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 Cagra.0844s0024.1.p
Organism
Capsella grandiflora
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: 380aa    MW: 43407.7 Da    PI: 6.4418
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0844s0024.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3505.2e-16341141398
                          TT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTE.EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                   B3  13 sgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgr.yvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                          ++rlv+p kf  +++g    +  +tl+++sg  ++v++  ++ +++   ++ GW  Fvk++ Lke+D +vFk++g sef   v +f+
  Cagra.0844s0024.1.p  34 HNRLVIPQKFSMHCKGR--LPHIVTLKSPSGAIYNVRV--EQDDEKtLSFRCGWDMFVKDHSLKENDLLVFKFHGLSEF--EVLIFD 114
                          789*******9888777..7779***************..666666599***********************9887888..888877 PP
2B355.69.7e-18274369198
                          EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-.SS.S CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld.gr.s 88 
                          f+ v+++s+v+ ++ l++p k ++++++  +++  + +++ +  +W +k++  +++++  +++GWk+Fv++n+L+e D++vF+ + ++ +
  Cagra.0844s0024.1.p 274 FLVVMKRSHVS-KCFLTIPYKWCKKNNLLARQE--V-VMQIDQMKWVMKFNLFGSRCSGGISTGWKKFVQDNNLCESDVCVFEPMkSEkQ 359
                          55566555555.567***********8886664..4.466778888888877777777679**********************7724455 PP

                          EE..EEEEE- CS
                   B3  89 efelvvkvfr 98 
                            +l+v +fr
  Cagra.0844s0024.1.p 360 PLHLYVYIFR 369
                          5666666665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.51E-2020114IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.5E-2022114IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.85822116IPR003340B3 DNA binding domain
CDDcd100172.42E-1724114No hitNo description
SMARTSM010199.4E-1825116IPR003340B3 DNA binding domain
PfamPF023622.1E-1334114IPR003340B3 DNA binding domain
PROSITE profilePS5086310.489273371IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.105.2E-17274369IPR015300DNA-binding pseudobarrel domain
SMARTSM010194.2E-16274371IPR003340B3 DNA binding domain
SuperFamilySSF1019361.45E-18274369IPR015300DNA-binding pseudobarrel domain
CDDcd100174.23E-15274369No hitNo description
PfamPF023621.4E-15274369IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005773Cellular Componentvacuole
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 380 aa     Download sequence    Send to blast
MEEKCLDCMQ WEEELYWTHF QTLHFTQLLL PGFHNRLVIP QKFSMHCKGR LPHIVTLKSP  60
SGAIYNVRVE QDDEKTLSFR CGWDMFVKDH SLKENDLLVF KFHGLSEFEV LIFDGQTLCE  120
KPTSYFVRKC GHADKTKGTD FTATSSRSSE ILFNPVDVEA TPNQQRLISP VDNELDDLID  180
IDVDIETMLT PHLVVSQTCC EQLEHFNSDI DTAYAQLPVI SPASTGRVSE EKYPLSGLKK  240
MQGEINNDSL DHKAAGRKNK TLSLAQRVIT PDGFLVVMKR SHVSKCFLTI PYKWCKKNNL  300
LARQEVVMQI DQMKWVMKFN LFGSRCSGGI STGWKKFVQD NNLCESDVCV FEPMKSEKQP  360
LHLYVYIFRV AEAESTNTG*
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00468DAPTransfer from AT4G33280Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0844s0024.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL0356781e-180AL035678.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F17M5 (ESSA project).
GenBankAL1615831e-180AL161583.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 79.
GenBankCP0026871e-180CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006284220.20.0LOW QUALITY PROTEIN: B3 domain-containing protein REM16
SwissprotQ8RYD11e-172REM16_ARATH; B3 domain-containing protein REM16
TrEMBLR0H0Z00.0R0H0Z0_9BRAS; Uncharacterized protein
STRINGCagra.0844s0024.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM104282335
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G33280.11e-166B3 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]