PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID KHN43730.1
Organism
Glycine soja
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: 909aa    MW: 100820 Da    PI: 6.7299
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KHN43730.1genomeTCUHKView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B356.45.6e-18326425198
                 EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                 f+k l+ sd+++ grlvlpk +ae++   ++++e+  l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++l ++
  KHN43730.1 326 FEKMLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWMFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRMD-PEGKLIMG 422
                 89**************************555567778***************9989999999***9.********************876.77777777 PP

                 EE- CS
          B3  96 vfr 98 
                 +++
  KHN43730.1 423 FRK 425
                 765 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.6E-29319434IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.15E-18323426IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-21324425No hitNo description
PfamPF023621.6E-15326425IPR003340B3 DNA binding domain
PROSITE profilePS5086311.166326427IPR003340B3 DNA binding domain
SMARTSM010191.2E-19326426IPR003340B3 DNA binding domain
PROSITE profilePS5105013.329591641IPR011124Zinc finger, CW-type
PfamPF074961.3E-9596638IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 909 aa     Download sequence    Send to blast
MESRSCMNVA CATSTTIRWR KGWALRSGEF ADLCDKCGSA YEQSTYCDMF HSNDSGWREC  60
TSCDKRLHCG CIASMSQLEL LDTGGVSCIS CARNSGLQPI ANNEKPNGSG TSKVQNVSTQ  120
QQYTSLANQL TVRGMQVGHY AENDGLRCWF KPHNVETDGP SAEMKPEILP SVGELGNTLI  180
SQFHCESNGS SKASKAENCK AETEMRDIYE SLAQTNLSMT LAAPLGNSNP FHSAVVDERE  240
QSKTSPLLLG SRSRHLLPKP PRSTIGTSLE ANAGMVSQIR VARPPAEGRG RNQLLPRYWP  300
RITDQELQQI SGEYPAFSNS TIVPLFEKML SASDAGRIGR LVLPKACAEA YFPPISQPEG  360
LPLRIQDVKG KEWMFQFRFW PNNNSRMYVL EGVTPCIQSM QLQAGDTVTF SRMDPEGKLI  420
MGFRKATNST AVQETLPSNM PNGSHSSETS YSGVYENLPI LSGYSGLLQS QKGCSETHLN  480
ALSKKWNSAG GDMNWHNIDM PESRKRDGLP LPPVMVPEKK RTRNIGSKSK RLLIDSQDAL  540
ELKLTWEEAQ DLLRPPPTVK PSIVMIEDHV FEEYEEPPVF GKRSIFVVRS TGVNEQWMQC  600
DSCSKWRKLP VDALIPPKWT CVENLWDQSR CSCAAPNELN PRELDNLLRL NKEFKKQRLT  660
ASQRPALERE SSGLDALANA AILGDDASDS GRTPVVTTTK HPRHRPGCSC IVCIQPPSGK  720
GKHKPTCTCN VCMTVKRRFK TLMMRKKKRQ SEREAEIAQR NQLSWRTKDE SEVDSTSRHL  780
TPVDGLENEV RVQNELDSRS PDDAVAEAAK GQLDLNCQPD REDVQAGPNS LSMTSLLEEA  840
NLPLETYLKQ NGLTSLITEQ QTNSASNVQA QTTNDSEVKH NEDCGTASVI HAQESSPEEN  900
SGQDKEQNN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9a_A6e-673004332131B3 domain-containing transcription repressor VAL1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1735746KRRFKTLMMRKK
2735748KRRFKTLMMRKKKR
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2. {ECO:0000269|PubMed:17158584, ECO:0000269|PubMed:17267611}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKHN43730.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150420.0AP015042.1 Vigna angularis var. angularis DNA, chromosome 9, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028224300.10.0B3 domain-containing transcription repressor VAL2-like isoform X1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
SwissprotQ6Z3U30.0Y7797_ORYSJ; B3 domain-containing protein Os07g0679700
TrEMBLA0A0B2SFE80.0A0A0B2SFE8_GLYSO; B3 domain-containing protein
STRINGGLYMA03G04330.20.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF110183239
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G32010.10.0HSI2-like 1
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Jia H,McCarty DR,Suzuki M
    Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression.
    Plant Physiol., 2013. 163(3): p. 1293-305
    [PMID:24043445]
  3. 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]
  4. Chhun T, et al.
    HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth.
    Plant Cell Physiol., 2016. 57(8): p. 1689-706
    [PMID:27335347]
  5. Yuan W, et al.
    A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis.
    Nat. Genet., 2016. 48(12): p. 1527-1534
    [PMID:27819666]
  6. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]