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 Glyma.20G008700.1.p
Common NameGLYMA_20G008700, LOC100789352
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family B3
Protein Properties Length: 436aa    MW: 49452.9 Da    PI: 8.9669
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.20G008700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.62.3e-18896498
                         E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                   B3  4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95
                         +l+ + +l+s++l++p +f++++g +   s+  tl+ ++g +W++ l  +k ++r+++ +GW++Fv+   + +g f+vF+++g+s+f   v+
  Glyma.20G008700.1.p  8 KLVLPTTLQSRQLRIPDNFLRKYGTQ--LSTIATLTVPDGSVWRIGL--KKADNRILFVDGWQDFVQHYSIGVGYFLVFMYEGNSSF--IVH 93
                         555677888889***********966..9999***************..*************************************9..999 PP

                         EE- CS
                   B3 96 vfr 98
                         +f+
  Glyma.20G008700.1.p 94 IFN 96
                         986 PP

2B359.27.1e-19301392499
                          E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
                   B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                          vl ps+  + ++++lp  fae++ +g++     ++l+ ++gr+W+v++ yr+++    l++GW eF  +n+L egD++vF+l +++e  l
  Glyma.20G008700.1.p 301 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQLSNGRQWSVRCLYRGGR--AKLSQGWFEFTVENNLGEGDVCVFELLRTKEVVL 385
                          78899******************876743...59999999********665555..66************************99999999 PP

                          EEEEE-S CS
                   B3  93 vvkvfrk 99 
                           v+vfr 
  Glyma.20G008700.1.p 386 QVTVFRV 392
                          **99985 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019365.49E-24397IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.5E-23397IPR015300DNA-binding pseudobarrel domain
CDDcd100173.76E-19496No hitNo description
PROSITE profilePS5086313.606598IPR003340B3 DNA binding domain
SMARTSM010193.3E-16698IPR003340B3 DNA binding domain
PfamPF023625.2E-16896IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.6E-24290391IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.16E-24291392IPR015300DNA-binding pseudobarrel domain
CDDcd100173.30E-22296391No hitNo description
SMARTSM010193.7E-19298393IPR003340B3 DNA binding domain
PROSITE profilePS5086314.099298393IPR003340B3 DNA binding domain
PfamPF023628.7E-17301391IPR003340B3 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: 436 aa     Download sequence    Send to blast
MPRPCFHKLV LPTTLQSRQL RIPDNFLRKY GTQLSTIATL TVPDGSVWRI GLKKADNRIL  60
FVDGWQDFVQ HYSIGVGYFL VFMYEGNSSF IVHIFNLSTS EVNYQSAIRN RNEGSCLANY  120
HHIFDEMEDV DSLDLSDLSP QYLTPGSLQN KGCVGSVDQL TPGKSHTPAL QNLFNGGSKL  180
NRINWGDGGS AFSSKNANSQ GNQSTRDIGV QFNANEFKRS TEELKLRYSN EETVNKTAKK  240
KRKSEPYGEE PSGENEEEAE MRYRFYESAS ARKRTVTAEE RERAINASKT FEPTNPFCRV  300
VLRPSYLYRG CIMYLPSCFA EKNLNGVSGF IKLQLSNGRQ WSVRCLYRGG RAKLSQGWFE  360
FTVENNLGEG DVCVFELLRT KEVVLQVTVF RVTEDAGLLN QPPMMQQQHI PNMSHTKLLN  420
PHLQHRVSTT KLIRN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7226439415144B3 domain-containing transcription factor VRN1
4i1k_B1e-7226439415144B3 domain-containing transcription factor VRN1
Search in ModeBase
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
PlantRegMapGlyma.20G008700.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0946860.0BT094686.1 Soybean clone JCVI-FLGm-24P12 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003555681.10.0B3 domain-containing transcription factor VRN1 isoform X1
RefseqXP_028222197.10.0B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-125VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0B2NPL00.0A0A0B2NPL0_GLYSO; B3 domain-containing transcription factor VRN1
TrEMBLI1ND230.0I1ND23_SOYBN; Uncharacterized protein
STRINGGLYMA20G01130.10.0(Glycine max)
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-123B3 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]