PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cucsa.110000.1
Organism
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: 255aa    MW: 29250.5 Da    PI: 8.2021
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cucsa.110000.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B343.36.4e-142751897
                    --HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
              B3 18 lpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97
                    +p +f++ +  +   s   tl+ ++g +W+v l  rk ++++++++GW++F +   +++g  +vF+++g+s+f  +v +f
  Cucsa.110000.1  2 IPETFVRMIRDE--LSAVATLTVPDGHVWRVGL--RKADNKFWFEDGWQGFLEHYSIRVGYLLVFRYEGNSSF--CVFIF 75
                    999***999644..8889***************..**********************************9999..66555 PP

2B354.32.4e-171442211798
                     E--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
              B3  17 vlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                     +lp  fae++ +g++     ++l++++gr+W v++ y+ +  r  l++GW eF+ +n+L egD++vF+l + +e  l+v++fr
  Cucsa.110000.1 144 YLPSCFAEKNlSGVSG---FIKLQTPDGRQWPVRCLYKVG--RAKLSQGWYEFCLENNLGEGDVCVFELLRMREIVLKVTMFR 221
                     89********866643...5***************55555..566***********************987677777777776 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd100174.75E-16176No hitNo description
SMARTSM010190.0013178IPR003340B3 DNA binding domain
SuperFamilySSF1019363.53E-18178IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.902178IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.1E-17178IPR015300DNA-binding pseudobarrel domain
PfamPF023621.0E-10275IPR003340B3 DNA binding domain
SMARTSM010191.8E-13126223IPR003340B3 DNA binding domain
PROSITE profilePS5086313.056128223IPR003340B3 DNA binding domain
SuperFamilySSF1019363.73E-19139221IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.9E-20143221IPR015300DNA-binding pseudobarrel domain
PfamPF023625.3E-16144221IPR003340B3 DNA binding domain
CDDcd100171.46E-18144221No hitNo description
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
Sequence ? help Back to Top
Protein Sequence    Length: 255 aa     Download sequence    Send to blast
RIPETFVRMI RDELSAVATL TVPDGHVWRV GLRKADNKFW FEDGWQGFLE HYSIRVGYLL  60
VFRYEGNSSF CVFIFNLNTS EINYQSAALS NNQRNNYSIQ NRIFEEMEDY DIPEAIPSNQ  120
SMNSAFKLNH VSPNKGILHS PLQYLPSCFA EKNLSGVSGF IKLQTPDGRQ WPVRCLYKVG  180
RAKLSQGWYE FCLENNLGEG DVCVFELLRM REIVLKVTMF RVIEEGGRMA NPNPASMMNP  240
PPLRSVSHIK LIRN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-3811922433144B3 domain-containing transcription factor VRN1
4i1k_B1e-3811922433144B3 domain-containing transcription factor VRN1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}.
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_012480291.12e-85PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X3
SwissprotQ8L3W13e-47VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2PYW05e-84A0A0D2PYW0_GOSRA; Uncharacterized protein
STRINGXP_004145349.17e-84(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
AT3G18990.11e-49B3 family protein
Publications ? help Back to Top
  1. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  2. Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS
    Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana.
    Plant Cell Rep., 2018. 37(6): p. 901-912
    [PMID:29541883]