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.3807s0032.1.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: 542aa    MW: 60830.9 Da    PI: 5.233
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.3807s0032.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B338.71.8e-1223891797
                         E--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
                   B3 17 vlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97
                         +l  +f+ +h+++        + d s ++W+vkl  ++++    l++GW+eF  +++ ++gDf+vFk++g++ f  +v+v 
  Cagra.3807s0032.1.p 23 TLHAEFLMNHMKV------SLMSDASDKVWKVKL--DGGR----LADGWEEFTGEHKFRDGDFLVFKHQGDEVF--HVSVA 89
                         5555565555433......23456999*******..9998....************************999999..77765 PP
2B361.61.3e-19205299298
                          EEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                   B3   2 fkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                          ++  ++ ++l+++rl l++kf+  + +++k    ++ +++e+gr W++kl  + +sg +++++GW++F+  n+Lk+gD + Fkl + +++
  Cagra.3807s0032.1.p 205 ITGCVTRYSLNKDRLDLSRKFTVLFgEHQK--ACEIDVMNEQGRIWTMKLAKNISSGVFYIRAGWEHFCFTNDLKQGDLCKFKLFQ-NGK 291
                          55668899*************977755554..458***************99999999*************************988.566 PP

                          ..EEEEE- CS
                   B3  91 elvvkvfr 98 
                          ++v+ ++ 
  Cagra.3807s0032.1.p 292 RPVLWLCP 299
                          67877775 PP
3B370.62.1e-22332426699
                          ..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE......EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
                   B3   6 tpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliy....rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                           +++  ++g+l+lp +f++e+g+kk++  +++l +++gr+W+ +l++    r++s++++l+kGW+e+++ang+k++D++ ++l++ ++++
  Cagra.3807s0032.1.p 332 YTPSRDSTGQLSLPVSFTREYGIKKAG--DVILLNQDGRKWSSYLQItglgRGGSEWFYLRKGWREMCEANGVKVNDSFKLELMW-NGAT 418
                          5678889999************99888..7***************999999999*******************************.8888 PP

                          .EEEEE-S CS
                   B3  92 lvvkvfrk 99 
                          +++k+++k
  Cagra.3807s0032.1.p 419 PMFKFCSK 426
                          *****987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086310.757192IPR003340B3 DNA binding domain
SMARTSM010198.6E-141092IPR003340B3 DNA binding domain
CDDcd100176.76E-82288No hitNo description
SuperFamilySSF1019361.41E-102688IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.0E-113189IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-16197299IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.521204300IPR003340B3 DNA binding domain
PfamPF023622.6E-17204299IPR003340B3 DNA binding domain
SMARTSM010199.4E-22204301IPR003340B3 DNA binding domain
SuperFamilySSF1019364.51E-18205302IPR015300DNA-binding pseudobarrel domain
CDDcd100172.55E-17214299No hitNo description
Gene3DG3DSA:2.40.330.101.4E-19321426IPR015300DNA-binding pseudobarrel domain
CDDcd100172.53E-16326425No hitNo description
SMARTSM010194.3E-26327427IPR003340B3 DNA binding domain
PROSITE profilePS5086312.717327426IPR003340B3 DNA binding domain
SuperFamilySSF1019361.65E-19328429IPR015300DNA-binding pseudobarrel domain
PfamPF023623.1E-23330426IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 542 aa     Download sequence    Send to blast
MADPPHFSLF QQKFLTGDKP LLTLHAEFLM NHMKVSLMSD ASDKVWKVKL DGGRLADGWE  60
EFTGEHKFRD GDFLVFKHQG DEVFHVSVAS GSVSGDIHHA SSSHVDTEDT CIADDYVDDD  120
DDDDGNDETN DDDDDDDDGE SKDAADIDDD GDGNRASELF NETTECIYLC LIFGSNWFGD  180
YVSEDCFDSG NKKSEDSSSR HSCFITGCVT RYSLNKDRLD LSRKFTVLFG EHQKACEIDV  240
MNEQGRIWTM KLAKNISSGV FYIRAGWEHF CFTNDLKQGD LCKFKLFQNG KRPVLWLCPQ  300
EPGNDHKEKG TLDEVSKAKE KKAPSPTVIV KYTPSRDSTG QLSLPVSFTR EYGIKKAGDV  360
ILLNQDGRKW SSYLQITGLG RGGSEWFYLR KGWREMCEAN GVKVNDSFKL ELMWNGATPM  420
FKFCSKIDNH EYKGKGNQKT CKKRACETAP RPRNVKKTPR VGVEGQVNKR ISRGPLQPQS  480
FSVSDQVASV KQGIVDTLNT VRQCRTELET SEQNLQASLL AIDALGERIW GISKILSNNL  540
I*
Functional Description ? help Back to Top
Source Description
UniProtMay play a role in flower development.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00602PBMTransfer from AT4G31610Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.3807s0032.1.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
GenBankAF3363440.0AF336344.1 Arabidopsis thaliana reproductive meristem protein 1 (REM1) mRNA, complete cds.
GenBankBT0038910.0BT003891.1 Arabidopsis thaliana clone RAFL15-10-H22 (R20619) unknown protein (At4g31610) mRNA, complete cds.
GenBankBT0050020.0BT005002.1 Arabidopsis thaliana clone U20619 unknown protein (At4g31610) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023634984.10.0B3 domain-containing protein REM1 isoform X1
SwissprotQ84J390.0REM1_ARATH; B3 domain-containing protein REM1
TrEMBLR0F9690.0R0F969_9BRAS; Uncharacterized protein
STRINGCagra.3807s0032.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM99501736
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G31610.10.0B3 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]