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.109990.1
Common NameCsa_2G237700, LOC101213202
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: 418aa    MW: 47944.6 Da    PI: 6.9386
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.109990.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B351.51.8e-1636119695
                     ..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
              B3   6 tpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                     + ++ l+ + l +p+kfa+++gg+      +tl  ++g +W ++l  +++++++++++GW eFvk + +++g  +vF+++g+s f+  + 
  Cucsa.109990.1  36 VVPSILQDKKLKIPNKFAKKFGGD--ILDLVTLVAPNGYRWVLEL--KRHGRSMWFEDGWHEFVKHHCIQVGQLLVFRFEGNSVFN--FY 119
                     3455566677***********999..5568***************..*********************************999994..44 PP
2B3634.9e-20320409598
                     -..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
              B3   5 ltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                     + +s+  +   l +p kfae++ +g+  +  ++tl+ +sg++W+v++   + + ++ lt+GW +Fv +n+Lke D++vF+l++ ++  + v+vfr
  Cucsa.109990.1 320 MRQSYIRRGFHLHIPSKFAEKYlKGV-WG--DITLQVSSGKQWRVRC--IREGPGTKLTRGWADFVVDNDLKEEDVCVFELINMKDIVMQVTVFR 409
                     66788888889***********7666.34..7***************..67777789************************98899999999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd100171.96E-1631122No hitNo description
SuperFamilySSF1019361.43E-2031122IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.94431124IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.5E-2131122IPR015300DNA-binding pseudobarrel domain
SMARTSM010194.9E-1332124IPR003340B3 DNA binding domain
PfamPF023621.3E-1337118IPR003340B3 DNA binding domain
SuperFamilySSF1019366.67E-24310411IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.8E-25310410IPR015300DNA-binding pseudobarrel domain
CDDcd100176.00E-22314409No hitNo description
PROSITE profilePS5086313.366316411IPR003340B3 DNA binding domain
SMARTSM010191.7E-14316411IPR003340B3 DNA binding domain
PfamPF023621.0E-18319409IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
GO:0010048Biological Processvernalization response
GO:0005654Cellular Componentnucleoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 418 aa     Download sequence    Send to blast
MDNSLTAMPE SNEQEGAQSF NQTSPARRAG LFYKLVVPSI LQDKKLKIPN KFAKKFGGDI  60
LDLVTLVAPN GYRWVLELKR HGRSMWFEDG WHEFVKHHCI QVGQLLVFRF EGNSVFNFYM  120
FNLTAIPNGP CNTSNASIEQ NDGEQCPDTL GKEAEYKKLV EILGTGSPDP SPRPSVKDLV  180
CEFPDQQKFN GSCNGTSIKN FMHWFDTENL HPLKDFDNPL KHLDKLRMQL LNSNRDIGIQ  240
FDGDELAKAR ENHDFQLNQS SDEREEGAMK KKLKLEPIDY YNDNEPIDEK KCGNVPHKIN  300
RMAFGVEEFK FGNPFCWIVM RQSYIRRGFH LHIPSKFAEK YLKGVWGDIT LQVSSGKQWR  360
VRCIREGPGT KLTRGWADFV VDNDLKEEDV CVFELINMKD IVMQVTVFRV HGDPTKT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-2630541138143B3 domain-containing transcription factor VRN1
4i1k_B2e-2630541138143B3 domain-containing transcription factor VRN1
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6819140.0LN681914.1 Cucumis melo genomic scaffold, anchoredscaffold00050.
GenBankLN7132650.0LN713265.1 Cucumis melo genomic chromosome, chr_11.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004145348.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like
TrEMBLA0A0A0LP180.0A0A0A0LP18_CUCSA; Uncharacterized protein
STRINGXP_004145348.10.0(Cucumis sativus)
STRINGXP_004153258.10.0(Cucumis sativus)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21473485
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.15e-55B3 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]