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 maker-scaffold06912-snap-gene-0.15-mRNA-1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
Family B3
Protein Properties Length: 418aa    MW: 48161.7 Da    PI: 9.028
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
maker-scaffold06912-snap-gene-0.15-mRNA-1genomeTHGPView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B351.71.5e-16696298
                                               EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHH CS
                                         B3  2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvka 71
                                               f +l+ s + +s++l++p kf+ +   +   s  +tl  ++g +W+v l  +k +++ ++ +GW++Fv+ 
  maker-scaffold06912-snap-gene-0.15-mRNA-1  6 FHKLILSTTIQSKQLRIPEKFVMKVRDD--LSPVVTLSVPDGHVWQVGL--KKVDSSAWFHNGWQDFVEH 71
                                               5567788999999*********999655..5668***************..999999************* PP

                                               HT--TT-EEEEEE-SSSEE..EEEEE- CS
                                         B3 72 ngLkegDfvvFkldgrsefelvvkvfr 98
                                                 +++g f+vF+++g+s+f  +v++f+
  maker-scaffold06912-snap-gene-0.15-mRNA-1 72 YSIRVGYFLVFRYEGNSSF--FVHIFN 96
                                               ****************999..999986 PP

2B356.35.7e-18303384489
                                                E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHH CS
                                         B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvk 70 
                                                vl ps+  + ++++lp  fae++ +g++     ++l++++gr+W v++ yr+++    l++GW eF  
  maker-scaffold06912-snap-gene-0.15-mRNA-1 303 VLRPSYLYRGCIMYLPSCFAEKNlSGVSG---FIKLQTSEGRQWPVRCLYRGGR--AKLSQGWYEFSL 365
                                                78899******************866743...5***************665555..66********** PP

                                                HHT--TT-EEEEEE-SSSE CS
                                         B3  71 angLkegDfvvFkldgrse 89 
                                                +n+L egD++vF+l + +e
  maker-scaffold06912-snap-gene-0.15-mRNA-1 366 ENNLGEGDVCVFELLKMRE 384
                                                *************876444 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.4E-22396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.12E-22396IPR015300DNA-binding pseudobarrel domain
CDDcd100171.62E-19496No hitNo description
PROSITE profilePS5086313.902598IPR003340B3 DNA binding domain
SMARTSM010194.6E-16698IPR003340B3 DNA binding domain
PfamPF023621.2E-13796IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.1E-23292391IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.05E-23293392IPR015300DNA-binding pseudobarrel domain
CDDcd100173.24E-20298393No hitNo description
PROSITE profilePS5086313.451300393IPR003340B3 DNA binding domain
SMARTSM010196.7E-17300395IPR003340B3 DNA binding domain
PfamPF023624.1E-16303388IPR003340B3 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: 418 aa     Download sequence    Send to blast
MPRPYFHKLI LSTTIQSKQL RIPEKFVMKV RDDLSPVVTL SVPDGHVWQV GLKKVDSSAW  60
FHNGWQDFVE HYSIRVGYFL VFRYEGNSSF FVHIFNLANS EVNYQNNTPG GPQGISYASH  120
YRVFEEMEDD DFTEILSSTP TTESLKNKLF GERGDLLTPN KSYNPPSLQN LFNGSKLKNC  180
LNWAGDGNMH PSKGVDKSPS EIHHTREIGV QFNATELKKS LDEVKLQSAD QEIQKLKKTM  240
RKKRKNDPNE QESSARHEEE IDMRFRFYES ASARKRTVTA EERERAINAA KAFEPTNPFC  300
RVVLRPSYLY RGCIMYLPSC FAEKNLSGVS GFIKLQTSEG RQWPVRCLYR GGRAKLSQGW  360
YEFSLENNLG EGDVCVFELL KMREIVLKVT TYRVLDDNGL VVNQPLMQHV NHLKLIRN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7326639415142B3 domain-containing transcription factor VRN1
4i1k_B2e-7326639415142B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1235244LKKTMRKKRK
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023874360.10.0B3 domain-containing transcription factor VRN1-like
SwissprotQ8L3W11e-138VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A2I4DLF30.0A0A2I4DLF3_JUGRE; B3 domain-containing transcription factor VRN1-like isoform X1
STRINGXP_010096266.10.0(Morus notabilis)
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-137B3 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]