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 Tp57577_TGAC_v2_mRNA19264
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; Trifolieae; Trifolium
Family B3
Protein Properties Length: 424aa    MW: 48139.4 Da    PI: 9.162
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA19264genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3543.1e-171196597
                               -..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                         B3  5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90
                                + + +l+s++l++p +f+++hg++   s   t++ ++g +W++ l  +k ++r++l++GW+eFv+   +  g f+vF+++g+s+f
  Tp57577_TGAC_v2_mRNA19264 11 IL-PTTLQSRQLRIPDNFLKKHGSQ--LSSYATVTVPDGAVWRIGL--KKVDNRIWLSDGWQEFVQRYSIGIGYFLVFMYEGNSTF 91
                               43.45566778***********988..77789999***********..**********************************9999 PP

                               ..EEEEE CS
                         B3 91 elvvkvf 97
                                  v++f
  Tp57577_TGAC_v2_mRNA19264 92 --IVHMF 96
                               ..88877 PP

2B358.11.6e-18292382498
                                E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                         B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                                vl ps+  + ++++lp  fae++ +g++     ++l++++ r+W v++ yr+++    l++GW eF  +n+L egD++vF+l +
  Tp57577_TGAC_v2_mRNA19264 292 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQTTDARQWPVRCLYRGGR--AKLSQGWYEFTVENNLGEGDVCVFELLR 370
                                78899******************877743...5***************665555..66************************99 PP

                                SSEE..EEEEE- CS
                         B3  87 rsefelvvkvfr 98 
                                +++  l v++fr
  Tp57577_TGAC_v2_mRNA19264 371 TRDVVLQVTLFR 382
                                999989999988 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.5E-23299IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.0E-23398IPR015300DNA-binding pseudobarrel domain
CDDcd100173.54E-18597No hitNo description
PROSITE profilePS5086313.169699IPR003340B3 DNA binding domain
SMARTSM010191.5E-17799IPR003340B3 DNA binding domain
PfamPF023626.7E-151397IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.4E-23281382IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.68E-24282383IPR015300DNA-binding pseudobarrel domain
CDDcd100172.45E-21287382No hitNo description
SMARTSM010195.7E-20289384IPR003340B3 DNA binding domain
PROSITE profilePS5086313.789289384IPR003340B3 DNA binding domain
PfamPF023621.7E-16292382IPR003340B3 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: 424 aa     Download sequence    Send to blast
MSTRPSFHKI ILPTTLQSRQ LRIPDNFLKK HGSQLSSYAT VTVPDGAVWR IGLKKVDNRI  60
WLSDGWQEFV QRYSIGIGYF LVFMYEGNST FIVHMFNMST AELNYQSTMR SHNEGYSNYL  120
PIFGEMEDID SFEFLDSSPS NLTPGAMDQL TPGKNHTPSL QNLFNGGSKL NRVNWGDIGG  180
TLSSKVAIQS TKDVGVQFNA NEFKKSTEEV KLRYTNEDGL NNSDTKKTPR RKRKLDPSAQ  240
EAAAENDEDG DIRYRFYESA SARKRIVTAE ERERAINEAK TFEPTNPFCR VVLRPSYLYR  300
GCIMYLPSCF AEKNLNGVSG FIKLQTTDAR QWPVRCLYRG GRAKLSQGWY EFTVENNLGE  360
GDVCVFELLR TRDVVLQVTL FRVKEDESGL FNPSMQPIQN VSHAKLLNPH LQHRVSSTKS  420
AKV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A5e-7425538515144B3 domain-containing transcription factor VRN1
4i1k_B5e-7425538515144B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1228234PRRKRKL
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
PlantRegMapTp57577_TGAC_v2_mRNA19264
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_013466718.10.0B3 domain-containing transcription factor VRN1
SwissprotQ8L3W11e-128VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A2K3MX920.0A0A2K3MX92_TRIPR; B3 domain-containing transcription factor vrn1-like protein
STRINGXP_004498177.10.0(Cicer arietinum)
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-130B3 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]