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.004G146900.1
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: 466aa    MW: 52741.1 Da    PI: 8.6585
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.004G146900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B332.41.7e-1089180198
                         EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                         ff++l+ + + +++rl++p +f++++g++       +l  + g + ++ l   k +++ ++ +GW++Fv+   +  g f++F+++g+  f 
  Potri.004G146900.1  89 FFQKLILPGTIREKRLRIPDNFVKKFGHD--LLGFARLIVPGGHVSRIGL--IKADEKLWFHDGWQQFVERFAIHIGYFLIFQYEGNAIF- 174
                         788899999999**************988..44479**************..9*******************************998888. PP

                         .EEEEE- CS
                  B3  92 lvvkvfr 98 
                          +v++f+
  Potri.004G146900.1 175 -NVHIFN 180
                         .888875 PP
2B358.99e-19364454498
                         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.004G146900.1 364 VLRPSYLYRGCIMYLPSGFAEKNlnG----LSGFMKLQLPDGKQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFELLKSRDVVL 448
                         78899******************643....34469999***********666665..5699*********************999888889 PP

                         EEEEE- CS
                  B3  93 vvkvfr 98 
                         +v+vfr
  Potri.004G146900.1 449 KVTVFR 454
                         999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.0E-1882180IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.08E-1884180IPR015300DNA-binding pseudobarrel domain
CDDcd100171.63E-1488180No hitNo description
PROSITE profilePS508639.84189182IPR003340B3 DNA binding domain
PfamPF023629.7E-889180IPR003340B3 DNA binding domain
SMARTSM010194.3E-1190182IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.104.9E-25353454IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.75E-25355454IPR015300DNA-binding pseudobarrel domain
CDDcd100173.68E-24359454No hitNo description
PROSITE profilePS5086313.775361456IPR003340B3 DNA binding domain
SMARTSM010198.2E-22361456IPR003340B3 DNA binding domain
PfamPF023626.9E-17364454IPR003340B3 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: 466 aa     Download sequence    Send to blast
MEYEGKATSH DTHLPSVGKC TLGSCQSTHC CCHSTNTQCC VRKGADLKSK KLIFQSDLYH  60
YVNCLPHSLP HSIPVLPYPK SQIKMPRPFF QKLILPGTIR EKRLRIPDNF VKKFGHDLLG  120
FARLIVPGGH VSRIGLIKAD EKLWFHDGWQ QFVERFAIHI GYFLIFQYEG NAIFNVHIFN  180
LPTSEINYHS NSLSGKIYLA FEELEDDDSA ASSGIPTTQL IVNKSYNPPA LQNLLSGSKL  240
NNCLNWGGEE NMHLTKSANV SQVANESARN VFAQYNEHKN SQEEVKLYSP DGETPKLKKR  300
GRKRLKVDPN EQQLSSPNED DGEMSFRFYE SASARKRTVT AEERERAMNA AKAYAPDNPY  360
CRVVLRPSYL YRGCIMYLPS GFAEKNLNGL SGFMKLQLPD GKQWPVRCLY RGGRAKFSQG  420
WYEFTLENNL GEGDVCVFEL LKSRDVVLKV TVFRVLEDGG LMNHP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A5e-7532745715144B3 domain-containing transcription factor VRN1
4i1k_B5e-7532745715144B3 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.004G146900.1
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_006384474.10.0B3 domain-containing transcription factor VRN1 isoform X1
SwissprotQ8L3W11e-137VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A2K2AUR80.0A0A2K2AUR8_POPTR; Uncharacterized protein
STRINGPOPTR_0004s15400.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21473485
Representative plantOGRP20511436
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]