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 Carubv10009540m
Common NameCARUB_v10009540mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family B3
Protein Properties Length: 360aa    MW: 40575.8 Da    PI: 6.1766
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10009540mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3985.9e-3156158196
                      EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-.SS.. CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld.gr.. 87 
                      f+kv tpsdv+k++rlv+pk++ae++    ++++++++ l ++d++g+ W+++++y+++s++yv+tkGW++Fvk+++L++gD+v F++  g+  
  Carubv10009540m  56 FDKVVTPSDVGKLNRLVIPKQHAERYfpldSSNNQNGTLLNFQDRNGKMWRFRYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGiGDes 149
                      89***************************966677889*************************************************5434423 PP

                      SEE..EEEE CS
               B3  88 sefelvvkv 96 
                      ++ +l++ +
  Carubv10009540m 150 ERSKLYIDW 158
                      555555555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.4E-4248163IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.11E-3052144IPR015300DNA-binding pseudobarrel domain
CDDcd100175.18E-2754150No hitNo description
PROSITE profilePS5086314.74856162IPR003340B3 DNA binding domain
PfamPF023622.8E-2856159IPR003340B3 DNA binding domain
SMARTSM010196.3E-2256162IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009908Biological Processflower development
GO:0048366Biological Processleaf development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 360 aa     Download sequence    Send to blast
MDLSLAPTTT TSSDQEQDRD QELTSNIGAS SSSGTGNNNN NLPMMMIPPA EKEHMFDKVV  60
TPSDVGKLNR LVIPKQHAER YFPLDSSNNQ NGTLLNFQDR NGKMWRFRYS YWNSSQSYVM  120
TKGWSRFVKE KKLDAGDIVS FQRGIGDESE RSKLYIDWRH RPDMSLVQAH QFGNFGFNFN  180
FPTTSQYSNR FQPLPEYNSV PIHRSLNLAN HQRSYYNNNQ RQEFVGYGYG NLAGRCYYTG  240
SPLDQRNIVG SEPLVIESVP VVPGRLTPVM LPPLPAPPST AGKRLRLFGV NMECGNDYNQ  300
QEDSWLMPRR EMGASSSSSS SALRLNLSTD HDDDDDDDGG DDDQFAKKGK SSFSLNFNP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A8e-64501642116B3 domain-containing transcription factor NGA1
5os9_B8e-64501642116B3 domain-containing transcription factor NGA1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtRegulates lateral organ growth. Functionally redundant with NGA1, NGA2 and NGA4. {ECO:0000269|PubMed:16603651}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10009540m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0073230.0AC007323.5 Genomic sequence for Arabidopsis thaliana BAC T25K16 from chromosome I, complete sequence.
GenBankAF1965660.0AF196566.1 Arabidopsis thaliana chromosome I, partial sequence.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
GenBankFJ8737330.0FJ873733.1 Arabidopsis thaliana ecotype Landsberg erecta NGATHA3 (NGA3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006305173.10.0B3 domain-containing transcription factor NGA3
SwissprotQ9MAN10.0NGA3_ARATH; B3 domain-containing transcription factor NGA3
TrEMBLR0GQN10.0R0GQN1_9BRAS; Uncharacterized protein
STRINGXP_006305173.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM139901724
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01030.10.0B3 family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL
    Active suppression of a leaf meristem orchestrates determinate leaf growth.
    Elife, 2017.
    [PMID:27710768]