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 Carubv10014376m
Common NameCARUB_v10014376mg
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: 273aa    MW: 30464.5 Da    PI: 7.3556
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10014376mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B31001.5e-3136151199
                      EEEE-..-HHHHTT-EE--HHH.HTT.................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 
                      f+k ltpsdv+k++rlv+pk++ae++                    +e+++ l++edesg+ W+++++y+++s++yvltkGW+++vk+++L++g
  Carubv10014376m  36 FEKSLTPSDVGKLNRLVIPKQHAEKYfalsnnnnnggggggddVATTEKGMLLSFEDESGKCWKFRYSYWNSSQSYVLTKGWSRYVKDKHLDAG 129
                      99***************************999988888877764455699******************************************** PP

                      -EEEEEE-SS.SEE..EEEEE-S CS
               B3  78 DfvvFkldgr.sefelvvkvfrk 99 
                      D+v F+++ r + ++l+++++r+
  Carubv10014376m 130 DVVFFQRH-RfDLQRLFIGWRRR 151
                      ******65.44888899999997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.7E-3927157IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.15E-2934152IPR015300DNA-binding pseudobarrel domain
CDDcd100173.58E-2635142No hitNo description
PROSITE profilePS5086312.87236152IPR003340B3 DNA binding domain
PfamPF023627.1E-2936151IPR003340B3 DNA binding domain
SMARTSM010195.0E-2336152IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0080113Biological Processregulation of seed growth
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 273 aa     Download sequence    Send to blast
MSVNHYHHHN TLSLQQHQQH IHHQNDLSLA QRESLFEKSL TPSDVGKLNR LVIPKQHAEK  60
YFALSNNNNN GGGGGGDDVA TTEKGMLLSF EDESGKCWKF RYSYWNSSQS YVLTKGWSRY  120
VKDKHLDAGD VVFFQRHRFD LQRLFIGWRR RGEASSSPGA VSQEALAANT TAFWTPYRQV  180
HASTTYPNIH HEYSHYGAAA DQAQSTPTVV AGSSRTVRLF GVNLECHGDA VEPPPRTDGG  240
YSGQHIFYYS TPHPMDISFA GEALEQVGDG RG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A5e-48291511113B3 domain-containing transcription factor NGA1
5os9_B5e-48291511113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10014376m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4410760.0AJ441076.1 Arabidopsis thaliana mRNA for putative auxin response factor 32 (arf32 gene).
GenBankAK1752810.0AK175281.1 Arabidopsis thaliana mRNA for putative DNA binding protein, complete cds, clone: RAFL21-71-N13.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006298312.10.0B3 domain-containing protein At3g11580
SwissprotQ8RYD31e-156Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBLR0I0120.0R0I012_9BRAS; Uncharacterized protein
STRINGXP_006298312.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM122028100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G11580.11e-151B3 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]