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 676728338
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 HSF
Protein Properties Length: 951aa    MW: 104273 Da    PI: 6.0222
Description HSF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676728338genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HSF_DNA-bind114.95.1e-36371292103
                   HHHHHHHHHCTGGGTTTSEESSSSSEEEES-HHHHHHHTHHHHSTT--HHHHHHHHHHTTEEE---SSBTTTTXTTSEEEEESXXXXXXXXXXXXXX CS
  HSF_DNA-bind   2 FlkklyeiledeelkeliswsengnsfvvldeeefakkvLpkyFkhsnfaSFvRQLnmYgFkkvkdeekkskskekiweFkhksFkkgkkellekik 98 
                   Fl+k+y+++ed++++ ++sws  +nsfvv+d+ ef++ +LpkyFkh+nf+SFvRQLn+YgFkkv+ ++         weF+++ F +g+k+ll++i 
     676728338  37 FLSKTYDMVEDPTTDAIVSWSPANNSFVVWDPPEFSRALLPKYFKHNNFSSFVRQLNTYGFKKVDPDR---------WEFANEGFLRGQKHLLKTIS 124
                   9********************999*****************************************999.........******************** PP

                   XXXXX CS
  HSF_DNA-bind  99 rkkse 103
                   r+ks+
     676728338 125 RRKSA 129
                   **986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.102.2E-3931121IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM004151.4E-6133126IPR000232Heat shock factor (HSF)-type, DNA-binding
SuperFamilySSF467858.43E-3534126IPR011991Winged helix-turn-helix DNA-binding domain
PfamPF004474.0E-3237126IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000563.1E-193760IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000563.1E-197587IPR000232Heat shock factor (HSF)-type, DNA-binding
PROSITE patternPS00434076100IPR000232Heat shock factor (HSF)-type, DNA-binding
PRINTSPR000563.1E-1988100IPR000232Heat shock factor (HSF)-type, DNA-binding
Gene3DG3DSA:3.30.750.442.2E-27562636No hitNo description
SuperFamilySSF520962.15E-65563655IPR029045ClpP/crotonase-like domain
TIGRFAMsTIGR002254.3E-82600921IPR004447C-terminal-processing peptidase S41A
SuperFamilySSF501566.18E-17615743IPR001478PDZ domain
SMARTSM002286.5E-10648723IPR001478PDZ domain
CDDcd009887.85E-20662734No hitNo description
PROSITE profilePS5010610.697662722IPR001478PDZ domain
PfamPF005951.8E-8663719IPR001478PDZ domain
Gene3DG3DSA:2.30.42.108.2E-19663732IPR001478PDZ domain
SMARTSM002455.2E-95723920IPR005151Tail specific protease
Gene3DG3DSA:3.90.226.103.7E-53733922IPR029045ClpP/crotonase-like domain
SuperFamilySSF520962.15E-65750924IPR029045ClpP/crotonase-like domain
CDDcd075601.11E-76755920No hitNo description
PfamPF035722.2E-49756917IPR005151Tail specific protease
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0006508Biological Processproteolysis
GO:0005634Cellular Componentnucleus
GO:0005739Cellular Componentmitochondrion
GO:0009543Cellular Componentchloroplast thylakoid lumen
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0008236Molecular Functionserine-type peptidase activity
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 951 aa     Download sequence    Send to blast
MAGVTGGESK SGETVTAPLR NPHPATLLSA NGLPPPFLSK TYDMVEDPTT DAIVSWSPAN  60
NSFVVWDPPE FSRALLPKYF KHNNFSSFVR QLNTYGFKKV DPDRWEFANE GFLRGQKHLL  120
KTISRRKSAQ GHGGGSSSGN PQSHQGQGSM AVLSSCVEVG KFGLEEEVEQ LKRDKNVLMQ  180
ELVKLRQQQQ STDGKLQSMV KSLQVMEQRQ QQIMSFLAKA VQNPTFLSQF IQKQTDGNMH  240
VTEANKKRRL TEDTTTAAAD DENHSHGHNS AASDGQIVRY QPSRNDSVKS MLWNMMKTDD  300
DSPFLDGFSS PNRVSGVTLQ EVLMPTTSGQ SQAYAPVPSN QPLSYLPSTS TSLPDTVMPT  360
IPPMPQSTQE NNNDSPTENY MDTKKDVSDA FISPSPFLDG GSVPDQLEGL PQDLDIDDLM  420
SNCDIFEEYL AQSPVFGDET TLESSNEKNG GQFSCNRDLQ ALQVKLWVSQ PSKTLKAINF  480
RYARNGTDKP RSNANSGLVF VCNRCLCLLE RNDHRKFSGK VMMKSSLSFR KNVSVALVRL  540
VTVLLVSSIS VVTTDSPSWG LSEENLLFLE AWRTIDRAYI DKTFNGQSWF RYRETALRNE  600
PMNNREETYK AIKKMIATLD DPFTRFLEPG KFQSLRVWIP ENGCSESRRW IVCYPAASDG  660
SPAGLVVISA APGGPANRAG VSPGDVILGI DNTTTEALTI YDAAQMLQGP EGSTVELAIR  720
SGPETRLLSL TRERVSVNPV KSRLCELPGS GSNSPKIGYI KLTTFNQNAS GAVKEAIETL  780
RGNNVNAFVL DLRDNSGGSF PEGIEIAKFW LDKGVIVYIC DSRGVRDIYD TDGSNAIATS  840
EPLAVLVNKG TASASEILAG ALKDNKRALV YGEPTYGKGK IQSVFQLSDG SGLAVTVARY  900
ETPAHTDIDK VGVTPDHPLP KSFPKDEEAF CGCLKDPTAA CYLNQGLLFS R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1fc6_A1e-1215619342378PHOTOSYSTEM II D1 PROTEASE
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProtease involved in the C-terminal processing of the chloroplastic D1 protein of photosystem II. This proteolytic processing is necessary to allow the light-driven assembly of the tetranuclear manganese cluster, which is responsible for photosynthetic water oxidation. {ECO:0000250|UniProtKB:O04073}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap676728338
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF4246020.0AF424602.1 Arabidopsis thaliana AT4g17740/dl4905c mRNA, complete cds.
GenBankAJ1325440.0AJ132544.1 Arabidopsis thaliana mRNA for D1-processing protease, partial.
GenBankAY0541710.0AY054171.1 Arabidopsis thaliana AT4g17740/dl4905c mRNA, complete cds.
GenBankBT0063430.0BT006343.1 Arabidopsis thaliana At4g17740/dl4905c gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002868041.10.0carboxyl-terminal-processing peptidase 2, chloroplastic
SwissprotO236140.0CTPA2_ARATH; Carboxyl-terminal-processing peptidase 2, chloroplastic
TrEMBLD7M9G10.0D7M9G1_ARALL; Uncharacterized protein
STRINGfgenesh1_pm.C_scaffold_70019800.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM1160122
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G17750.10.0heat shock factor 1
Publications ? help Back to Top
  1. Schubert M, et al.
    Proteome map of the chloroplast lumen of Arabidopsis thaliana.
    J. Biol. Chem., 2002. 277(10): p. 8354-65
    [PMID:11719511]
  2. Sokolenko A, et al.
    The gene complement for proteolysis in the cyanobacterium Synechocystis sp. PCC 6803 and Arabidopsis thaliana chloroplasts.
    Curr. Genet., 2002. 41(5): p. 291-310
    [PMID:12185496]
  3. Giacomelli L,Rudella A,van Wijk KJ
    High light response of the thylakoid proteome in arabidopsis wild type and the ascorbate-deficient mutant vtc2-2. A comparative proteomics study.
    Plant Physiol., 2006. 141(2): p. 685-701
    [PMID:16648217]
  4. Tripathi LP,Sowdhamini R
    Cross genome comparisons of serine proteases in Arabidopsis and rice.
    BMC Genomics, 2006. 7: p. 200
    [PMID:16895613]
  5. Hall M, et al.
    Thioredoxin targets of the plant chloroplast lumen and their implications for plastid function.
    Proteomics, 2010. 10(5): p. 987-1001
    [PMID:20049866]
  6. Che Y, et al.
    C-terminal processing of reaction center protein D1 is essential for the function and assembly of photosystem II in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2013. 110(40): p. 16247-52
    [PMID:24043802]