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 Cc01_g11100
Common NameGSCOC_T00024228001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family HD-ZIP
Protein Properties Length: 483aa    MW: 52767.1 Da    PI: 8.3587
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc01_g11100genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.52.2e-182785357
                 --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
     Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                 k  ++t+eq+e+Le+++ ++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Cc01_g11100 27 KYVRYTAEQVEALERVYTECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 85
                 56789****************************************************97 PP
2START160.31.5e-501673752205
                  HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEEEEX CS
        START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlmvae 97 
                  +aee+++e+++ka+ ++  Wv+++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +e+l+d++ W +++++ e+      g  g+++l +++
  Cc01_g11100 167 IAEETLTEFLSKATGTAVDWVQMPGMKPGPDSVGIFAISHSCSGVAARACGLVSLEPT-KIAEILKDRPSWFRDCRSLEVFTMFPAGngGTIELVYTQ 263
                  789*******************************************************.7777777777***********999999999********* PP

                  XTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHH CS
        START  98 lqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglae 191
                   +a+++l+p Rdf+++Ry+ +l+ g++v++++S++ +   p+    s++ Rae+lpSg+li+p+++g+s +++v+h +l++++++++lr+l++s+ + 
  Cc01_g11100 264 IYAPTTLAPaRDFWTLRYTTTLENGSLVVCERSLSGTGAGPNaaaASQFTRAEMLPSGYLIRPCDGGGSIIHIVDHLNLEAWSVPEVLRPLYESSKVV 361
                  ***************************************9999999**************************************************** PP

                  HHHHHHHHTXXXXX CS
        START 192 gaktwvatlqrqce 205
                  ++k++ a+l++ ++
  Cc01_g11100 362 AQKMTIAALRYVRQ 375
                  *********99765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.4E-18785IPR009057Homeodomain-like
PROSITE profilePS5007115.3052286IPR001356Homeobox domain
SMARTSM003891.6E-142490IPR001356Homeobox domain
SuperFamilySSF466893.59E-162688IPR009057Homeodomain-like
CDDcd000863.10E-152787No hitNo description
PfamPF000466.4E-162885IPR001356Homeobox domain
CDDcd146869.04E-679118No hitNo description
PROSITE profilePS5084826.343157385IPR002913START domain
CDDcd088753.19E-74161377No hitNo description
SuperFamilySSF559615.77E-35166378No hitNo description
Gene3DG3DSA:3.30.530.203.6E-20166368IPR023393START-like domain
SMARTSM002347.1E-41166376IPR002913START domain
PfamPF018524.3E-48167375IPR002913START domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 483 aa     Download sequence    Send to blast
MAMVAQQHRE SSSGSISKQN SSIDSGKYVR YTAEQVEALE RVYTECPKPS SLRRQQLIRE  60
CPILSNIEPK QIKVWFQNRR CREKQRKESS RLQTVNRKLT AMNKLLMEEN DRLQKQVSQL  120
VCENGYMRQQ LQTASAATTT DASCESVVTT PRHSLRDANN PAGLLSIAEE TLTEFLSKAT  180
GTAVDWVQMP GMKPGPDSVG IFAISHSCSG VAARACGLVS LEPTKIAEIL KDRPSWFRDC  240
RSLEVFTMFP AGNGGTIELV YTQIYAPTTL APARDFWTLR YTTTLENGSL VVCERSLSGT  300
GAGPNAAAAS QFTRAEMLPS GYLIRPCDGG GSIIHIVDHL NLEAWSVPEV LRPLYESSKV  360
VAQKMTIAAL RYVRQIAQET SGEVVYGLGR QPAVLRTFSQ RLSRGFNDAI NGFNDDGWSL  420
LSCDGAEDVI IAVNSTKSLS TSSNSLSVIG GILCAKASML LQASNLSHNL FFIITSSAKQ  480
SC*
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_027086107.10.0homeobox-leucine zipper protein REVOLUTA-like
RefseqXP_027086115.10.0homeobox-leucine zipper protein REVOLUTA-like
RefseqXP_027086123.10.0homeobox-leucine zipper protein REVOLUTA-like
RefseqXP_027162704.10.0homeobox-leucine zipper protein REVOLUTA
RefseqXP_027162709.10.0homeobox-leucine zipper protein REVOLUTA
RefseqXP_027162718.10.0homeobox-leucine zipper protein REVOLUTA
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A068UEW60.0A0A068UEW6_COFCA; Uncharacterized protein
STRINGVIT_06s0004g02800.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA45724140
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]