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 XP_015902374.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rhamnaceae; Paliureae; Ziziphus
Family HB-other
Protein Properties Length: 286aa    MW: 32581.4 Da    PI: 4.5074
Description HB-other family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_015902374.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox20.86.5e-071771751
                    --HHHHHHHHHHHHH..SSS--HHHHHHHHHHC........TS-HHHHHHHHHHH CS
        Homeobox  7 ftkeqleeLeelFek..nrypsaeereeLAkkl........gLterqVkvWFqNr 51
                    ft +++ e+e+l+++  ++ +++e  ++ A+++        ++t +qV  WFqN+
  XP_015902374.1 17 FTLKEIVEMENLYKEvgEQSLDKEFCQDVAMSCkssragkpSITWEQVHKWFQNK 71
                    89999*********888*************************************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF000462.2E-41771IPR001356Homeobox domain
PfamPF167193.6E-40117244IPR032001SAWADEE domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006306Biological ProcessDNA methylation
GO:0006346Biological Processmethylation-dependent chromatin silencing
GO:0031047Biological Processgene silencing by RNA
GO:0003677Molecular FunctionDNA binding
GO:0003682Molecular Functionchromatin binding
Sequence ? help Back to Top
Protein Sequence    Length: 286 aa     Download sequence    Send to blast
MEEMSSSSEN WDSLSEFTLK EIVEMENLYK EVGEQSLDKE FCQDVAMSCK SSRAGKPSIT  60
WEQVHKWFQN KHEGLQAKST SPPAAFKLSV DLSGFSVLEE PESSQKPEGK GPTDISELAF  120
EAKSLKDNAW YDVASFLSYR VLCSGELEVR VRFSGFGKEE DEWVNVRNAV RERSIPLEPS  180
ECHKVNVGDL VLCFQDRENH AIYCDAHVIE IQRKFHDIGD CRCIFVVRYD EDYTVEKVHL  240
GRICSRPAGC DWSANTNILA ITDANTDTDT QQEMCVDEKL KLSFLY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4iup_A6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iup_B6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_A6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_B6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iur_A6e-601162472133SHH1 SAWADEE
4iur_B6e-601162472133SHH1 SAWADEE
4iut_A6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iut_B6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_A6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_B6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_A6e-601162472133SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_B6e-601162472133SAWADEE 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
PlantRegMapXP_015902374.1
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_015902374.10.0protein SAWADEE HOMEODOMAIN HOMOLOG 1-like isoform X2
SwissprotQ9XI477e-90SHH1_ARATH; Protein SAWADEE HOMEODOMAIN HOMOLOG 1
TrEMBLA0A2P5AJF41e-114A0A2P5AJF4_PARAD; SAWADEE domain containing protein
STRINGXP_010062522.11e-109(Eucalyptus grandis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18380.12e-54sequence-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. 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]
  4. 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]