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 Pahal.E04366.1
Organism
Panicum hallii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family MIKC_MADS
Protein Properties Length: 298aa    MW: 33600.1 Da    PI: 9.7874
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.E04366.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.92.1e-313685150
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  Pahal.E04366.1 36 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 85
                    79***********************************************8 PP
2K-box98.59.7e-331042014100
           K-box   4 ssgks.leeakaeslqqelakLkkeienLq.reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                     s++   ++e +a+++qqe+akL++ i++Lq ++ R l+G+ ++++s+++L+qLe +Lek++ kiR++Knell++++e++qk+e +lq++n++Lr+
  Pahal.E04366.1 104 SNS-GtVAEVNAQHYQQESAKLRQTISSLQnSNSRTLVGDAIHTMSVRDLKQLEIRLEKGIAKIRARKNELLYAEVEYMQKREMDLQSDNMYLRS 197
                     333.25999*********************9899************************************************************* PP

           K-box  97 klee 100
                     k++e
  Pahal.E04366.1 198 KVAE 201
                     *986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.2212888IPR002100Transcription factor, MADS-box
SMARTSM004323.3E-412887IPR002100Transcription factor, MADS-box
CDDcd002651.79E-4629102No hitNo description
SuperFamilySSF554555.62E-3329100IPR002100Transcription factor, MADS-box
PROSITE patternPS0035003084IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-333050IPR002100Transcription factor, MADS-box
PfamPF003191.2E-263784IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-335065IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-336586IPR002100Transcription factor, MADS-box
PfamPF014861.1E-22113199IPR002487Transcription factor, K-box
PROSITE profilePS5129713.381114205IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048366Biological Processleaf development
GO:0048440Biological Processcarpel development
GO:0048443Biological Processstamen development
GO:0048497Biological Processmaintenance of floral organ identity
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: 298 aa     Download sequence    Send to blast
MLNMMADLSC GSSKVKEQPA PTGSGDKPGR GKIEIKRIEN TTNRQVTFCK RRNGLLKKAY  60
ELSVLCDAEV ALIVFSSRGR LYEYANNSVK ATIERYKKAN SDTSNSGTVA EVNAQHYQQE  120
SAKLRQTISS LQNSNSRTLV GDAIHTMSVR DLKQLEIRLE KGIAKIRARK NELLYAEVEY  180
MQKREMDLQS DNMYLRSKVA ENNERGQPPM NMMGAPSTSE YDHMVPYDSR NFLQVNIMQQ  240
PQHYSHQLQP TTLQLGRRGC PKVVSTHARG YYHVSNRDYI TLNVCGTNNH IVTSTSV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A9e-2129115190Myocyte-specific enhancer factor 2A
3kov_B9e-2129115190Myocyte-specific enhancer factor 2A
3kov_I9e-2129115190Myocyte-specific enhancer factor 2A
3kov_J9e-2129115190Myocyte-specific enhancer factor 2A
3p57_A9e-2129115190Myocyte-specific enhancer factor 2A
3p57_B9e-2129115190Myocyte-specific enhancer factor 2A
3p57_C9e-2129115190Myocyte-specific enhancer factor 2A
3p57_D9e-2129115190Myocyte-specific enhancer factor 2A
3p57_I9e-2129115190Myocyte-specific enhancer factor 2A
3p57_J9e-2129115190Myocyte-specific enhancer factor 2A
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. Acts as C-class protein in association with MADS58. Involved in the control of lodicule number (whorl 2), stamen specification (whorl 3) and floral meristem determinacy (whorl 4), but not in the regulation of carpel morphogenesis. Plays a more predominant role in controlling lodicule development and in specifying stamen identity than MADS58. {ECO:0000269|PubMed:11828031, ECO:0000269|PubMed:16326928, ECO:0000269|PubMed:9869408}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00609ChIP-seqTransfer from AT4G18960Download
Motif logo
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9608100.0EU960810.1 Zea mays clone 228787 MADS-box transcription factor 3 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025816638.10.0MADS-box transcription factor 3 isoform X1
SwissprotQ407041e-152MADS3_ORYSJ; MADS-box transcription factor 3
TrEMBLA0A2S3HYY70.0A0A2S3HYY7_9POAL; Uncharacterized protein
STRINGPavir.Ea00226.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64937144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.11e-103MIKC_MADS family protein
Publications ? help Back to Top
  1. Kyozuka J,Shimamoto K
    Ectopic expression of OsMADS3, a rice ortholog of AGAMOUS, caused a homeotic transformation of lodicules to stamens in transgenic rice plants.
    Plant Cell Physiol., 2002. 43(1): p. 130-5
    [PMID:11828031]
  2. 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]