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 Csa19g026440.1
Organism
Camelina sativa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
Family B3
Protein Properties Length: 509aa    MW: 58142.9 Da    PI: 9.8683
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Csa19g026440.1genomeCSGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.79e-18595197
                    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
  Csa19g026440.1  5 FFHKLIFSSTIQEKRLRVPDKFVSKFKDE--LSVAVALTVPDGHVWRVGL--RKADNKIWFQDGWQEFVDRYSIRIGYLLIFRYEGNSAF--SVYIF 95
                    899999*****************999755..99*****************..**********************************9999..88777 PP
2B354.22.7e-17411504199
                     EEEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                     f  vl ps+  + ++++lp  fae++ +g++ + ++++   +  ++W v++    k gr  +++GW eF  +n+L egD++vF+l ++++f l+v
  Csa19g026440.1 411 FRVVLRPSYLYRGCIMYLPSGFAEKYlSGIS-GFIKVQ---LAEKQWPVRC--LYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKV 499
                     677899********************84442.444555...567*******..666666779************************99******* PP

                     EEE-S CS
              B3  95 kvfrk 99 
                     ++fr 
  Csa19g026440.1 500 TAFRV 504
                     99986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.04E-21397IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-22397IPR015300DNA-binding pseudobarrel domain
CDDcd100176.42E-19596No hitNo description
SMARTSM010192.7E-17598IPR003340B3 DNA binding domain
PROSITE profilePS5086314.663598IPR003340B3 DNA binding domain
PfamPF023626.0E-15596IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.104.7E-12236307IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.37E-11237307IPR015300DNA-binding pseudobarrel domain
CDDcd100175.27E-10242306No hitNo description
SMARTSM010190.15244319IPR003340B3 DNA binding domain
PROSITE profilePS508636.287244306IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.1E-22403503IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.0E-21404505IPR015300DNA-binding pseudobarrel domain
CDDcd100172.43E-20409503No hitNo description
SMARTSM010197.5E-22411505IPR003340B3 DNA binding domain
PROSITE profilePS5086312.619411505IPR003340B3 DNA binding domain
PfamPF023621.1E-15411504IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 509 aa     Download sequence    Send to blast
MPRPFFHKLI FSSTIQEKRL RVPDKFVSKF KDELSVAVAL TVPDGHVWRV GLRKADNKIW  60
FQDGWQEFVD RYSIRIGYLL IFRYEGNSAF SVYIFNLSHS EINYHSTGLM DSAHNHFKRA  120
RLFEDLEDED AEVIYPSSLY PSTLPESTVP ANKGYTSSAI QSLFTGSVKA EESMATPKIP  180
KKRGRKKKNA DPEEINSSAP RDDDPENRSK FYESASARKR TVTAEERERA INAAKTFEPT  240
NPFFRVVLRP SYLYRGCIMY LPSGFAEKYL SGISGFIKVQ LAEKQWPVRC LYKAGRAKFS  300
QGWYEFTLXT LPESTVPANK GYTSSAIQSL FTGSVKAEES MATPKIPKKR GRKKKNADPE  360
EINSSAPRDD DPENRSKFYE SASARKRTVT AEERERAINA AKTFEPTNPF FRVVLRPSYL  420
YRGCIMYLPS GFAEKYLSGI SGFIKVQLAE KQWPVRCLYK AGRAKFSQGW YEFTLENNLG  480
EGDVCVFELL RTRDFVLKVT AFRVSEYV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A9e-9021050815146B3 domain-containing transcription factor VRN1
4i1k_B9e-9021050815146B3 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
PlantRegMapCsa19g026440.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4936200.0AB493620.1 Arabidopsis thaliana At3g18990 mRNA for hypothetical protein, partial cds, clone: RAAt3g18990.
GenBankAF2890520.0AF289052.1 Arabidopsis thaliana reduced vernalization response 1 (VRN1) mRNA, VRN1-Ler allele, complete cds.
GenBankAK2303880.0AK230388.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL25-06-L05.
GenBankBT0247310.0BT024731.1 Arabidopsis thaliana At3g18990 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010487822.10.0PREDICTED: B3 domain-containing transcription factor VRN1 isoform X2
RefseqXP_010487823.10.0PREDICTED: B3 domain-containing transcription factor VRN1 isoform X3
RefseqXP_010487824.10.0PREDICTED: B3 domain-containing transcription factor VRN1 isoform X4
RefseqXP_019096986.10.0PREDICTED: B3 domain-containing transcription factor VRN1 isoform X1
SwissprotQ8L3W10.0VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLR0I3550.0R0I355_9BRAS; Uncharacterized protein
STRINGXP_010487822.10.0(Camelina sativa)
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]