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 Carubv10004653m
Common NameCARUB_v10004653mg
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: 497aa    MW: 55613.6 Da    PI: 7.6825
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10004653mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B365.96.1e-21141233599
                      -..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
               B3   5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                       +++++lk+++++l  kfa+++g+   ++  + l+de+g+sW++ l+++k+ g+ ++++GWk F+++ng+k+g ++ Fkl++ s++++v++++ 
  Carubv10004653m 141 HVTPSSLKRDNMCLVSKFARSNGLGG-RECYIDLKDEHGKSWTLLLRHNKSTGQAFMRGGWKLFCRSNGIKAGSSCRFKLVQ-SGTKPVLQLCP 232
                      57899999999***********5553.3458*************************************************98.99999*99997 PP

                      S CS
               B3  99 k 99 
                      +
  Carubv10004653m 233 N 233
                      5 PP
2B339.11.4e-12274364699
                      ..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--.TT-EEEEEE-SSSEE..EEEEE- CS
               B3   6 tpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk.egDfvvFkldgrsefelvvkvfr 98 
                      +++++l+++++++p + ++e+g+ +++  ++t+ +++g++W+ +l   k++++++++ G k F  ang+k +gD +++++++  + ++ +k+++
  Carubv10004653m 274 LKPYTLRTCQFRVPASLTRENGILEAG--EVTIVNKDGEEWKSYLVNVKGRDQFYIR-GCKAFFVANGIKnVGDPFTLEVIR-GGLSPILKICS 363
                      57899****************999777..79999***********888899999999.************9********997.89999****98 PP

                      S CS
               B3  99 k 99 
                      k
  Carubv10004653m 364 K 364
                      7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086310.109171IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.8E-9371IPR015300DNA-binding pseudobarrel domain
CDDcd100171.43E-7368No hitNo description
SMARTSM010190.0049571IPR003340B3 DNA binding domain
SuperFamilySSF1019362.55E-91171IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-20132233IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.18E-19133235IPR015300DNA-binding pseudobarrel domain
SMARTSM010192.0E-28137234IPR003340B3 DNA binding domain
CDDcd100171.24E-18137232No hitNo description
PROSITE profilePS5086312.83137233IPR003340B3 DNA binding domain
PfamPF023625.4E-20141233IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.9E-8266364IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-9266363IPR015300DNA-binding pseudobarrel domain
CDDcd100173.05E-8268363No hitNo description
SMARTSM010195.3E-16269365IPR003340B3 DNA binding domain
PROSITE profilePS508637.119269365IPR003340B3 DNA binding domain
PfamPF023622.7E-12274364IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 497 aa     Download sequence    Send to blast
MTKHFKGKIQ STKLKLTSVA SDRVWEVQLD GRRFAGGWKN FSVFHSVRGD DVLSFRHDGG  60
MAFHVTPFGR SFSQIQLISS STSDDEHNVF DAHDDDKDDD VDLGDDDNPV SEEDLCLKKT  120
SSKKRARTET ESSEETYLIA HVTPSSLKRD NMCLVSKFAR SNGLGGRECY IDLKDEHGKS  180
WTLLLRHNKS TGQAFMRGGW KLFCRSNGIK AGSSCRFKLV QSGTKPVLQL CPNTSSSKAN  240
EKENVSESEV DEIESEHCSE TVPMHQNKIL TLDLKPYTLR TCQFRVPASL TRENGILEAG  300
EVTIVNKDGE EWKSYLVNVK GRDQFYIRGC KAFFVANGIK NVGDPFTLEV IRGGLSPILK  360
ICSKVKQASF DGHKTLERKP QMTVQAQHAE DETENRVQKK ARVCTEEGPS RCTRGLNKPS  420
STDPENLQGK QPLQPCSISD HVKKVKQSIV ETLTDVRRFR SELENKEQNL EASLQEIDAL  480
GEKMTGISKI FNISEV*
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10004653m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL0310044e-74AL031004.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F28M20 (ESSAII project).
GenBankAL1615794e-74AL161579.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 75.
GenBankCP0026874e-74CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006283597.20.0putative B3 domain-containing protein REM4
SwissprotQ9SB790.0REM4_ARATH; Putative B3 domain-containing protein REM4
TrEMBLR0GW330.0R0GW33_9BRAS; Uncharacterized protein
STRINGXP_006283597.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM96581537
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G31630.10.0B3 family protein
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]