAARACGLVSLEPT-KIAEILKDRPSWFRDCRNLEVFTMFPAGngGTIE 256
                       7899******************************************************.7777777777*******9999999998888**** PP

                       EEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHH CS
             START  93 lmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwll 181
                       l +++++a+++l+p Rdf+++Ry+ +l+ g++v++++S++     p+    +++vRae+lpSg+li+p+++g+s +++v+h++l++++++++l
  Thecc1EG042062t3 257 LVYTQTYAPTTLAPaRDFWTLRYTTTLENGSLVVCERSLSGSGAGPSaaaAAQFVRAEMLPSGYLIRPCEGGGSIIHIVDHMNLEAWSVPEVL 349
                       ****************************************99999988999****************************************** PP

                       HHHHHHHHHHHHHHHHHHTXXXX CS
             START 182 rslvksglaegaktwvatlqrqc 204
                       r+l++s+ + ++k++ a+l++ +
  Thecc1EG042062t3 350 RPLYESSKVIAQKMTIAALRYIR 372
                       ******************99865 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.1432084IPR001356Homeobox domain
SMARTSM003893.1E-152288IPR001356Homeobox domain
SuperFamilySSF466892.69E-162487IPR009057Homeodomain-like
CDDcd000864.40E-162585No hitNo description
PfamPF000467.0E-162683IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.8E-182783IPR009057Homeodomain-like
CDDcd146862.40E-677116No hitNo description
PROSITE profilePS5084827.25155383IPR002913START domain
CDDcd088754.20E-68159375No hitNo description
SuperFamilySSF559613.85E-35164376No hitNo description
Gene3DG3DSA:3.30.530.201.5E-20164368IPR023393START-like domain
SMARTSM002341.8E-40164374IPR002913START domain
PfamPF018528.1E-48165372IPR002913START domain
PfamPF086703.4E-28700795IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0009956Biological Processradial pattern formation
GO:0010014Biological Processmeristem initiation
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010089Biological Processxylem development
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 800 aa     Download sequence    Send to blast
MAMAVAQHRE SSSGSSINKH LDAGKYVRYT AEQVEALERV YAECPKPSSL RRQQLIRECP  60
ILSNIEPKQI KVWFQNRRCR EKQRKEASRL QTVNRKLTAM NKLLMEENDR LQKQVSQLVC  120
ENGYMRQQLH TVNASAATDA SCDSVVTTPQ HSLRDANNPA GLLSIAEETL AEFLSKATGT  180
AVDWVQMPGM KPGPDSVGIF AISQSCSGVA ARACGLVSLE PTKIAEILKD RPSWFRDCRN  240
LEVFTMFPAG NGGTIELVYT QTYAPTTLAP ARDFWTLRYT TTLENGSLVV CERSLSGSGA  300
GPSAAAAAQF VRAEMLPSGY LIRPCEGGGS IIHIVDHMNL EAWSVPEVLR PLYESSKVIA  360
QKMTIAALRY IRQIAQETSG EVVYGLGRQP AVLRTFSQRL SRGFNDAING FNDDGWSIMN  420
CDGAEDVIIA INSSKNLSSS SNPANALSFL GGVLCAKASM LLQNVPPAVL VRFLREHRSE  480
WADFNVDAYS AASLKAGTYS YPGMRPTRFT GSQIIMPLGH TIEHEELLEV IRLEGHSLAQ  540
EDAFLSRDIH LLQICSGIDE NAVGACSELV FAPIDEMFPD DAPLLPSGFR IIPLDSKPSD  600
TQDSLTTNRT LDLTSSLEVG TATNHAAGDA PSCQNSRSVL TIALQFPFDS NLQDNVAAMA  660
RQYVRSVIAS VQRVAMAISP SGLSPTVGPK LSPGSPEALT LAHWICQSYS YHLGAELLRA  720
ESLGGDAVLK NLWQHQDAIL CCSLKSLPVF IFANQAGLDM LETTLVALQD ITLDKIFDES  780
GRKALCSDFA KLMQQVSPN*
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}.
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_021277981.10.0homeobox-leucine zipper protein REVOLUTA
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A061GWY50.0A0A061GWY5_THECC; Homeobox-leucine zipper family protein / lipid-binding START domain-containing protein isoform 3
STRINGEOY343690.0(Theobroma cacao)
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. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. 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]
  5. 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]
  6. 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]
  7. 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]