PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.004G146900.2
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family B3
Protein Properties Length: 384aa    MW: 43675.6 Da    PI: 8.4216
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.004G146900.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.46.5e-19282372498
                         E-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
                  B3   4 vltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                         vl ps+  + ++++lp  fae++  g     s  ++l+ ++g++W v++ yr+++    +++GW eF  +n+L egD++vF+l ++++  l
  Potri.004G146900.2 282 VLRPSYLYRGCIMYLPSGFAEKNlnG----LSGFMKLQLPDGKQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFELLKSRDVVL 366
                         78899******************643....34469999***********666665..5699*********************999888889 PP

                         EEEEE- CS
                  B3  93 vvkvfr 98 
                         +v+vfr
  Potri.004G146900.2 367 KVTVFR 372
                         999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010190.008117100IPR003340B3 DNA binding domain
SuperFamilySSF1019362.16E-132098IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.7E-132298IPR015300DNA-binding pseudobarrel domain
CDDcd100176.56E-102398No hitNo description
PROSITE profilePS508638.00724100IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.5E-25271372IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.92E-25273372IPR015300DNA-binding pseudobarrel domain
CDDcd100175.90E-24277372No hitNo description
PROSITE profilePS5086313.775279374IPR003340B3 DNA binding domain
SMARTSM010198.2E-22279374IPR003340B3 DNA binding domain
PfamPF023625.0E-17282372IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 384 aa     Download sequence    Send to blast
MGTKYLILLW GKWSLTWFGF LQRIPDNFVK KFGHDLLGFA RLIVPGGHVS RIGLIKADEK  60
LWFHDGWQQF VERFAIHIGY FLIFQYEGNA IFNVHIFNLP TSEINYHSNS LSGKIYLAFE  120
ELEDDDSAAS SGIPTTQLIV NKSYNPPALQ NLLSGSKLNN CLNWGGEENM HLTKSANVSQ  180
VANESARNVF AQYNEHKNSQ EEVKLYSPDG ETPKLKKRGR KRLKVDPNEQ QLSSPNEDDG  240
EMSFRFYESA SARKRTVTAE ERERAMNAAK AYAPDNPYCR VVLRPSYLYR GCIMYLPSGF  300
AEKNLNGLSG FMKLQLPDGK QWPVRCLYRG GRAKFSQGWY EFTLENNLGE GDVCVFELLK  360
SRDVVLKVTV FRVLEDGGLM NHP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7324537515144B3 domain-containing transcription factor VRN1
4i1k_B1e-7324537515144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.155450.0leaf
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.004G146900.2
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_024455870.10.0B3 domain-containing transcription factor VRN1 isoform X2
SwissprotQ8L3W11e-126VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A2K2AUR80.0A0A2K2AUR8_POPTR; Uncharacterized protein
STRINGPOPTR_0004s15400.10.0(Populus trichocarpa)
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]