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 676773852
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family M-type_MADS
Protein Properties Length: 1031aa    MW: 117813 Da    PI: 7.26
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676773852genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF44.71.7e-14855900650
                HHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEE.EEEE CS
     SRF-TF   6 ksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgkl.yeys 50 
                ks +++ +  R ++i+KKA+ELS+LCd ev+vi +  +g+l  +++
  676773852 855 KSSKNTNLLLREKTIFKKASELSTLCDNEVCVIHYDRNGNLvNTWP 900
                5667788899****************************98725676 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF484528.72E-859213IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS513759.7016393IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.101.2E-1066266IPR011990Tetratricopeptide-like helical domain
TIGRFAMsTIGR007562.9E-46792IPR002885Pentatricopeptide repeat
PfamPF015353.5E-56792IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.73794128IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.8E-996127IPR002885Pentatricopeptide repeat
PfamPF015351.7E-996125IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007565.0E-8127158IPR002885Pentatricopeptide repeat
PfamPF015353.8E-8127156IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.761129155IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.101156190IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007562.5E-8159186IPR002885Pentatricopeptide repeat
PfamPF015358.0E-9159187IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007569.4E-5189212IPR002885Pentatricopeptide repeat
PfamPF015354.4E-5189212IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.722191217IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.487218248IPR002885Pentatricopeptide repeat
PfamPF128547.3E-8248275IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.931249279IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007569.4E-6251275IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.101.7E-8267397IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS5137511.893280314IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007567.7E-8282311IPR002885Pentatricopeptide repeat
PfamPF015351.0E-8282311IPR002885Pentatricopeptide repeat
SuperFamilySSF484523.54E-5291304IPR011990Tetratricopeptide-like helical domain
TIGRFAMsTIGR007561.1E-4313342IPR002885Pentatricopeptide repeat
PfamPF015352.9E-5313341IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.711315341IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.025342376IPR002885Pentatricopeptide repeat
PfamPF015357.2E-9344372IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007565.2E-7345372IPR002885Pentatricopeptide repeat
SuperFamilySSF484523.54E-5357397IPR011990Tetratricopeptide-like helical domain
TIGRFAMsTIGR007569.0E-4375408IPR002885Pentatricopeptide repeat
PfamPF015354.5E-4375404IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.037377407IPR002885Pentatricopeptide repeat
PROSITE profilePS513755.93408442IPR002885Pentatricopeptide repeat
PROSITE profilePS513758.276443473IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.101.7E-8446517IPR011990Tetratricopeptide-like helical domain
TIGRFAMsTIGR007567.6E-4448476IPR002885Pentatricopeptide repeat
PfamPF130413.0E-13474521IPR002885Pentatricopeptide repeat
PROSITE profilePS5137514.217474508IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007562.6E-10476509IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.651509544IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.322545575IPR002885Pentatricopeptide repeat
PfamPF015350.38549572IPR002885Pentatricopeptide repeat
SuperFamilySSF484523.54E-5584630IPR011990Tetratricopeptide-like helical domain
Gene3DG3DSA:1.25.40.101.7E-8585630IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS513758.1611645IPR002885Pentatricopeptide repeat
PfamPF144325.3E-43647771IPR032867DYW domain
SMARTSM004321.6E-4846901IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.33E-11853908IPR002100Transcription factor, MADS-box
PfamPF003195.7E-10855896IPR002100Transcription factor, MADS-box
PROSITE profilePS500669.811855895IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 1031 aa     Download sequence    Send to blast
MRCAGTKRLE ELCAVSWRAC KKHTSFNGLK SRFKAEKEAT FHSATKKSQT QFKKSLSNTE  60
DADIKEWNVA ISSYMRNGRC NEALRVFERM PRWSSVSYNA MISGYLRNGE FESARKLFDE  120
MPERDLVSWN VMIKGYVRNK NLGKARELFE RMPERDVCSW NTMLSGYAQN GCVDEARRIF  180
DRMSEKNQVS WNALLSAYVQ NSRMEEACRL FESRENWALV SWNCLLGGFV KKKKIVKARE  240
FFDCMNVRDV VSWNTIITGY AQNGDINEAR KLFDESPVQD VFTWTAMVSG YVQNRMVEEA  300
RELFDKMPER NEVSWNAMLA GYVQGERMEM AKELFDGMPF RNVSTWNTMI TGYAQCGDVS  360
EAKNLFDKMP KRDPVSWAAM IAGYSQSGHR YEALHLFVRM EREGERLNRS SFSSALSTCA  420
DVVALELGKQ LHGRLVKGGY ESGCFVGNAL LLMYCKCGSI EEANDLFEEM TGRDIVSWNT  480
MISGYSRHGF GEDALRFFES MKREGLKPDD ATMVAVLSAC SHTGLLDKGR EYFYTMTQDY  540
GVTPNSQHYA CMVDLLGRAG LLEEAHNLMK GMPFEPDGAI WGTLLGASRV HGNTELAEIA  600
ADKIFAMEPE NSGMYVLLSN LYATLGRWED VGKLRVRMRD KGVKKVPGYS WIEIQNKTHT  660
FSVGDEFHPE KDEIYAFMED LDLRMKKAGY VSKTSVVLHD VEEEEKERMV RYHSERLAVA  720
YGIMRVSPGK PIRVIKNLRV CEDCHNAIKC MAKITGRLII LRDNNRFHHF KDEVMCLVWC  780
VSLTRMKNEE SISVLSWWAR VALPTLDSET FCKLALVSDI VSCYVVVNFC FCLTMSSSRN  840
KEPKLSVRNQ TRFKKSSKNT NLLLREKTIF KKASELSTLC DNEVCVIHYD RNGNLVNTWP  900
EDQSKTITEP DQSHLAVIPV QNHNFPLSPT FSPQDLPSSS SSLGPLMNFC PYGPVTDHQQ  960
QQPQSFTNLL MSSDDMSTNT DSSNHQRQNK FSIFVLNHET AAFTQLLDSV PPSFDQTYNL  1020
TSFNHETYNF V
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5iww_D4e-595357316338PLS9-PPR
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMap676773852
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0040440.0AC004044.1 Arabidopsis thaliana BAC T5J8 from chromosome IV, top arm, complete sequence.
GenBankAL1614950.0AL161495.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 7.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006393385.20.0pentatricopeptide repeat-containing protein At4g02750
SwissprotQ9SY020.0PP301_ARATH; Pentatricopeptide repeat-containing protein At4g02750
TrEMBLA0A3P5YC610.0A0A3P5YC61_BRACM; Uncharacterized protein
STRINGBra018742.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G64100.26e-34pentatricopeptide (PPR) repeat-containing protein
Publications ? help Back to Top
  1. Aubourg S,Boudet N,Kreis M,Lecharny A
    In Arabidopsis thaliana, 1% of the genome codes for a novel protein family unique to plants.
    Plant Mol. Biol., 2000. 42(4): p. 603-13
    [PMID:10809006]
  2. Lurin C, et al.
    Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis.
    Plant Cell, 2004. 16(8): p. 2089-103
    [PMID:15269332]
  3. Ji G, et al.
    Predictive modeling of plant messenger RNA polyadenylation sites.
    BMC Bioinformatics, 2007. 8: p. 43
    [PMID:17286857]