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.109990.2
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: 407aa    MW: 46723.1 Da    PI: 6.7855
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.109990.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B348.51.6e-15351081695
                     EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
              B3  16 lvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                     l +p+kfa+++gg+      +tl  ++g +W ++l  +++++++++++GW eFvk + +++g  +vF+++g+s f+  + 
  Cucsa.109990.2  35 LKIPNKFAKKFGGD--ILDLVTLVAPNGYRWVLEL--KRHGRSMWFEDGWHEFVKHHCIQVGQLLVFRFEGNSVFN--FY 108
                     89*********999..5568***************..*********************************999994..44 PP
2B3634.7e-20309398598
                     -..-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.109990.2 309 MRQSYIRRGFHLHIPSKFAEKYlKGV-WG--DITLQVSSGKQWRVRC--IREGPGTKLTRGWADFVVDNDLKEEDVCVFELINMKDIVMQVTVFR 398
                     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
SMARTSM010192.5E-920113IPR003340B3 DNA binding domain
PROSITE profilePS5086313.23920113IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.1E-1929111IPR015300DNA-binding pseudobarrel domain
CDDcd100173.20E-1533111No hitNo description
SuperFamilySSF1019361.24E-1833111IPR015300DNA-binding pseudobarrel domain
PfamPF023621.3E-1235107IPR003340B3 DNA binding domain
SuperFamilySSF1019366.47E-24299400IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.6E-25299399IPR015300DNA-binding pseudobarrel domain
CDDcd100175.07E-22303398No hitNo description
SMARTSM010191.7E-14305400IPR003340B3 DNA binding domain
PROSITE profilePS5086313.366305400IPR003340B3 DNA binding domain
PfamPF023629.6E-19308398IPR003340B3 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: 407 aa     Download sequence    Send to blast
MDNSLTAMPE SNEQEGAQSF NQTSPARRAG LFYKLKIPNK FAKKFGGDIL DLVTLVAPNG  60
YRWVLELKRH GRSMWFEDGW HEFVKHHCIQ VGQLLVFRFE GNSVFNFYMF NLTAIPNGPC  120
NTSNASIEQN DGEQCPDTLG KEAEYKKLVE ILGTGSPDPS PRPSVKDLVC EFPDQQKFNG  180
SCNGTSIKNF MHWFDTENLH PLKDFDNPLK HLDKLRMQLL NSNRDIGIQF DGDELAKARE  240
NHDFQLNQSS DEREEGAMKK KLKLEPIDYY NDNEPIDEKK CGNVPHKINR MAFGVEEFKF  300
GNPFCWIVMR QSYIRRGFHL HIPSKFAEKY LKGVWGDITL QVSSGKQWRV RCIREGPGTK  360
LTRGWADFVV DNDLKEEDVC VFELINMKDI VMQVTVFRVH GDPTKT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-2629440038143B3 domain-containing transcription factor VRN1
4i1k_B2e-2629440038143B3 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)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.17e-50B3 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]