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 Ciclev10033941m
Common NameCICLE_v10033941mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family MYB
Protein Properties Length: 333aa    MW: 37238.6 Da    PI: 4.9531
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10033941mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding49.11.3e-152168148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g W++eEd++l+++    G g+W+ Iar  g+ R++k+c++rw +yl
  Ciclev10033941m 21 KGLWSPEEDDKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYL 68
                     678*******************************************97 PP
2Myb_DNA-binding52.51.1e-1674118147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg+++++E+el+++++  lG++ W+ Ia++++ gRt++++k++w++ 
  Ciclev10033941m  74 RGAFSPQEEELIIHLHSILGNR-WSQIAARLP-GRTDNEIKNFWNST 118
                      89********************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.8941668IPR017930Myb domain
SuperFamilySSF466892.01E-2819115IPR009057Homeodomain-like
SMARTSM007172.8E-122070IPR001005SANT/Myb domain
PfamPF002492.5E-142168IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.4E-232275IPR009057Homeodomain-like
CDDcd001671.92E-102468No hitNo description
PROSITE profilePS5129425.63369123IPR017930Myb domain
SMARTSM007171.8E-1673121IPR001005SANT/Myb domain
PfamPF002492.7E-1574118IPR001005SANT/Myb domain
CDDcd001676.70E-1276119No hitNo description
Gene3DG3DSA:1.10.10.601.0E-2576122IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 333 aa     Download sequence    Send to blast
MGKERLVNGS NINAKANKLR KGLWSPEEDD KLIKYMLTNG QGCWSDIARN AGLQRCGKSC  60
RLRWINYLRP DLKRGAFSPQ EEELIIHLHS ILGNRWSQIA ARLPGRTDNE IKNFWNSTLK  120
KILKTNPNAP TPSPNNSDSS EPRGVIAGIM PMPNDHDIMT MCMDSSSSSS TSIQTMVTSN  180
NSQLIDPFSM LDTRYDMTSA SCLFNNMPTC IAQVDHTGDG LFYEDYGILE PSKMGLEGDL  240
SLPPLESRSI EENNSNAAKN NHNYNVDLKG NNNNHYTNNS CFNNTIDQGI KVGDMLGLEN  300
NWQGENLRVG EWDLEGFMDN ISSFPFLDFQ VE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-27191255110B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed specifically in fiber and vessel cells that are undergoing secondary wall thickening in floral stems. Expressed in vessels but not in xylary fibers in the developing secondary xylem of roots. {ECO:0000269|PubMed:19808805}.
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00336DAPTransfer from AT3G08500Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006439122.20.0transcription factor MYB83
SwissprotQ9C6U14e-84MYB83_ARATH; Transcription factor MYB83
TrEMBLV4TG870.0V4TG87_9ROSI; Uncharacterized protein
STRINGXP_006439122.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70772642
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.12e-67myb domain protein 83
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]