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 Cla015934
Organism
Citrullus lanatus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus
Family MYB_related
Protein Properties Length: 654aa    MW: 70759 Da    PI: 4.3955
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cla015934genomeICuGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding36.31.3e-11142183245
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      g+WT +E +ll++a +++  + W+ Ia+++  ++t  qc++++ 
        Cla015934 142 GKWTDQETLLLLEALELYKEN-WNEIAEHVA-TKTKAQCILHFI 183
                      89*****************88.*********.**********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS509348.921121IPR007526SWIRM domain
SMARTSM002911.5E-1081125IPR000433Zinc finger, ZZ-type
PROSITE profilePS501359.36181127IPR000433Zinc finger, ZZ-type
SuperFamilySSF578502.71E-1183131No hitNo description
PfamPF005694.2E-984119IPR000433Zinc finger, ZZ-type
CDDcd023362.77E-2185129No hitNo description
PROSITE patternPS01357087113IPR000433Zinc finger, ZZ-type
Gene3DG3DSA:1.10.10.602.2E-8138182IPR009057Homeodomain-like
PROSITE profilePS5129322.149139190IPR017884SANT domain
SuperFamilySSF466897.48E-13139192IPR009057Homeodomain-like
SMARTSM007172.7E-12140188IPR001005SANT/Myb domain
PfamPF002492.2E-11142184IPR001005SANT/Myb domain
CDDcd001670.00102160185No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 654 aa     Download sequence    Send to blast
MEFLDHWGLI NFHPFLAADS ISTNDVDDEN QKDSLVEKLF HFETLESCPS IVPKINATTA  60
APPRLLRESA ISEEMVRPEG PSVEYHCNSC SADCSRKRYH CQKQADFDLC SECFNNGKFD  120
SDMSSSDFIL MESAGVPGAS GGKWTDQETL LLLEALELYK ENWNEIAEHV ATKTKAQCIL  180
HFIQMPIEDT FLESEGNVEV SAKETIVPPI IEKDSSAPSD ITGSMDNKAA GKEASNVETA  240
SKEDTGEVKV GQDNSKSEDV EGKASLDNSK SEDGDQKVSE DIALNALREA FEAIGYVLTP  300
EHSLSFADVG NPVMALAAFL ARLVGSDVAS ASAHFSLKSI SQKSPSLDLA TRNCFILEDP  360
PDDKKAQTNS ESIDNVEAPK NDKEQSAKQR EDNSTSVLDD GAVSTNNSNN KSGESVTKGT  420
TENGNSSDAI REHNPIINHG SDKTSNLKEL GEPELPKGVK TGIVKESENL ESKLTSNPVE  480
KLGEGTPVEK PSQSTLSSKD VHMSDLQHAE KSEIQKQAPS HSAKTSKELN DEPNHLPSGD  540
EPQPIISANC VKEASNDVAM VSDSHNKNEP RQTETSKSAV DQGASKVSDS LPSAENATPQ  600
SVKPNSVVER GAGTCPIIIL YFLNLPPVQV TFFNFAKKLF EASKACTFQE DGEC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2yus_A2e-111381931470SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtComponent of a multiprotein complex equivalent of the SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankLN6818000.0LN681800.1 Cucumis melo genomic scaffold, anchoredscaffold00017.
GenBankLN7132550.0LN713255.1 Cucumis melo genomic chromosome, chr_1.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008447039.10.0PREDICTED: SWI/SNF complex subunit SWI3D
SwissprotQ8VY051e-112SWI3D_ARATH; SWI/SNF complex subunit SWI3D
TrEMBLA0A1S3BH300.0A0A1S3BH30_CUCME; SWI/SNF complex subunit SWI3D
STRINGXP_008447039.10.0(Cucumis melo)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF590822
Publications ? help Back to Top
  1. Sarnowski TJ,Swiezewski S,Pawlikowska K,Kaczanowski S,Jerzmanowski A
    AtSWI3B, an Arabidopsis homolog of SWI3, a core subunit of yeast Swi/Snf chromatin remodeling complex, interacts with FCA, a regulator of flowering time.
    Nucleic Acids Res., 2002. 30(15): p. 3412-21
    [PMID:12140326]
  2. Zhou C,Miki B,Wu K
    CHB2, a member of the SWI3 gene family, is a global regulator in Arabidopsis.
    Plant Mol. Biol., 2003. 52(6): p. 1125-34
    [PMID:14682613]
  3. Sarnowski TJ, et al.
    SWI3 subunits of putative SWI/SNF chromatin-remodeling complexes play distinct roles during Arabidopsis development.
    Plant Cell, 2005. 17(9): p. 2454-72
    [PMID:16055636]
  4. Liu ZW, et al.
    The SET domain proteins SUVH2 and SUVH9 are required for Pol V occupancy at RNA-directed DNA methylation loci.
    PLoS Genet., 2014. 10(1): p. e1003948
    [PMID:24465213]
  5. Liu ZW, et al.
    Two Components of the RNA-Directed DNA Methylation Pathway Associate with MORC6 and Silence Loci Targeted by MORC6 in Arabidopsis.
    PLoS Genet., 2016. 12(5): p. e1006026
    [PMID:27171427]