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 GSBRNA2T00122110001
Common NameGSBRNA2T00122110001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family LBD
Protein Properties Length: 605aa    MW: 66859.7 Da    PI: 8.5415
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00122110001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-LSD139.87.7e-131034125
              zf-LSD1  1 CggCrtlLsYPrGApsVRCalCdtV 25
                         C+gCrt+L+ P GA+s+RCalC+++
  GSBRNA2T00122110001 10 CSGCRTPLQLPSGARSIRCALCQAI 34
                         ***********************97 PP
2DUF260108.45.7e-34421512192
               DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                          aCa+Ck++r+kC+++C+l+pyfpa+++k+f++vhk+FG+snv+k++++++ee+r+++++sl++eA +r++dPv G++g +++ +++l+  
  GSBRNA2T00122110001 421 ACASCKHQRKKCNNECILSPYFPARKTKEFQAVHKVFGVSNVQKMVRTVREEDRPKLTDSLTWEALWRQKDPVLGSYGEYMRQSEELKLY 510
                          7*******************************************************************************9999999887 PP

               DUF260  91 ka 92 
                          k+
  GSBRNA2T00122110001 511 KS 512
                          75 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
TIGRFAMsTIGR010532.9E-17737IPR005735Zinc finger, LSD1-type
PfamPF069436.4E-111034IPR005735Zinc finger, LSD1-type
Gene3DG3DSA:3.40.50.14601.5E-8573313IPR029030Caspase-like domain
PfamPF006561.7E-5975354No hitNo description
Gene3DG3DSA:3.40.50.14601.5E-85348368IPR029030Caspase-like domain
PROSITE profilePS5089123.801420520IPR004883Lateral organ boundaries, LOB
PfamPF031958.9E-32421512IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0004197Molecular Functioncysteine-type endopeptidase activity
Sequence ? help Back to Top
Protein Sequence    Length: 605 aa     Download sequence    Send to blast
MYPPPMLVNC SGCRTPLQLP SGARSIRCAL CQAITHIADP RSAPPPPQSH SSAVAPPPSH  60
VPAPLGQLPH PHGRKRAVIC GISYRFSRHE LKGCINDAKC MRHLLINKFK FAPDSILMLT  120
EEETDPYRIP NKQNMRMALY WLVQGCTAGD SLVFHYSGHG SRQRNYNGDE VDGYDETLCP  180
LDFETQGMIV DDEINATIVR PLPHGVKLHS IIDACHSGTV LDLPFLCRMD RSGQYVWEDH  240
RPRSGLWKGT AGGEAISISG CDDDQTSADT SALSKITSTG AMTFCFIQAI ERSPQGTTYG  300
NILNSMRTTI RNTGSGGGVS VGGGGGGVVS SVLTMLLTGG SGMGGLRQEP QLTACEPFDV  360
YAKPFILYSK QNLDRDKCYY PCSFYRYLKL SSIMHKNMGD DMMQMNFNNS NISNNAPPHQ  420
ACASCKHQRK KCNNECILSP YFPARKTKEF QAVHKVFGVS NVQKMVRTVR EEDRPKLTDS  480
LTWEALWRQK DPVLGSYGEY MRQSEELKLY KSLIHNQSLV TWDNNNNQQR VFNNSNNNKN  540
GSAINSSGSG GFSVVNNNGV GVNREIINGG YTSRNLQGGW GNLKQDQRQQ CYAVINGFKH  600
HLPH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4f6o_A3e-464636024344Metacaspase-1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.172020.0flower| leaf| seed
Functional Description ? help Back to Top
Source Description
UniProtCysteine protease that cleaves specifically after arginine or lysine residues. Does not cleave caspase-specific substrates. Acts as a positive regulator of cell death. Required for both oxidative stress cell death response and hypersensitive cell death response mediated by immune response. {ECO:0000269|PubMed:15691845, ECO:0000269|PubMed:21097903}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00122110001
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_013716507.10.0metacaspase-1
SwissprotQ7XJE60.0MCA1_ARATH; Metacaspase-1
TrEMBLM4EUE80.0M4EUE8_BRARP; Uncharacterized protein
STRINGBra032430.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G06280.12e-82LOB domain-containing protein 2
Publications ? help Back to Top
  1. Vercammen D, et al.
    Type II metacaspases Atmc4 and Atmc9 of Arabidopsis thaliana cleave substrates after arginine and lysine.
    J. Biol. Chem., 2004. 279(44): p. 45329-36
    [PMID:15326173]
  2. Watanabe N,Lam E
    Two Arabidopsis metacaspases AtMCP1b and AtMCP2b are arginine/lysine-specific cysteine proteases and activate apoptosis-like cell death in yeast.
    J. Biol. Chem., 2005. 280(15): p. 14691-9
    [PMID:15691845]
  3. Watanabe N,Lam E
    Recent advance in the study of caspase-like proteases and Bax inhibitor-1 in plants: their possible roles as regulator of programmed cell death.
    Mol. Plant Pathol., 2004. 5(1): p. 65-70
    [PMID:20565583]
  4. Coll NS, et al.
    The plant metacaspase AtMC1 in pathogen-triggered programmed cell death and aging: functional linkage with autophagy.
    Cell Death Differ., 2014. 21(9): p. 1399-408
    [PMID:24786830]
  5. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  6. Lema Asqui S, et al.
    AtSERPIN1 is an inhibitor of the metacaspase AtMC1-mediated cell death and autocatalytic processing in planta.
    New Phytol., 2018. 218(3): p. 1156-1166
    [PMID:28157265]