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 Carubv10002417m
Common NameCARUB_v10002417mg
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: 309aa    MW: 35424.6 Da    PI: 10.2046
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10002417mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B365.29.5e-2119113199
                      EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTE.EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgr.yvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                      ffk+l ++d++++ + ++p + +++++  k +s++++l+ ++g+sW+vk+  +k++   y+  +GW++Fv++ngL e++ ++F+++ +++f  +
  Carubv10002417m  19 FFKILRREDSSSEIMRMIPHHLIRSISD-KSSSFKMVLKVPWGNSWSVKI--SKNPVFyYMEDRGWNQFVNDNGLGENEYLTFTHEANMCF--N 107
                      99************************64.5799*****************..****9955555**********************999***..9 PP

                      EEEE-S CS
               B3  94 vkvfrk 99 
                      v++f++
  Carubv10002417m 108 VSIFEA 113
                      999976 PP
2B351.71.6e-162293061597
                      -EE--HHH.HTT---..--SEEEEEETTS.-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
               B3  15 rlvlpkkfaeehggkkeesktltledesg.rsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 
                       l +pkkf++ h+ +  e k+ ++++++g +sWev +    ++ +  +++GW++ +k+ gL++gD+++Fkl++   +e++vkv 
  Carubv10002417m 229 FLGIPKKFVDMHMPN--EAKMFKIRHPRGkKSWEVSY--VVTDVQSRFSAGWSRLAKELGLEVGDVCTFKLIK--PTEMHVKVS 306
                      368*********866..55689999*99989******..555555569**********************987..677899986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.5E-2015115IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.18E-2016118IPR015300DNA-binding pseudobarrel domain
CDDcd100172.98E-1917111No hitNo description
SMARTSM010194.9E-2519114IPR003340B3 DNA binding domain
PfamPF023627.6E-1919113IPR003340B3 DNA binding domain
PROSITE profilePS5086313.18319114IPR003340B3 DNA binding domain
PROSITE profilePS5086312.421215308IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.106.3E-20215307IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.46E-20215306IPR015300DNA-binding pseudobarrel domain
CDDcd100173.26E-16216307No hitNo description
SMARTSM010191.1E-18218308IPR003340B3 DNA binding domain
PfamPF023621.3E-12229305IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009553Biological Processembryo sac development
GO:0009567Biological Processdouble fertilization forming a zygote and endosperm
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 309 aa     Download sequence    Send to blast
MVSNRAFGQL MEEGYNPAFF KILRREDSSS EIMRMIPHHL IRSISDKSSS FKMVLKVPWG  60
NSWSVKISKN PVFYYMEDRG WNQFVNDNGL GENEYLTFTH EANMCFNVSI FEANGTEMLR  120
PRKSSPVASS SGGNKREERR SIYIDVKKEE GTESCSESRY PDLKTAESTS GRSKQKQKFN  180
LRQKEAEETK KSKKSKNRKV NTVCNDFEAG TSSLVPEFKL TIKKSHLLFL GIPKKFVDMH  240
MPNEAKMFKI RHPRGKKSWE VSYVVTDVQS RFSAGWSRLA KELGLEVGDV CTFKLIKPTE  300
MHVKVSKE*
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10002417m
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_006289033.20.0B3 domain-containing protein At5g18000
SwissprotQ9FJG21e-171Y5800_ARATH; B3 domain-containing protein At5g18000
TrEMBLR0FIQ90.0R0FIQ9_9BRAS; Uncharacterized protein
STRINGXP_006289033.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM56521135
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18000.11e-171VERDANDI
Publications ? help Back to Top
  1. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  2. Mendes MA, et al.
    Live and let die: a REM complex promotes fertilization through synergid cell death in Arabidopsis.
    Development, 2016. 143(15): p. 2780-90
    [PMID:27338615]