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 HL.SW.v1.0.G041819.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus
Family B3
Protein Properties Length: 420aa    MW: 47923.5 Da    PI: 9.6604
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
HL.SW.v1.0.G041819.1genomeHOPBASEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B342.21.4e-135801596
                          -EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS
                    B3 15 rlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96
                          +l++p +f++++  +   s+  t++ ++g  W+v l  +k ++r+++ +GW++Fv+  g++ g  ++F+++g+++f  +v +
  HL.SW.v1.0.G041819.1  5 ILRIPDNFVKKFRDE--LSTVATITVPDGHIWRVGL--KKADNRIWFHDGWQDFVDRYGIRLGYLLIFRYEGNTTF--NVFI 80
                          689******999755..888999999**********..********************************998888..5544 PP

2B356.55.2e-18288378498
                           E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
                    B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                           vl ps+  + ++++lp  fae++ +g++     ++l++++gr+W v++ yr+++    l++GW eF  +n+  egD++vF++ + +e  
  HL.SW.v1.0.G041819.1 288 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQTSDGRQWPVRCLYRGGR--AKLSQGWYEFSLENNFGEGDVCVFEMLKMKEVV 371
                           78899******************877743...5***************665555..66***********************88878888 PP

                           .EEEEE- CS
                    B3  92 lvvkvfr 98 
                           l+v+vfr
  HL.SW.v1.0.G041819.1 372 LKVTVFR 378
                           9999987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086313.888184IPR003340B3 DNA binding domain
SMARTSM010192.2E-9284IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.9E-18583IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.87E-20582IPR015300DNA-binding pseudobarrel domain
PfamPF023621.6E-10679IPR003340B3 DNA binding domain
CDDcd100175.41E-16682No hitNo description
Gene3DG3DSA:2.40.330.102.7E-23277378IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.51E-23278378IPR015300DNA-binding pseudobarrel domain
CDDcd100173.07E-21283378No hitNo description
SMARTSM010197.7E-16285380IPR003340B3 DNA binding domain
PROSITE profilePS5086313.38285380IPR003340B3 DNA binding domain
PfamPF023627.6E-16288378IPR003340B3 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: 420 aa     Download sequence    Send to blast
MTVRILRIPD NFVKKFRDEL STVATITVPD GHIWRVGLKK ADNRIWFHDG WQDFVDRYGI  60
RLGYLLIFRY EGNTTFNVFI FNLTTSEINY QGNSMHSSQA IYNNRYQIFE EMEDDSDEIV  120
GFSSGRMATG PLKAKLLGER AEQMTQGKVF NPPSLQNLFN GSKLNCINWG NEGNLDPAKG  180
AGNFQAQNQL THGVGVQFNV MESKKSGGEV KMNNSEEELR RSKKAGRKKR KIDSNGQESP  240
IKHDETDMRF RFYESASARK RTVTAEERER AISSAKTFEP TNPFCRVVLR PSYLYRGCIM  300
YLPSCFAEKN LNGVSGFIKL QTSDGRQWPV RCLYRGGRAK LSQGWYEFSL ENNFGEGDVC  360
VFEMLKMKEV VLKVTVFRVL EDAGLLNHPS HHTVSRKNGV DKLKLYMAIP SQCETMSKR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A8e-7125138115144B3 domain-containing transcription factor VRN1
4i1k_B8e-7125138115144B3 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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024021268.10.0B3 domain-containing transcription factor VRN1 isoform X1
SwissprotQ8L3W11e-129VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A2P5BW720.0A0A2P5BW72_TREOI; B3 DNA binding domain containing protein
STRINGXP_010096266.10.0(Morus notabilis)
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-129B3 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]