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 KFK39227.1
Organism
Arabis alpina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Arabideae; Arabis
Family B3
Protein Properties Length: 339aa    MW: 38959.2 Da    PI: 9.5176
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KFK39227.1genomeMPIPBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B354.81.7e-17595197
                EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
          B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97
                ff +l+ s++ +++rl++p kf+++++ +   s+ + l+ ++g +W+v l  rk  +++++ +GW+eFv+   ++ g  ++F+++g+s f   v +f
  KFK39227.1  5 FFHKLIFSSTIQEKRLRVPDKFVSKFKDE--LSVAVALTVPDGHVWRVGL--RKAENKIWFHDGWQEFVDRYSIRIGYLLIFRYEGNSAF--SVYIF 95
                899999*****************999755..99*****************..**********************************9999..88777 PP
2B355.11.4e-17244337199
                 EEEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                 f  vl ps+  + ++++lp  fae++ +g++ + ++++   +  ++W v++    k gr  +++GW eF  +n+L egD++vF+l ++++f l+v++fr
  KFK39227.1 244 FRVVLRPSYLYRGCIMYLPSGFAEKYlSGIS-GFIKVQ---LAEKQWPVRC--LYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAFR 336
                 677899********************84442.444555...567*******..666666779************************99*******9998 PP

                 S CS
          B3  99 k 99 
                  
  KFK39227.1 337 V 337
                 5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-22397IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.63E-21397IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086314.579598IPR003340B3 DNA binding domain
SMARTSM010195.0E-17598IPR003340B3 DNA binding domain
CDDcd100175.33E-19596No hitNo description
PfamPF023628.6E-15596IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.105.3E-23236336IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.3E-22237338IPR015300DNA-binding pseudobarrel domain
CDDcd100171.95E-20242336No hitNo description
SMARTSM010198.1E-22244338IPR003340B3 DNA binding domain
PROSITE profilePS5086312.619244338IPR003340B3 DNA binding domain
PfamPF023625.1E-16244337IPR003340B3 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: 339 aa     Download sequence    Send to blast
MPRPFFHKLI FSSTIQEKRL RVPDKFVSKF KDELSVAVAL TVPDGHVWRV GLRKAENKIW  60
FHDGWQEFVD RYSIRIGYLL IFRYEGNSAF SVYIFNLSHS EINYHSTGLM DSAHNHFKRA  120
RLFEDLEDED AEVIYPSSVY PSTLPDSTAP ANKGYAGTAI QSLFTGPVKD EEATPTPKVP  180
KKRGRKKKNA DPEEINSSAP RDDDPENRSK FYESASARKR TVTAVERDRA INASKTFEPT  240
NPFFRVVLRP SYLYRGCIMY LPSGFAEKYL SGISGFIKVQ LAEKQWPVRC LYKAGRAKFS  300
QGWYEFTLEN NLGEGDVCVF ELLRTRDFVL KVTAFRVNE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A4e-8921033915144B3 domain-containing transcription factor VRN1
4i1k_B4e-8921033915144B3 domain-containing transcription factor VRN1
Search in ModeBase
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
PlantRegMapKFK39227.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3532690.0AK353269.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-34-E14.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006406545.10.0B3 domain-containing transcription factor VRN1
SwissprotQ8L3W10.0VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A087HAS50.0A0A087HAS5_ARAAL; B3 domain-containing transcription factor vrn1-like
STRINGA0A087HAS50.0(Arabis alpina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.10.0B3 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]