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 Cucsa.232520.1
Common NameCsa_2G360730, LOC101222600
Organism
Cucumis sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis
Family B3
Protein Properties Length: 396aa    MW: 44846.6 Da    PI: 8.1203
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.232520.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B363.92.5e-20341131398
                     TT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
              B3  13 sgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                     +++lv+p+kf ++    ++ + t+tl+ +sg +W+v l  + ++++ ++++GW+eFvka+ L+++D +vF+++g s+f   v +f+
  Cucsa.232520.1  34 EQQLVIPNKFSNNLR--NKLPDTVTLKGPSGATWDVGL--TSSDDKLYFKRGWQEFVKAHSLEQNDLLVFRYNGMSQF--DVLIFD 113
                     578*******84444..45889****************..********************************998888..777765 PP
2B343.84.7e-14274367195
                     EEEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.... CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef..el 92 
                     f+ v+ ps+v ++  l +p + ++++ +    ++++++l+   + +W  k++++ +++   lt+GWk+F  +n+L+e D++vF+ +++s++   l
  Cucsa.232520.1 274 FKVVMRPSHVYRRFFLFIPTQWVTKNlS-L--RNQDIILRV-GSDEWPTKFNFTPSRQCGGLTSGWKHFSVDNNLEEFDVCVFEPVNKSSGpvVL 364
                     778999********************53.3..344677766.6688999998877777777***********************77554440044 PP

                     EEE CS
              B3  93 vvk 95 
                      vk
  Cucsa.232520.1 365 EVK 367
                     455 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512575133No hitNo description
SuperFamilySSF1019369.42E-2220115IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086315.74922115IPR003340B3 DNA binding domain
SMARTSM010198.2E-1125115IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.5E-2228113IPR015300DNA-binding pseudobarrel domain
PfamPF023623.5E-1735112IPR003340B3 DNA binding domain
CDDcd100175.21E-2036113No hitNo description
Gene3DG3DSA:2.40.330.103.4E-17271370IPR015300DNA-binding pseudobarrel domain
CDDcd100171.85E-19274370No hitNo description
SMARTSM010199.7E-14274372IPR003340B3 DNA binding domain
PROSITE profilePS5086311.491274372IPR003340B3 DNA binding domain
PfamPF023621.7E-12274369IPR003340B3 DNA binding domain
SuperFamilySSF1019368.83E-17274362IPR015300DNA-binding pseudobarrel domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005773Cellular Componentvacuole
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 396 aa     Download sequence    Send to blast
MDKVGDSSNK WAEDIYWSHF QFTHFYQILA GGCEQQLVIP NKFSNNLRNK LPDTVTLKGP  60
SGATWDVGLT SSDDKLYFKR GWQEFVKAHS LEQNDLLVFR YNGMSQFDVL IFDWKSFCEK  120
EASYFVKICE NKKIDSGGQA KRKFREPSLD GFDANINNGA ECDSSENIIH DDSMERMIQD  180
VVSKATNFNG QPEVFSAEPI RTVQTRRKKK TPNKTAIIST PDPVQLSDSD VEATPIKKIG  240
SYVEQYVSHR RAITEGEKNN ALKLAEAASS DTGFKVVMRP SHVYRRFFLF IPTQWVTKNL  300
SLRNQDIILR VGSDEWPTKF NFTPSRQCGG LTSGWKHFSV DNNLEEFDVC VFEPVNKSSG  360
PVVLEVKIFR VVEDVIPLTR VASKGNRKPT KAPEA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A8e-1524237516146B3 domain-containing transcription factor VRN1
4i1k_B8e-1524237516146B3 domain-containing transcription factor VRN1
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00468DAPTransfer from AT4G33280Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6818230.0LN681823.1 Cucumis melo genomic scaffold, anchoredscaffold00014.
GenBankLN7132570.0LN713257.1 Cucumis melo genomic chromosome, chr_3.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004152721.10.0PREDICTED: B3 domain-containing protein REM16-like
TrEMBLA0A0A0LRE70.0A0A0A0LRE7_CUCSA; Uncharacterized protein
STRINGXP_004152721.10.0(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF44462658
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G33280.14e-58B3 family protein
Publications ? help Back to Top
  1. Ren Y, et al.
    An integrated genetic and cytogenetic map of the cucumber genome.
    PLoS ONE, 2009. 4(6): p. e5795
    [PMID:19495411]
  2. Guo S, et al.
    Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types.
    BMC Genomics, 2010. 11: p. 384
    [PMID:20565788]
  3. Li Z, et al.
    RNA-Seq improves annotation of protein-coding genes in the cucumber genome.
    BMC Genomics, 2011. 12: p. 540
    [PMID:22047402]