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.009G108500.1
Common NamePOPTR_0009s11170g
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: 382aa    MW: 43658.5 Da    PI: 9.1537
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.009G108500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B340.93.8e-13596198
                        EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93
                        ff++l+ s++ +++rl++p +f++++g++   s  ++l  + g + ++ l   k +++ ++ +GW++Fv+   + +g f++F+++g+  f  +
  Potri.009G108500.1  5 FFQKLILSSTIREKRLRIPDNFVKKFGHD--ISSFVRLIVPGGHVSRIGL--IKADDKLWFHDGWQQFVERFAIHVGYFLIFRYEGNAIF--N 91
                        899999********************988..6668***************..9*******************************998888..8 PP

                        EEEE- CS
                  B3 94 vkvfr 98
                        v++f+
  Potri.009G108500.1 92 VHIFN 96
                        88875 PP
2B357.62.3e-18280370498
                         E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                         vl ps+  + ++++lp  fae++ +g++     ++l+ ++g++W v++ yr+++    +++GW eF  +n+L egD+++F+l ++++  l+
  Potri.009G108500.1 280 VLRPSYLYRGCIMYLPSGFAEKNlNGVSG---FIILQLPDGKQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCIFELLKSRDVVLK 365
                         78899******************876743...5999************666665..5699*********************9988888899 PP

                         EEEE- CS
                  B3  94 vkvfr 98 
                         v++fr
  Potri.009G108500.1 366 VTLFR 370
                         99887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019369.22E-20396IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.7E-20396IPR015300DNA-binding pseudobarrel domain
CDDcd100171.55E-16596No hitNo description
PROSITE profilePS5086310.941598IPR003340B3 DNA binding domain
SMARTSM010193.8E-12598IPR003340B3 DNA binding domain
PfamPF023621.1E-9596IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.104.6E-24269370IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.1E-25271370IPR015300DNA-binding pseudobarrel domain
CDDcd100174.26E-23275370No hitNo description
SMARTSM010199.4E-22277372IPR003340B3 DNA binding domain
PROSITE profilePS5086313.987277372IPR003340B3 DNA binding domain
PfamPF023621.5E-16280370IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 382 aa     Download sequence    Send to blast
MPRPFFQKLI LSSTIREKRL RIPDNFVKKF GHDISSFVRL IVPGGHVSRI GLIKADDKLW  60
FHDGWQQFVE RFAIHVGYFL IFRYEGNAIF NVHIFNLPTS EINYHSNSLS GKRYLAFEEL  120
DNDENAENSG IPPPQLIVNK SYNPPSLQNL FSGSKLNNCI NWSGEDTMRL TKGSNISQVA  180
NESARNVGAH YNELYNSQDE VKLYSPDGET PKPKKRGRKR LKADPNEQQL SSPHDDDSEM  240
RFRFYESASA RKRTVTAEER ERAMNAAKAY APDNPYCRVV LRPSYLYRGC IMYLPSGFAE  300
KNLNGVSGFI ILQLPDGKQW PVRCLYRGGR AKFSQGWYEF TLENNLGEGD VCIFELLKSR  360
DVVLKVTLFR VLEDGGLMNH P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A5e-7324337315144B3 domain-containing transcription factor VRN1
4i1k_B5e-7324337315144B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1216222GRKRLKA
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.155451e-155leaf
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.009G108500.1
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_006379217.10.0B3 domain-containing transcription factor VRN1
SwissprotQ8L3W11e-142VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLU5G3W50.0U5G3W5_POPTR; Uncharacterized protein
STRINGPOPTR_0009s11170.10.0(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-138B3 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]