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 Sof001340
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family MYB_related
Protein Properties Length: 565aa    MW: 63453 Da    PI: 7.555
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17233865PU_unrefUnigeneView CDS
PUT-157a-Saccharum_officinarum-1075133734PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding33.87.8e-11111151445
                      S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS
  Myb_DNA-binding   4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 
                      W ++E+ ll+++++++G g+W  +a+++g +++  qc++++ 
        Sof001340 111 WNADEEILLLEGIEMYGLGNWLEVAEHVG-TKSKLQCIDHYT 151
                      *****************************.**********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0250244.1E-17438561IPR016827Transcriptional adaptor 2
SMARTSM002911.6E-104792IPR000433Zinc finger, ZZ-type
PfamPF005693.2E-94990IPR000433Zinc finger, ZZ-type
CDDcd023352.49E-265199No hitNo description
PROSITE profilePS5013510.8245194IPR000433Zinc finger, ZZ-type
SuperFamilySSF578502.71E-1451114No hitNo description
PROSITE patternPS0135705380IPR000433Zinc finger, ZZ-type
SuperFamilySSF466893.59E-12104157IPR009057Homeodomain-like
PROSITE profilePS5129321.633106158IPR017884SANT domain
SMARTSM007175.0E-10107156IPR001005SANT/Myb domain
PfamPF002498.6E-11110151IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.0E-7111153IPR009057Homeodomain-like
CDDcd001671.06E-10111152No hitNo description
SuperFamilySSF466898.78E-21469554IPR009057Homeodomain-like
PROSITE profilePS509349.524474565IPR007526SWIRM domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006357Biological Processregulation of transcription from RNA polymerase II promoter
GO:0016573Biological Processhistone acetylation
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 565 aa     Download sequence    Send to blast
MGRSRGVPNS GDDDTGHRSK RRRVSSGGDA TDSISAAIGG AGEGGGKKAL YHCNYCNKDI  60
SGKIRIKCSK CPDFDLCVEC FSVGAEVTPH RSNHPYRVMD NLSFPLICPD WNADEEILLL  120
EGIEMYGLGN WLEVAEHVGT KSKLQCIDHY TTAYMNSPCY PLPDMSHVNG KNRKELLAMA  180
KVQGETKKGT SLLPGELTPK AESPFSPSRV KMEDALGEGL ASRSPSHIAV GANKKASNVG  240
QIKDGANVSK VEDGHVDRSV GVKKPRYSAD EGPSLTELSG YNAKRHEFDP EYDNDAEQAL  300
AEMEFKETDS ETDRELKLRV LHIYLSRLEE RKRRKEFILE RNLLFPNPLE KDLTNEDREV  360
YHRYKVFMRF LSKEEHEALI RSVIEERKIR RRIQELQECR SAGCRTLAEA KIHIEQKRKK  420
EYELNAQKAK ESSHLIANNK LVQKMNRPMK IESDGNLDPK KGGAGLDSPK TTGLTSVKQW  480
DDWDIVGLPG AELLSASEKL LCCQNRLLPS HYLRMQEVLM QEIFKGSVLK KEDAHVLFKV  540
DPTKVDSVYD MVTKKLGNHE EAPTV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6cw2_C3e-38511665120Transcriptional adapter 2
6cw3_E3e-38511665120Transcriptional adapter 2
6cw3_G3e-38511665120Transcriptional adapter 2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11923KRRRV
2330335RKRRKE
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.8460.0bud| callus| crown| inflorescence| leaf| root| seed| stem
Functional Description ? help Back to Top
Source Description
UniProtRequired for the function of some acidic activation domains, which activate transcription from a distant site. The exact mechanism of action is not yet known. ADA2 and GCN5 function to acetylate nucleosomes, opening up the promoter region (By similarity). {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002463870.10.0transcriptional adapter ADA2
SwissprotQ75LL60.0TADA2_ORYSJ; Transcriptional adapter ADA2
TrEMBLC5X0B40.0C5X0B4_SORBI; Transcriptional adapter
STRINGSb01g007950.10.0(Sorghum bicolor)
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]