PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10011257m
Common NameCARUB_v10011257mg
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 RAV
Protein Properties Length: 339aa    MW: 38707.7 Da    PI: 7.1515
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10011257mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP232.61.9e-102773254
              AP2  2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkle 54
                     +ykGV +   +g W A+I+       +kr++lg+f +a eAa a++ a  kl+
  Carubv10011257m 27 KYKGVVQQQ-NGHWGAQIYAD-----HKRIWLGTFKSAAEAATAYDSASIKLR 73
                     8****9888.8******9993.....4*********************99997 PP
2B387.31.3e-27158257185
                      EEEE-..-HHHHTT-EE--HHH.HTT...........---.........--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--T CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...........ggkke.......esktltledesgrsWevkliyrkksgryvltkGWkeFvkangLke 76 
                      f+k+ltpsdv+k++rlv+pkk+a ++           +   e       e+ +++++d+  r+W+++++y+k+s+++v+t+GW++Fvk+ +Lke
  Carubv10011257m 158 FQKELTPSDVGKLNRLVIPKKYAVKYmpsisddqnekE---EgeiggavEDLEIVFYDRAMRQWKFRYCYWKSSQSFVFTRGWNSFVKERNLKE 248
                      99*****************************9876550...145555558889***************************************** PP

                      T-EEEEEE- CS
               B3  77 gDfvvFkld 85 
                      +D+++F+  
  Carubv10011257m 249 KDVIIFYTC 257
                      ******943 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.730.102.9E-172785IPR001471AP2/ERF domain
SuperFamilySSF541715.75E-142785IPR016177DNA-binding domain
SMARTSM003801.9E-182790IPR001471AP2/ERF domain
PROSITE profilePS5103217.1872784IPR001471AP2/ERF domain
CDDcd000188.44E-232786No hitNo description
Gene3DG3DSA:2.40.330.101.6E-31153256IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.15E-26156257IPR015300DNA-binding pseudobarrel domain
CDDcd100173.30E-25157255No hitNo description
PROSITE profilePS5086312.083158271IPR003340B3 DNA binding domain
PfamPF023626.4E-25158258IPR003340B3 DNA binding domain
SMARTSM010193.0E-22158269IPR003340B3 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
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 339 aa     Download sequence    Send to blast
MRLSDEPEQA LVVASAIKTV AVSGNVKYKG VVQQQNGHWG AQIYADHKRI WLGTFKSAAE  60
AATAYDSASI KLRRFDANAH RNFPLSDITV HEPDFQDCYE VESVLNMIRD GSYQHKFRDF  120
LRIRSQIVAS INIVDGSKQV RGEVDQESDK CFSCTQLFQK ELTPSDVGKL NRLVIPKKYA  180
VKYMPSISDD QNEKEEGEIG GAVEDLEIVF YDRAMRQWKF RYCYWKSSQS FVFTRGWNSF  240
VKERNLKEKD VIIFYTCDVP NNVKTLEGQS NNFLMIDVHY FSDNGSVVPE KVNMTAHGSS  300
EERRKTENFV SSKLEDKVTK TEENKGSFML FGVKIQCS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A5e-2415725413100DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10011257m
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_006305989.20.0AP2/ERF and B3 domain-containing transcription factor At1g50680
SwissprotQ9C6P50.0RAVL2_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g50680
TrEMBLR0GSI30.0R0GSI3_9BRAS; Uncharacterized protein
STRINGXP_006305989.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17052788
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G50680.10.0RAV family protein