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 Cc00_g08050
Common NameGSCOC_T00001791001
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 MYB
Protein Properties Length: 311aa    MW: 35029 Da    PI: 5.4791
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc00_g08050genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding45.61.6e-142673148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g W++eEd++l ++    G g+W+ +ar  g+ R++k+c++rw +yl
      Cc00_g08050 26 KGLWSPEEDDKLMNYMLTNGQGCWSDVARNAGLQRCGKSCRLRWINYL 73
                     678*******************************************97 PP
2Myb_DNA-binding53.27e-1779122146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      rg+++++E+el+++++++lG++ W+ Ia++++ gRt++++k++w++
      Cc00_g08050  79 RGAFSPQEEELIIHLHALLGNR-WSQIAARLP-GRTDNEIKNFWNS 122
                      89********************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.4242173IPR017930Myb domain
SuperFamilySSF466895.47E-2824120IPR009057Homeodomain-like
SMARTSM007173.2E-102575IPR001005SANT/Myb domain
PfamPF002492.5E-132673IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.3E-232780IPR009057Homeodomain-like
CDDcd001675.49E-82973No hitNo description
PROSITE profilePS5129426.09274128IPR017930Myb domain
SMARTSM007173.0E-1678126IPR001005SANT/Myb domain
PfamPF002491.0E-1579122IPR001005SANT/Myb domain
CDDcd001675.41E-1181121No hitNo description
Gene3DG3DSA:1.10.10.602.5E-2681129IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 311 aa     Download sequence    Send to blast
MRKPEPSVEK NNNSNNMSNS SVKLRKGLWS PEEDDKLMNY MLTNGQGCWS DVARNAGLQR  60
CGKSCRLRWI NYLRPDLKRG AFSPQEEELI IHLHALLGNR WSQIAARLPG RTDNEIKNFW  120
NSTIKKRLKN SSSPNTSDSS SIQEQSMMGM FVDLSSSASS SMHSMALTNM VDPLPMLEQS  180
LSTSGGTNAG SYFDPQSCIR QAAYDNPTFS TGNLEGQRSI FFPPLEPGEV ERSAITTANF  240
VDRNPTSNTV DNRSNMINYY GNNNYIKVEN ADGYGSYWEA EELRVKEWDL EELMKDASSF  300
PLPDFQKNNW *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A6e-27241285108B-MYB
1h8a_C1e-262412825128MYB TRANSFORMING PROTEIN
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as molecular switch in the NAC012/SND1-mediated transcriptional network regulating secondary wall biosynthesis. Is directly activated by NAC012/SND1 and its close homologs, including NAC043/NST1, NAC066/NST2, NAC101/VND6 and NAC030/VND7. Is required for functional expression of a number of secondary wall-associated transcription factors and secondary wall biosynthetic genes involved in cellulose, xylan and lignin synthesis. Functions redundantly with MYB46 in the transcriptional regulatory cascade leading to secondary wall formation in fibers and vessels (PubMed:19808805). Transcription activator that binds to the DNA consensus sequence 5'-ACC[AT]A[AC][TC]-3', designated as the secondary wall MYB-responsive element (SMRE). Regulates directly numerous transcription factors and a number of genes involved in secondary wall biosynthesis that contain SMRE elements in their promoters (PubMed:22197883). {ECO:0000269|PubMed:19808805, ECO:0000269|PubMed:22197883}.
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_027101117.10.0transcription factor MYB46-like
SwissprotQ9C6U14e-73MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A068VEU10.0A0A068VEU1_COFCA; Uncharacterized protein
STRINGVIT_06s0004g02110.t011e-109(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA12242154
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12870.18e-62myb domain protein 46
Publications ? help Back to Top
  1. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]
  2. Piya S,Kihm C,Rice JH,Baum TJ,Hewezi T
    Cooperative Regulatory Functions of miR858 and MYB83 during Cyst Nematode Parasitism.
    Plant Physiol., 2017. 174(3): p. 1897-1912
    [PMID:28512179]