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 KHN39249.1
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 HB-other
Protein Properties Length: 273aa    MW: 30820 Da    PI: 5.1195
Description HB-other family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KHN39249.1genomeTCUHKView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox15.92.3e-051470751
                --HHHHHHHHHHHHH..SSS--HHHHHHHHHHC..........TS-HHHHHHHHHHH CS
    Homeobox  7 ftkeqleeLeelFek..nrypsaeereeLAkkl..........gLterqVkvWFqNr 51
                ++++++ eLe+ +e    + +++++  e+Ak+           +L+ +qV+ WF+N 
  KHN39249.1 14 LSSDEILELERIYEDmgGKVLNRKSCLEIAKRFssssngagktSLSWQQVRLWFKNN 70
                578999********6669*************************************95 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF167191.1E-38110237IPR032001SAWADEE domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003682Molecular Functionchromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 273 aa     Download sequence    Send to blast
MEKLGLTESP FPKLSSDEIL ELERIYEDMG GKVLNRKSCL EIAKRFSSSS NGAGKTSLSW  60
QQVRLWFKNN QRMLLGKDIS SSDLLKISAD LAESPLLGNG KGKQAAALDD LGFEARSTKD  120
IAWHDVSMFL NYRVLSTGEL EVRVRYAGFG KEQDEWMNVK LGVRERSIPL EPSECHKVKD  180
GDLVLCFLER EDYALYCDAR IVKIHRKIHD PTECTCTFIV RFVHDNTEEG VSFDRICCRP  240
TQEESACYPD LALDPTSSPS LNVTLNTIES LWG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4iup_A9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iup_B9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_A9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_B9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iur_A9e-571102423135SHH1 SAWADEE
4iur_B9e-571102423135SHH1 SAWADEE
4iut_A9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iut_B9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_A9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_B9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_A9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_B9e-571102423135SAWADEE HOMEODOMAIN HOMOLOG 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in RNA-directed DNA methylation (RdDM). Required for the silencing of some endogenous RdDM targets and accumulation of 24-nt siRNAs, but not for the production of Pol V-dependent transcripts. Functions in transcriptional silencing through both DNA methylation-dependent and -independent pathways. Required for both maintenance and de-novo DNA methylation. Plays a role in the recruitment of Pol IV to genomic regions associated with K9 methylated histone H3 that are targets for RdDM. {ECO:0000269|PubMed:21811420, ECO:0000269|PubMed:22064704, ECO:0000269|PubMed:23636332, ECO:0000269|PubMed:23637343}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKHN39249.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0934064e-48BT093406.1 Soybean clone JCVI-FLGm-17A20 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003529753.10.0protein SAWADEE HOMEODOMAIN HOMOLOG 1
RefseqXP_014633130.10.0protein SAWADEE HOMEODOMAIN HOMOLOG 1
RefseqXP_028238897.10.0protein SAWADEE HOMEODOMAIN HOMOLOG 1-like
RefseqXP_028238898.10.0protein SAWADEE HOMEODOMAIN HOMOLOG 1-like
SwissprotQ9XI476e-74SHH1_ARATH; Protein SAWADEE HOMEODOMAIN HOMOLOG 1
TrEMBLA0A445JQV20.0A0A445JQV2_GLYSO; Protein SAWADEE HOMEODOMAIN-like 1 isoform A
TrEMBLI1KGJ40.0I1KGJ4_SOYBN; Uncharacterized protein
STRINGGLYMA07G01880.30.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF27041415
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18380.15e-47sequence-specific DNA binding transcription factors;sequence-specific DNA binding
Publications ? help Back to Top
  1. Liu J, et al.
    An atypical component of RNA-directed DNA methylation machinery has both DNA methylation-dependent and -independent roles in locus-specific transcriptional gene silencing.
    Cell Res., 2011. 21(12): p. 1691-700
    [PMID:22064704]
  2. Law JA, et al.
    Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1.
    Nature, 2013. 498(7454): p. 385-9
    [PMID:23636332]
  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. Ma L, et al.
    Angiosperms Are Unique among Land Plant Lineages in the Occurrence of Key Genes in the RNA-Directed DNA Methylation (RdDM) Pathway.
    Genome Biol Evol, 2015. 7(9): p. 2648-62
    [PMID:26338185]
  5. Wang F,Axtell MJ
    AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V-dependent loci in Arabidopsis thaliana.
    Plant J., 2017. 90(1): p. 37-47
    [PMID:28002617]