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 MDP0000555456
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: 412aa    MW: 46992.4 Da    PI: 9.344
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000555456genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B351.71.5e-16696298
                   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+  +l+ ++gr+W v +  +k ++++++ +GW eF +   +++g f++F+++g+s+f  +v++f+
  MDP0000555456  6 FHKLIVSSTLQAKQLRIPESFVQKFRND--LSTIAKLTVPDGRVWHVGI--KKVDNKFWFHGGWLEFIEHYSIRVGYFLTFRYEGHSSF--TVHIFN 96
                   56777888899999*********99877..8899***************..**********************************9999..888875 PP

2B361.81.2e-19302392498
                    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+v+vfr
  MDP0000555456 302 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQSADGRQWSVRCLYRGGR--AKLSQGWYEFTMDNNLGEGDVCVFEFLKMKDIVLKVTVFR 392
                    78899******************877743...5***************665555..66***********************988899989999987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.2E-22397IPR015300DNA-binding pseudobarrel domain
CDDcd100171.79E-18496No hitNo description
SuperFamilySSF1019363.34E-22497IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.408598IPR003340B3 DNA binding domain
PfamPF023621.2E-13696IPR003340B3 DNA binding domain
SMARTSM010194.5E-15698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.107.7E-25291392IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.62E-25292392IPR015300DNA-binding pseudobarrel domain
CDDcd100172.22E-22297392No hitNo description
SMARTSM010192.2E-19299394IPR003340B3 DNA binding domain
PROSITE profilePS5086314.311299394IPR003340B3 DNA binding domain
PfamPF023622.5E-17302392IPR003340B3 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: 412 aa     Download sequence    Send to blast
MMTPYFHKLI VSSTLQAKQL RIPESFVQKF RNDLSTIAKL TVPDGRVWHV GIKKVDNKFW  60
FHGGWLEFIE HYSIRVGYFL TFRYEGHSSF TVHIFNLKTA EINYQPNALS STGGSIYRYQ  120
VFEEMEDDDS VEILGSSPTS IVTDSLRDKR FGDSANKLIP GKNCTPLLQN LFNGSKPKNC  180
MSRSDAGNLH LSKGDDLQAG NESTRDNGLQ FNVTELKKTV DEVKLRSPGE DTQSIKKTMR  240
KKRKVNPDVQ ESSSQQEKEV EIRFRFYESA SARKRTVTAE ERERAINAAK TFEPDNPFCR  300
VVLRPSYLYR GCIMYLPSCF AEKNLNGVSG FIKLQSADGR QWSVRCLYRG GRAKLSQGWY  360
EFTMDNNLGE GDVCVFEFLK MKDIVLKVTV FRVLEDAGFV NQPQKQHLTP S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7126539515144B3 domain-containing transcription factor VRN1
4i1k_B1e-7126539515144B3 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_008352816.10.0B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-130VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A498IYI60.0A0A498IYI6_MALDO; Uncharacterized protein
STRINGXP_008352816.10.0(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-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]