PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Ciclev10024588m
Common NameCICLE_v10024588mg
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 NAC
Protein Properties Length: 358aa    MW: 40950.5 Da    PI: 7.8953
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10024588mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM170.55.4e-5381371129
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatgkdke 91 
                      +ppGfrFhPtdeel+++yL+kkv+ +k+++ evi+evd++k+ePw+L++  ++ +  ++ewyfFs++d+ky+tg+r+nrat++g+Wkatg+dk 
  Ciclev10024588m   8 VPPGFRFHPTDEELLHYYLRKKVSFQKFDM-EVIREVDLNKMEPWELQErcRIGStPQNEWYFFSHKDRKYPTGSRTNRATNAGFWKATGRDKC 100
                      69****************************.99**************963433332556*********************************** PP

              NAM  92 vlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                      + + + +++g++ktLvfy+grap+g+k+dW+mheyrle
  Ciclev10024588m 101 IRN-SYKKIGMRKTLVFYRGRAPHGQKSDWIMHEYRLE 137
                      **9.8999****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019415.36E-597157IPR003441NAC domain
PROSITE profilePS5100557.918157IPR003441NAC domain
PfamPF023651.2E-279136IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009834Biological Processplant-type secondary cell wall biogenesis
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048829Biological Processroot cap development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 358 aa     Download sequence    Send to blast
MASSGGGVPP GFRFHPTDEE LLHYYLRKKV SFQKFDMEVI REVDLNKMEP WELQERCRIG  60
STPQNEWYFF SHKDRKYPTG SRTNRATNAG FWKATGRDKC IRNSYKKIGM RKTLVFYRGR  120
APHGQKSDWI MHEYRLEDGD DAQSNEDGWV ICRVFKKKNL FKIGNEQSSN INSSSSGHHH  180
HQQFNNTSSN NHQSHTSAFM QRENQYLLRG QHPELALHYS TSQMLPTPQY CLFQPQALVP  240
NYSTIPSTAD SPAAMVKQLM SNTSRDCESG SENLRYHHQQ ACEPGLEVGT CEPTATHQMV  300
AATTGGRDGQ GLNDWTMLDR LVTEDSSKGV TFEDPNAQHQ INQLSLRGEM NFWGYEK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A3e-51815915170Stress-induced transcription factor NAC1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Detectable in lateral root development when they reach 10 mm long. {ECO:0000269|PubMed:20197506}.
UniprotTISSUE SPECIFICITY: Expressed throughout the root cap, in both columella (COL) and lateral root cap (LRC) cells, with higher levels in the COL-adjoining LRC than the upper LRC. Also present at low levels expression in the tips of cotyledons and the cotyledon vasculature, as weel as in vasculature of the first pair of true leaves and at the hydathodes. {ECO:0000269|PubMed:20197506}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator. Together with BRN1 and SMB, regulates cellular maturation of root cap. Promotes the expression of genes involved in secondary cell walls (SCW) biosynthesis. {ECO:0000269|PubMed:20197506}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00431DAPTransfer from AT4G10350Download
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_006441801.10.0protein BEARSKIN2
RefseqXP_024954281.10.0protein BEARSKIN2
SwissprotQ9SV871e-149BRN2_ARATH; Protein BEARSKIN2
TrEMBLA0A2H5Q8B20.0A0A2H5Q8B2_CITUN; Uncharacterized protein
TrEMBLV4TYM90.0V4TYM9_9ROSI; Uncharacterized protein
STRINGXP_006478356.10.0(Citrus sinensis)
STRINGXP_006441801.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM52132648
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G10350.11e-142NAC domain containing protein 70
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Kamiya M, et al.
    Control of root cap maturation and cell detachment by BEARSKIN transcription factors in Arabidopsis.
    Development, 2016. 143(21): p. 4063-4072
    [PMID:27803060]