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 Sof013107
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 MIKC_MADS
Protein Properties Length: 221aa    MW: 24695.3 Da    PI: 5.914
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-116400PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.62.1e-251059251
               ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
     SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
               rien   rqvt+skRr g++KKAeEL vLCda+va+++fs tgkl  ++s
  Sof013107 10 RIENAAARQVTYSKRRRGLFKKAEELAVLCDADVALLVFSATGKLSQFAS 59
               8*********************************************9986 PP
2K-box57.75e-20901711798
      K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                 q+ ++ L++++ +  + +R++ GedLe Ls++eL+q+e++Le +l ++ s+K++l+++qi+el +k  +l++en++L++++
  Sof013107  90 EQNRYTSLNEQLAEATHGLRQMRGEDLEGLSVEELHQMERKLEAGLHRVLSTKDQLFTQQISELHQKGTQLEDENRRLKEQM 171
                5888999999999999**************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006627.978161IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-34160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.92E-29375IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-23323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.8E-241057IPR002100Transcription factor, MADS-box
CDDcd002652.36E-321375No hitNo description
PRINTSPR004041.1E-232338IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-233859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.20287177IPR002487Transcription factor, K-box
PfamPF014861.6E-2090171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 221 aa     Download sequence    Send to blast
MARERREIRR IENAAARQVT YSKRRRGLFK KAEELAVLCD ADVALLVFSA TGKLSQFASS  60
SMNDIIDKYS THSKNLGKSH QQPPIDLNVE QNRYTSLNEQ LAEATHGLRQ MRGEDLEGLS  120
VEELHQMERK LEAGLHRVLS TKDQLFTQQI SELHQKGTQL EDENRRLKEQ MPQVRTAGTT  180
VVAAGAENIL TEDGQSSESV MTALHSGSSL DNDDGSDISL X
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-18173173MEF2C
5f28_B1e-18173173MEF2C
5f28_C1e-18173173MEF2C
5f28_D1e-18173173MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.131700.0bud| crown| inflorescence| leaf| meristem| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and developing panicles. {ECO:0000269|PubMed:14701936, ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002436710.11e-141MADS-box transcription factor 55
SwissprotQ69TG51e-105MAD55_ORYSJ; MADS-box transcription factor 55
TrEMBLC5Z6K51e-139C5Z6K5_SORBI; Uncharacterized protein
STRINGSb10g007380.11e-140(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.16e-46MIKC_MADS family protein
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]
  2. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  3. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]
  4. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]