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 Pavir.5KG680100.4.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: 193aa    MW: 21886.2 Da    PI: 10.2511
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG680100.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.65.1e-31959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++nrqvtf+kRrng+lKKA+ELS+LCdae+a++ifss+g+lyeys+
  Pavir.5KG680100.4.p  9 KRIENTTNRQVTFCKRRNGLLKKAYELSILCDAEIALVIFSSRGRLYEYST 59
                         79***********************************************96 PP
2K-box92.95.4e-3183168994
                K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                           + + +++ qqe+akL ++i++Lq++++hl+Ge++++++ keL+++e++Le+++ +iRskK+e+ll++ie++qk+  + +++ ++L
  Pavir.5KG680100.4.p  83 IDVNSHQYFQQEAAKLHQQIQTLQNSNKHLMGESIGNMTAKELRSIESRLERGIGRIRSKKHEMLLAEIEYMQKRVSSYSSDRQTL 168
                          566889**********************************************************************9999998887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004329.7E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.894161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.18E-32274IPR002100Transcription factor, MADS-box
CDDcd002651.33E-44275No hitNo description
PRINTSPR004041.2E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-323859IPR002100Transcription factor, MADS-box
PfamPF014866.0E-2485168IPR002487Transcription factor, K-box
PROSITE profilePS5129711.99988178IPR002487Transcription 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: 193 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSILCD AEIALVIFSS RGRLYEYSTN  60
SVRSTIERYK KASASTSGTA PVIDVNSHQY FQQEAAKLHQ QIQTLQNSNK HLMGESIGNM  120
TAKELRSIES RLERGIGRIR SKKHEMLLAE IEYMQKRVSS YSSDRQTLGA VVTWTNSELF  180
IIAIDIPPVL FI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-21173173Myocyte-specific enhancer factor 2B
1tqe_Q2e-21173173Myocyte-specific enhancer factor 2B
1tqe_R2e-21173173Myocyte-specific enhancer factor 2B
1tqe_S2e-21173173Myocyte-specific enhancer factor 2B
6c9l_A2e-21173173Myocyte-specific enhancer factor 2B
6c9l_B2e-21173173Myocyte-specific enhancer factor 2B
6c9l_C2e-21173173Myocyte-specific enhancer factor 2B
6c9l_D2e-21173173Myocyte-specific enhancer factor 2B
6c9l_E2e-21173173Myocyte-specific enhancer factor 2B
6c9l_F2e-21173173Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in developing seeds. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG680100.4.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
GenBankBT0621101e-162BT062110.1 Zea mays full-length cDNA clone ZM_BFb0215E12 mRNA, complete cds.
GenBankKJ7269311e-162KJ726931.1 Zea mays clone pUT3477 MADS transcription factor (MADS41) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817347.11e-108MADS-box transcription factor 21-like
SwissprotQ8RU311e-96MAD21_ORYSJ; MADS-box transcription factor 21
TrEMBLA0A3L6SJC71e-108A0A3L6SJC7_PANMI; MADS-box transcription factor 21
STRINGSi002551m1e-107(Setaria italica)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.12e-84MIKC_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. Dreni L, et al.
    The D-lineage MADS-box gene OsMADS13 controls ovule identity in rice.
    Plant J., 2007. 52(4): p. 690-9
    [PMID:17877710]