PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_008228434.1
Organism
Prunus mume
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus
Family HB-other
Protein Properties Length: 280aa    MW: 32349.2 Da    PI: 5.6206
Description HB-other family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_008228434.1genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox19.51.7e-061976651
                    S--HHHHHHHHHHHHH..SSS--HHHHHHHHHHC..........TS-HHHHHHHHHHH CS
        Homeobox  6 tftkeqleeLeelFek..nrypsaeereeLAkkl..........gLterqVkvWFqNr 51
                     ft++++ e+e+l +   ++ +s+e  ++LA++           ++t +qV+ WFqN+
  XP_008228434.1 19 VFTHSEIMEMENLIKHprQQSLSQEFFQDLATSFsctpiragkpDITWEQVQSWFQNK 76
                    69***********99555***************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS500718.6971183IPR001356Homeobox domain
PfamPF167198.5E-40123250IPR032001SAWADEE domain
SuperFamilySSF541602.29E-5139177IPR016197Chromo domain-like
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: 280 aa     Download sequence    Send to blast
MDMELFRTRK REPMNSLSVF THSEIMEMEN LIKHPRQQSL SQEFFQDLAT SFSCTPIRAG  60
KPDITWEQVQ SWFQNKQKEL QANSNSSPTA LELFVDLSDS NVSSNATENS QKPKGKWITE  120
LHELAFEARS AKDDAWYDVA SFLSYRVVNS GELEVRVRYS GFGREDDEWV NVTRAVRERS  180
IPLEASECHK VKVGDLVLSF QEREHQAVYC DAHVVDIQRG LHAVTGCKCI FVVRFDHDNT  240
EEEIQLGRLC IRPAQNTSAV TNTQQHDLFR NKDMKFSFLY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4iup_A3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iup_B3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_A3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuq_B3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iur_A3e-581232553135SHH1 SAWADEE
4iur_B3e-581232553135SHH1 SAWADEE
4iut_A3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iut_B3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_A3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuu_B3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_A3e-581232553135SAWADEE HOMEODOMAIN HOMOLOG 1
4iuv_B3e-581232553135SAWADEE 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_008228434.1
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_008228434.10.0PREDICTED: protein SAWADEE HOMEODOMAIN HOMOLOG 1
RefseqXP_016649124.10.0PREDICTED: protein SAWADEE HOMEODOMAIN HOMOLOG 1
SwissprotQ9XI473e-83SHH1_ARATH; Protein SAWADEE HOMEODOMAIN HOMOLOG 1
TrEMBLA0A251PW330.0A0A251PW33_PRUPE; Uncharacterized protein
STRINGXP_008228433.10.0(Prunus mume)
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
AT3G18380.11e-58sequence-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]