PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5NG045000.5.p
Organism
Panicum virgatum
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: 242aa    MW: 27153.8 Da    PI: 9.8713
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG045000.5.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.31.5e-313685150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  Pavir.5NG045000.5.p 36 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 85
                         79***********************************************8 PP
2K-box72.61.1e-24104190490
                K-box   4 ssgks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                          s++   ++e +a+++qqe+akL++ i++Lq+++R l+G+ ++++sl++L+qLe +Lek++ kiR++K+  l +   +l+ k  e++e+
  Pavir.5NG045000.5.p 104 SNS-GtVAEVNAQHYQQESAKLRQTISSLQNSNRTLVGDAIQTMSLRDLKQLEGRLEKGIAKIRARKEMDLQSDNMYLRSKVAENNER 190
                          233.25999************************************************************************9998875 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
CDDcd002656.57E-4729102No hitNo description
SuperFamilySSF554553.66E-3329100IPR002100Transcription factor, MADS-box
PROSITE patternPS0035003084IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-333050IPR002100Transcription factor, MADS-box
PfamPF003198.9E-273784IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-335065IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-336586IPR002100Transcription factor, MADS-box
PfamPF014864.9E-17113187IPR002487Transcription factor, K-box
PROSITE profilePS5129710.692114201IPR002487Transcription 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: 242 aa     Download sequence    Send to blast
MLNMMADLSC GSSKVKEQQA PTGSGDKPGR GKIEIKRIEN TTNRQVTFCK RRNGLLKKAY  60
ELSVLCDAEV ALIVFSSRGR LYEYANNSVK ATIERYKKAN SDTSNSGTVA EVNAQHYQQE  120
SAKLRQTISS LQNSNRTLVG DAIQTMSLRD LKQLEGRLEK GIAKIRARKE MDLQSDNMYL  180
RSKVAENNER GQLPMNMMGA PSTSEYDHMA PYDSRNFLQV NIMQQPQHYS HQLQPTTLQL  240
G*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A3e-2129115190Myocyte-specific enhancer factor 2A
3kov_B3e-2129115190Myocyte-specific enhancer factor 2A
3kov_I3e-2129115190Myocyte-specific enhancer factor 2A
3kov_J3e-2129115190Myocyte-specific enhancer factor 2A
3p57_A3e-2129115190Myocyte-specific enhancer factor 2A
3p57_B3e-2129115190Myocyte-specific enhancer factor 2A
3p57_C3e-2129115190Myocyte-specific enhancer factor 2A
3p57_D3e-2129115190Myocyte-specific enhancer factor 2A
3p57_I3e-2129115190Myocyte-specific enhancer factor 2A
3p57_J3e-2129115190Myocyte-specific enhancer factor 2A
5f28_A4e-2129115291MEF2C
5f28_B4e-2129115291MEF2C
5f28_C4e-2129115291MEF2C
5f28_D4e-2129115291MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.43541e-149leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at early stage of flower development in stamen anlagen before stamen initiation, and at later stage in lodicule and ovule primordia initiation region. {ECO:0000269|PubMed:10945340, ECO:0000269|PubMed:16326928}.
UniprotTISSUE SPECIFICITY: Expressed in lemmas, paleas and lodicules. {ECO:0000269|PubMed:10945340}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5NG045000.5.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU9608101e-172EU960810.1 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_025816639.11e-170MADS-box transcription factor 3 isoform X2
SwissprotQ407041e-136MADS3_ORYSJ; MADS-box transcription factor 3
TrEMBLA0A3L6R3C71e-171A0A3L6R3C7_PANMI; MADS-box transcription factor 3 isoform X1
STRINGPavir.Ea00226.1.p1e-168(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.12e-92MIKC_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]