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 evm.model.supercontig_62.76
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family B3
Protein Properties Length: 328aa    MW: 37754.1 Da    PI: 8.9125
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_62.76genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B339.41.1e-12572172
                                 EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHH CS
                           B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkan 72
                                 ff +l+ s++ +++rl++p +f+++++ +   s+ + l+ ++g +W+v l  rk s+++++++GW+eF ++ 
  evm.model.supercontig_62.76  5 FFHKLILSSTIQEKRLRIPDNFVKKFKDE--LSVAVALTVPDGHVWRVGL--RKVSDKIWFQDGWQEFSSDM 72
                                 8899999****************999855..99*****************..****************9885 PP

2B363.92.6e-20232322498
                                  E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                           B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                                  vl ps+  + ++++lp  fae+h +g+   s  ++l++++g++W v++ yr+++    +++GW eF  +n+L egD++vF+l
  evm.model.supercontig_62.76 232 VLRPSYLYRGCIMYLPSCFAEKHlSGI---SGFIKLQSSDGKQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFEL 308
                                  78899******************7555...346***************666665..5699********************** PP

                                  -SSSEE..EEEEE- CS
                           B3  85 dgrsefelvvkvfr 98 
                                   + ++f l+v+vfr
  evm.model.supercontig_62.76 309 LRARDFILKVTVFR 322
                                  999*********98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.0E-13371IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.16E-13372IPR015300DNA-binding pseudobarrel domain
CDDcd100172.34E-11571No hitNo description
PfamPF023625.4E-10572IPR003340B3 DNA binding domain
PROSITE profilePS508639.535100IPR003340B3 DNA binding domain
SMARTSM010190.0051690IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.5E-25221322IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-25222322IPR015300DNA-binding pseudobarrel domain
CDDcd100173.74E-23227322No hitNo description
PROSITE profilePS5086313.606229324IPR003340B3 DNA binding domain
SMARTSM010191.2E-19229324IPR003340B3 DNA binding domain
PfamPF023621.7E-18232322IPR003340B3 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: 328 aa     Download sequence    Send to blast
MPRPFFHKLI LSSTIQEKRL RIPDNFVKKF KDELSVAVAL TVPDGHVWRV GLRKVSDKIW  60
FQDGWQEFSS DMKGILLSVF TYLIYLFSEI NYHVNGLVGG NEAHNHFKRN RIFEELEDED  120
AEIVGSSSMC PYPAYPDSLA LNKSYNTAAL QNLFSGPKEE DVQKPKKRGR KKQRIDPNDH  180
NPSGQHEDEV DMRFRFYESA SARKRTVTAE ERERAINAAK AFEPTNPFCR VVLRPSYLYR  240
GCIMYLPSCF AEKHLSGISG FIKLQSSDGK QWPVRCLYRG GRAKFSQGWY EFTLENNLGE  300
GDVCVFELLR ARDFILKVTV FRVLESV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A7e-7919532715146B3 domain-containing transcription factor VRN1
4i1k_B7e-7919532715146B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1167173RGRKKQR
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapevm.model.supercontig_62.76
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_021896598.10.0LOW QUALITY PROTEIN: B3 domain-containing transcription factor VRN1-like
SwissprotQ8L3W11e-163VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLE4MXM21e-160E4MXM2_EUTHA; mRNA, clone: RTFL01-34-E14
TrEMBLV4M6R91e-160V4M6R9_EUTSA; Uncharacterized protein
STRINGevm.model.supercontig_62.760.0(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Representative plantOGRP20511436
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-157B3 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]