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 KHN25328.1
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; Phaseoleae; Glycine; Soja
Family B3
Protein Properties Length: 439aa    MW: 49911.8 Da    PI: 9.4767
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KHN25328.1genomeTCUHKView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.46.3e-19696197
                EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
          B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97
                f k l+ps v  +++l+lp +f++++gg+      +tl  ++g +W+v l  +k +++y++ +GWkeFvk   +  g  +vFk++g+s+f   v++f
  KHN25328.1  6 FHKLLLPSTVQPNQQLRLPDNFMRKYGGE--LLPIVTLSVPDGSVWRVGL--KKADNKYWFLDGWKEFVKHYSISIGYLLVFKYEGKSSF--SVHIF 96
                899***********************877..44599**************..*********************************99999..88887 PP

2B356.55.1e-18300390498
                 E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
          B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                 vl ps+  + ++++lp  fae+h +g++     ++l+ ++gr+W v++ yr+++    l++GW eF  +n+L egD++vF+l + +e  l v+vfr
  KHN25328.1 300 VLRPSYLYRGCIMYLPSCFAEKHlNGVSG---FIKLQISNGRQWPVRCLYRGGR--AKLSQGWFEFSLENNLGEGDVCVFELLRMKEVVLQVTVFR 390
                 78899******************877743...59**************665555..66***********************998889989999998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019365.89E-23297IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.5E-24397IPR015300DNA-binding pseudobarrel domain
CDDcd100173.65E-23497No hitNo description
PROSITE profilePS5086314.466699IPR003340B3 DNA binding domain
SMARTSM010197.4E-19699IPR003340B3 DNA binding domain
PfamPF023621.9E-16696IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.3E-24289390IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-24290390IPR015300DNA-binding pseudobarrel domain
CDDcd100171.13E-22295390No hitNo description
SMARTSM010194.6E-16297392IPR003340B3 DNA binding domain
PROSITE profilePS5086313.479297392IPR003340B3 DNA binding domain
PfamPF023629.4E-16300390IPR003340B3 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: 439 aa     Download sequence    Send to blast
MPHPSFHKLL LPSTVQPNQQ LRLPDNFMRK YGGELLPIVT LSVPDGSVWR VGLKKADNKY  60
WFLDGWKEFV KHYSISIGYL LVFKYEGKSS FSVHIFNLAT SEINYQSATR SSNEGLHFTN  120
RLKLFEEMED EDSIEISDSS PSHLAPSSLQ NQALTGSVDK MMPGKSYTPP ALQNLFNGSK  180
LNSINWGEGG NAHSSRIANS LDNRLTRDIG LQFNAVEFKR STEELKLRAS MEERMKKTTR  240
KKRKSDGQDP SAEHEEEVEM RLRFYESASA RKRTVTAEER ERAINAAKAF EPPNPFCRVV  300
LRPSYLYRGC IMYLPSCFAE KHLNGVSGFI KLQISNGRQW PVRCLYRGGR AKLSQGWFEF  360
SLENNLGEGD VCVFELLRMK EVVLQVTVFR VIEDVGLLSP PLQQNQNMSS AKMLNTPLQQ  420
HLTSTKMVRN QQQGDLSGT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7226339515146B3 domain-containing transcription factor VRN1
4i1k_B1e-7226339515146B3 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
PlantRegMapKHN25328.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU8574130.0EU857413.1 Glycine max reduced vernalization response 1 (VRN1) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028194626.10.0B3 domain-containing transcription factor VRN1-like isoform X2
SwissprotQ8L3W11e-132VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A445HKM50.0A0A445HKM5_GLYSO; B3 domain-containing transcription factor VRN1 isoform B
STRINGGLYMA12G05250.10.0(Glycine max)
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
AT1G49480.12e-74related to vernalization1 1
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. Qi X, et al.
    Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing.
    Nat Commun, 2014. 5: p. 4340
    [PMID:25004933]
  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]