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 Cla010278
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; Citrullus
Family B3
Protein Properties Length: 369aa    MW: 42122.8 Da    PI: 8.624
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cla010278genomeICuGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B336.68e-127663396
               -SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
         B3 33 sktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96
               s   tl+ ++g +W+v l  rk ++++++++GW++F +   +++g  +vF+++g+s f  +v +
  Cla010278  7 SAVATLTVPDGHVWRVGL--RKADNKFWFEDGWQGFLEHYSIRVGYLLVFRYEGNSAF--CVFI 66
               55678999**********..**********************************9998..6655 PP

2B3629.6e-20246336498
                E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
         B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                vl ps+  + ++++lp  fae++ +g++     ++l++++gr+W v++ y+ +  r  l++GW eF+ +n+L egD++vF+l + +e  l+v++fr
  Cla010278 246 VLRPSYLYRGCIMYLPSCFAEKNlSGVSG---FIKLQTPDGRQWPVRCLYKVG--RAKLSQGWYEFCLENNLGEGDVCVFELLRMREIVLKVTMFR 336
                78899******************866743...5***************55555..566***********************987677767777776 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086312.308170IPR003340B3 DNA binding domain
SMARTSM010190.18270IPR003340B3 DNA binding domain
SuperFamilySSF1019365.3E-15570IPR015300DNA-binding pseudobarrel domain
CDDcd100172.70E-13568No hitNo description
Gene3DG3DSA:2.40.330.102.8E-14770IPR015300DNA-binding pseudobarrel domain
PfamPF023629.9E-9767IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.6E-24235336IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.3E-24238337IPR015300DNA-binding pseudobarrel domain
CDDcd100177.44E-24241336No hitNo description
PROSITE profilePS5086313.874243338IPR003340B3 DNA binding domain
SMARTSM010196.6E-20243338IPR003340B3 DNA binding domain
PfamPF023624.2E-18246336IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 369 aa     Download sequence    Send to blast
MIRDELSAVA TLTVPDGHVW RVGLRKADNK FWFEDGWQGF LEHYSIRVGY LLVFRYEGNS  60
AFCVFIFNLN ASEINYQSAA LSSNQRNNYS IQNRIFEEME DYDIPEAIPS NQSMNSGSLR  120
NKLFGDEWNL HQSKSASTLQ AEYLSTRDIG VQFSAVEVKK SADEVRFQNL GDDAAHRIKK  180
SGGKKRKIES SEHHPSAHNS EDLGDIRFRF YESASARKRT VTAEERERAI NAAKAFEPGN  240
PFCRVVLRPS YLYRGCIMYL PSCFAEKNLS GVSGFIKLQT PDGRQWPVRC LYKVGRAKLS  300
QGWYEFCLEN NLGEGDVCVF ELLRMREIVL KVTMFRVIEE GGRMATPNPA SMMNPPPLRS  360
VSHIKLIRN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A6e-7320933915144B3 domain-containing transcription factor VRN1
4i1k_B6e-7320933915144B3 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}.
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_008459235.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like
SwissprotQ8L3W11e-124VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A1S3C9T80.0A0A1S3C9T8_CUCME; B3 domain-containing transcription factor VRN1-like
STRINGXP_004145349.10.0(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
AT3G18990.11e-122B3 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]