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 MDP0000238744
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family B3
Protein Properties Length: 417aa    MW: 47487.9 Da    PI: 9.2573
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000238744genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B353.93.2e-17696298
                   EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
             B3  2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                   f +l+ s++l+ ++l++p +f++++ ++   s+  tl+ ++g +W v +  +k ++++++ +GW++F +   +++g f++F+++grs+f  +v++f+
  MDP0000238744  6 FHKLIVSSTLQAKQLRIPESFVQKFRNE--LSTIATLTVPDGHVWHVGV--KKVDNKFWFHSGWQDFIEHYSIRVGYFLTFRHEGRSSF--TVHIFN 96
                   56777888899999********999744..8899***************..**********************************9**9..888875 PP

2B362.66.6e-20303393498
                    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++ yr+++    l++GW eF  +n+L egD++vF+l + ++  l+v+vfr
  MDP0000238744 303 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQSADGRQWSVRCLYRGGR--AKLSQGWYEFTMDNNLGEGDVCVFELLKMKDIVLKVTVFR 393
                    78899******************877743...5***************665555..66***********************998899999999997 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.9E-23297IPR015300DNA-binding pseudobarrel domain
CDDcd100171.57E-19396No hitNo description
SuperFamilySSF1019367.06E-23397IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.437598IPR003340B3 DNA binding domain
PfamPF023623.0E-14696IPR003340B3 DNA binding domain
SMARTSM010195.6E-14698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.9E-24293393IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.23E-24294393IPR015300DNA-binding pseudobarrel domain
CDDcd100177.71E-23298393No hitNo description
SMARTSM010191.2E-19300395IPR003340B3 DNA binding domain
PROSITE profilePS5086314.283300395IPR003340B3 DNA binding domain
PfamPF023621.2E-17303393IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 417 aa     Download sequence    Send to blast
MRPPYFHKLI VSSTLQAKQL RIPESFVQKF RNELSTIATL TVPDGHVWHV GVKKVDNKFW  60
FHSGWQDFIE HYSIRVGYFL TFRHEGRSSF TVHIFNLKTA EINYQPNALS STGGSVYRYQ  120
VFEEMEDDDS VEILGSSPTS IVTDSLKDKC FGDSANQLTP GKNCTPPSLQ NLFNGSKPKN  180
CVNWSDAGNL HLSKGDDLQA GNESTRDIGV QFNVTELKKT VDEVKLRSPG EDIRSIKKTV  240
RKKRKVNPNV EESSSQHEKE VEIRFRFYES ASARKRTVTA EERERAINAA KTFEPVNPFC  300
RVVLRPSYLY RGCIMYLPSC FAEKNLNGVS GFIKLQSADG RQWSVRCLYR GGRAKLSQGW  360
YEFTMDNNLG EGDVCVFELL KMKDIVLKVT VFRVLEDAGF VNQPQLQNLT PAKPNRN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A6e-7226639615144B3 domain-containing transcription factor VRN1
4i1k_B6e-7226639615144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mdo.22230.0fruit| leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269|PubMed:12114624}.
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_008362130.10.0B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-131VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A498JX410.0A0A498JX41_MALDO; Uncharacterized protein
STRINGXP_008362130.10.0(Malus domestica)
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-133B3 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]