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 Gorai.012G150900.3
Common NameB456_012G150900
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family B3
Protein Properties Length: 369aa    MW: 42923 Da    PI: 9.3189
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G150900.3genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B347.63.1e-1513921398
                        TT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                  B3 13 sgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                        + + ++p +f++++g +   s+   l+ ++g +W+v +  rk ++++++ +GW+eFv+   +++g  +vF+++g+s+f  +v++f+
  Gorai.012G150900.3 13 RFNGRIPDNFVKKFGDE--LSVAAALTVPDGHVWRVGI--RKADKKVWFHEGWQEFVERYYIRAGYLLVFRYEGNSCF--CVSIFS 92
                        55558*******99865..99*****************..**************************************..999986 PP
2B362.57.1e-20238329499
                         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+ ++gr+W v+++yr+++    +++GW eF  +n+L egD+++F+l +++ef l+
  Gorai.012G150900.3 238 VLRPSYLYRGCIMYLPSCFAEKYlSGVSG---FIKLQLPDGRQWPVRCRYRGGK--AKFSQGWYEFTLENNLGEGDVCIFELLRSREFVLK 323
                         78899******************866743...5***************555555..6699**********************999****** PP

                         EEEE-S CS
                  B3  94 vkvfrk 99 
                         v+vfr 
  Gorai.012G150900.3 324 VTVFRV 329
                         ***985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.787194IPR003340B3 DNA binding domain
SMARTSM010191.0E-10494IPR003340B3 DNA binding domain
PfamPF023622.2E-121292IPR003340B3 DNA binding domain
SuperFamilySSF1019361.12E-171592IPR015300DNA-binding pseudobarrel domain
CDDcd100173.69E-161792No hitNo description
Gene3DG3DSA:2.40.330.101.9E-181792IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.8E-24226328IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.35E-24228328IPR015300DNA-binding pseudobarrel domain
CDDcd100171.67E-22233328No hitNo description
PROSITE profilePS5086313.958235330IPR003340B3 DNA binding domain
SMARTSM010192.2E-23235330IPR003340B3 DNA binding domain
PfamPF023629.6E-18238328IPR003340B3 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: 369 aa     Download sequence    Send to blast
MVQFNGFHLV EKRFNGRIPD NFVKKFGDEL SVAAALTVPD GHVWRVGIRK ADKKVWFHEG  60
WQEFVERYYI RAGYLLVFRY EGNSCFCVSI FSLYNSEINY QTNAFVGTQY YHRKPYPFEE  120
LEDDECISPA LQNLFSRSKV NNCMNWSGEI NFRALKGMNS QSFRGAVLSK PNKPGRKKQK  180
FDHAEPDSSV GREYDVYTNF RLYESASARK RTVTTEERER AINTAKSFEP MNPFCRVVLR  240
PSYLYRGCIM YLPSCFAEKY LSGVSGFIKL QLPDGRQWPV RCRYRGGKAK FSQGWYEFTL  300
ENNLGEGDVC IFELLRSREF VLKVTVFRVR ESAPVSMKCR PELNQLTYSE HTLPDDVKPI  360
RVDKSMPF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7320133115144B3 domain-containing transcription factor VRN1
4i1k_B2e-7320133115144B3 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGU9296950.0GU929695.1 Gossypium hirsutum reduced vernalization response 1 (V1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016739202.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X3
SwissprotQ8L3W11e-132VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2V6Q20.0A0A0D2V6Q2_GOSRA; Uncharacterized protein
STRINGGorai.012G150900.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-126B3 family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. 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]
  3. 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]