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PR01288

Identifier
PROXISOMEPAR  [View Relations]  [View Alignment]  
Accession
PR01288
No. of Motifs
7
Creation Date
19-FEB-2000
Title
Peroxisome proliferator-activated receptor (1C nuclear receptor) signature
Database References
PRINTS; PR00398 STRDHORMONER; PR01289 PROXISOMPAAR; PR01290 PROXISOMPABR
PRINTS; PR01291 PROXISOMPAGR
Literature References
1. NUCLEAR RECEPTORS NOMENCLATURE COMMITTEE
A unified nomenclature system for the nuclear receptor superfamily.
CELL 97 161-163 (1999).
 
2. NISHIKAWA, J-I., KITAURA, M., IMAGAWA, M. AND NISHIHARA, T.
Vitamin D receptor contains multiple dimerisation interfaces that
are functionally different.
NUCLEIC ACIDS RES. 23(4) 606-611 (1995).
 
3. DE VOS, P., SCHMITT, J., VERHOEVEN, G. AND STUNNENBERG, G.
Human androgen receptor expressed in HeLa cells activates transcription
in vitro.
NUCLEIC ACIDS RES. 22(7) 1161-1166 (1994).
 
4. KREY, G., KELLER, H., MAHFOUDI, A., MEDIN, J., OZATO, K., DREYER, C.
AND WAHLI, W. 
Xenopus peroxisome proliferator activated receptors: genomic organization,
response element recognition, heterodimer formation with retinoid X receptor
and activation by fatty acids.
J.STEROID BIOCHEM.MOL.BIOL. 47 65-73 (1993). 
 
5. DREYER, C., KREY, G., KELLER, H., GIVEL, F., HELFTENBEIN, G. 
AND WAHLI, W.
Control of the peroxisomal beta-oxidation pathway by a novel family
of nuclear hormone receptors.
CELL 68 879-887 (1992). 

Documentation
Steroid or nuclear hormone receptors (NRs) constitute an important super-
family of transcription regulators that are involved in widely diverse 
physiological functions, including control of embryonic development, cell
differentiation and homeostasis [1]. Members of the superfamily include the
steroid hormone receptors and receptors for thyroid hormone, retinoids, 
1,25-dihydroxy-vitamin D3 and a variety of other ligands. The proteins 
function as dimeric molecules in nuclei to regulate the transcription of 
target genes in a ligand-responsive manner [2,3]. In addition to C-terminal
ligand-binding domains, these nuclear receptors contain a highly-conserved,
N-terminal zinc-finger that mediates specific binding to target DNA 
sequences, termed ligand-responsive elements. In the absence of ligand,
steroid hormone receptors are thought to be weakly associated with nuclear
components; hormone binding greatly increases receptor affinity.
 
NRs are extremely important in medical research, a large number of them
being implicated in diseases such as cancer, diabetes, hormone resistance
syndromes, etc. [1]. While several NRs act as ligand-inducible transcription
factors, many do not yet have a defined ligand and are accordingly termed 
"orphan" receptors. During the last decade, more than 300 NRs have been
described, many of which are orphans, which cannot easily be named due to 
current nomenclature confusions in the literature. However, a new system 
has recently been introduced in an attempt to rationalise the increasingly 
complex set of names used to describe superfamily members [1].
 
Peroxisome proliferator-activated receptors (PPAR) are ligand-activated
transcription factors that belong to the nuclear hormone receptor 
superfamily. Three cDNAs encoding PPARs have been isolated from Xenopus
laevis: xPPAR alpha, beta and gamma [4]. All three xPPARs appear to be
activated by both synthetic peroxisome proliferators and naturally occurring
fatty acids, suggesting a common mode of action for all members of this 
subfamily of receptors [4]. Furthermore, the multiplicity of the receptors
suggests the existence of hitherto unknown cellular signalling pathways for
xenobiotics and putative endogenous ligands [5]. 
 
PROXISOMEPAR is a 7-element fingerprint that provides a signature for 
peroxisome proliferator-activated receptors. The fingeprint was derived
from an initial alignment of 11 sequences: the motifs were drawn from
conserved regions spanning virtually the full alignment length, focusing on
those sections that characterise the PPAR family but distinguish it from the
rest of the steroid hormone receptor superfamily - motifs 1 and 2 lie 
C-terminal to the zinc finger domain; and motifs 3-7 span the putative
ligand-binding domain. Three iterations on SPTR37_10f were required to 
reach convergence, at which point a true set comprising 19 sequences was
identified. A single partial match was also found, the Xenopus beta
peroxisome proliferator activated receptor, PPAS_XENLA, which fails to
match the first motif. 
Summary Information
  19 codes involving  7 elements
1 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
719191919191919
60111111
50000000
40000000
30000000
20000000
1234567
True Positives
O18924        O18971        O62807        O77815        
O88275 PPAR_CAVPO PPAR_HUMAN PPAR_MOUSE
PPAR_RAT PPAR_XENLA PPAS_HUMAN PPAS_MOUSE
PPAT_HUMAN PPAT_MOUSE PPAT_RABIT PPAT_XENLA
Q15180 Q15832 Q62879
True Positive Partials
Codes involving 6 elements
PPAS_XENLA
Sequence Titles
O18924      PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA 2 - MACACA MULATTA (RHESUS MACA 
O18971 PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA 2 (PEROXISOME PROLIFERATOR ACTI
O62807 PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA 2 - SUS SCROFA (PIG).
O77815 PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR-GAMMA 2 (PEROXISOME PROLIFERATOR-CCTI
O88275 PPAR-GAMMA PROTEIN - RATTUS NORVEGICUS (RAT).
PPAR_CAVPO PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA (PPAR-ALPHA) - CAVIA PORCELLUS
PPAR_HUMAN PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA (PPAR-ALPHA) - HOMO SAPIENS (HU
PPAR_MOUSE PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA (PPAR-ALPHA) - MUS MUSCULUS (MO
PPAR_RAT PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA (PPAR-ALPHA) - RATTUS NORVEGICU
PPAR_XENLA PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR ALPHA (PPAR-ALPHA) - XENOPUS LAEVIS (
PPAS_HUMAN PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR BETA (PPAR-BETA) (PPAR-DELTA) (NUCLEA
PPAS_MOUSE PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR BETA (PPAR-BETA) (PPAR-DELTA) (NUCLEA
PPAT_HUMAN PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA (PPAR-GAMMA) - HOMO SAPIENS (HU
PPAT_MOUSE PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA (PPAR-GAMMA) - MUS MUSCULUS (MO
PPAT_RABIT PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA (PPAR-GAMMA) - ORYCTOLAGUS CUNI
PPAT_XENLA PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA (PPAR-GAMMA) - XENOPUS LAEVIS (
Q15180 PPAR GAMMA2 (PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA) - HOMO SAPIENS (H
Q15832 PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA 2 - HOMO SAPIENS (HUMAN).
Q62879 PPAR DELTA PROTEIN - RATTUS NORVEGICUS (RAT).

PPAS_XENLA PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR BETA (PPAR-BETA) - XENOPUS LAEVIS (AF
Scan History
SPTR37_10f 3  100  NSINGLE    
Initial Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
DIDQLNPESADLRAL PPAT_HUMAN 198 198 -
DIDQLNPESADLRAL PPAT_RABIT 198 198 -
DIDQLNPESADLRAL PPAT_MOUSE 198 198 -
DIDQLNPESADQRVL PPAT_XENLA 202 202 -
DQDVKDSQMADLLSL PPAR_XENLA 199 199 -
EHDIEDSETADLKSL PPAR_HUMAN 192 192 -
EHDLKDSETADLKSL PPAR_RAT 192 192 -
EHDLKDSETADLKSL PPAR_MOUSE 192 192 -
EGSQYNPQVADLKAF PPAS_HUMAN 164 164 -
DRDSEGAETADLKSL PPAR_CAVPO 192 192 -
EGCQHNPQLADLKAF PPAS_MOUSE 163 163 -

Motif 2 width=20
Element Seqn Id St Int Rpt
LAKHLYDSYIKSFPLTKAKA PPAT_HUMAN 212 -1 -
LAKHLYDSYIKSFPLTKAKA PPAT_RABIT 212 -1 -
LAKHLYDSYIKSFPLTKAKA PPAT_MOUSE 212 -1 -
LAKHLYDSYVKSFPLTKAKA PPAT_XENLA 216 -1 -
LARLIYDAYLKNFNMNKVKA PPAR_XENLA 213 -1 -
LAKRIYEAYLKNFNMNKVKA PPAR_HUMAN 206 -1 -
LAKRIHEAYLKNFNMNKVKA PPAR_RAT 206 -1 -
LGKRIHEAYLKNFNMNKVKA PPAR_MOUSE 206 -1 -
FSKHIYNAYLKNFNMTKKKA PPAS_HUMAN 178 -1 -
LAKRIYEAYLKNFHMNKVKA PPAR_CAVPO 206 -1 -
FSKHIYNAYLKNFNMTKKKA PPAS_MOUSE 177 -1 -

Motif 3 width=14
Element Seqn Id St Int Rpt
YTMLASLMNKDGVL PPAT_HUMAN 325 93 -
YTMLASLMNKDGVL PPAT_RABIT 325 93 -
YTMLASLMNKDGVL PPAT_MOUSE 325 93 -
FTMLASLMNKDGVL PPAT_XENLA 327 91 -
FAMLASVMNKDGML PPAR_XENLA 324 91 -
FAMLSSVMNKDGML PPAR_HUMAN 318 92 -
FTMLSSLMNKDGML PPAR_RAT 318 92 -
FTMLSSLMNKDGML PPAR_MOUSE 318 92 -
FAMLASIVNKDGLL PPAS_HUMAN 291 93 -
FTMLSSTMNKDGML PPAR_CAVPO 318 92 -
FAMLASIVNKDGLL PPAS_MOUSE 290 93 -

Motif 4 width=16
Element Seqn Id St Int Rpt
GQGFMTREFLKSLRKP PPAT_HUMAN 342 3 -
GQGFMTREFLKSLRKP PPAT_RABIT 342 3 -
GQGFMTREFLKSLRKP PPAT_MOUSE 342 3 -
GQGFMTREFLKSLRKP PPAT_XENLA 344 3 -
GNGFITREFLKSLRKP PPAR_XENLA 341 3 -
GNGFITREFLKSLRKP PPAR_HUMAN 335 3 -
GNGFITREFLKNLRKP PPAR_RAT 335 3 -
GNGFITREFLKNLRKP PPAR_MOUSE 335 3 -
GSGFVTREFLRSLRKP PPAS_HUMAN 308 3 -
GHGFITREFLKNLRKP PPAR_CAVPO 335 3 -
GSGFVTHEFLRSLRKP PPAS_MOUSE 307 3 -

Motif 5 width=14
Element Seqn Id St Int Rpt
DFMEPKFEFAVKFN PPAT_HUMAN 360 2 -
DFMEPKFEFAVKFN PPAT_RABIT 360 2 -
DFMEPKFEFAVKFN PPAT_MOUSE 360 2 -
DFMEPKFEFAIRFN PPAT_XENLA 362 2 -
DMMEPKFEFAMKFN PPAR_XENLA 359 2 -
DIMEPKFDFAMKFN PPAR_HUMAN 353 2 -
DIMEPKFDFAMKFN PPAR_RAT 353 2 -
DIMEPKFDFAMKFN PPAR_MOUSE 353 2 -
DIIEPKFEFAVKFN PPAS_HUMAN 326 2 -
DMMEPKFNFAMKFN PPAR_CAVPO 353 2 -
DIIEPKFEFAVKFN PPAS_MOUSE 325 2 -

Motif 6 width=18
Element Seqn Id St Int Rpt
NHPESSQLFAKLLQKMTD PPAT_HUMAN 422 48 -
NHPEASQLFAKLLQKMTD PPAT_RABIT 422 48 -
NHPESSQLFAKVLQKMTD PPAT_MOUSE 422 48 -
NHPDSAQLFAKLLQKMTD PPAT_XENLA 424 48 -
NHPDDSFLFPKLLQKMAD PPAR_XENLA 421 48 -
NHPDDIFLFPKLLQKMAD PPAR_HUMAN 415 48 -
NHPDDTFLFPKLLQKMVD PPAR_RAT 415 48 -
NHPDDTFLFPKLLQKMVD PPAR_MOUSE 415 48 -
NHPDAQYLFPKLLQKMAD PPAS_HUMAN 388 48 -
NHPDDTFLFPKLLQKLAD PPAR_CAVPO 415 48 -
NHPDSQYLFPKLLQKMAD PPAS_MOUSE 387 48 -

Motif 7 width=13
Element Seqn Id St Int Rpt
KTETDMSLHPLLQ PPAT_HUMAN 456 16 -
KTETDMSLHPLLQ PPAT_RABIT 456 16 -
KTETDMSLHPLLQ PPAT_MOUSE 456 16 -
KTEADMCLHPLLQ PPAT_XENLA 458 16 -
KTETDAALHPLLQ PPAR_XENLA 455 16 -
KTESDAALHPLLQ PPAR_HUMAN 449 16 -
KTESDAALHPLLQ PPAR_RAT 449 16 -
KTESDAALHPLLQ PPAR_MOUSE 449 16 -
KTETETSLHPLLQ PPAS_HUMAN 422 16 -
KTESDAALHPLLQ PPAR_CAVPO 448 15 -
KTESETLLHPLLQ PPAS_MOUSE 421 16 -
Final Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
DIDQLNPESADLRAL O18924 228 228 -
DIDQLNPESADLRAL Q15832 228 228 -
DIDQLNPESADLRAL PPAT_HUMAN 198 198 -
DIDQLNPESADLRAL O62807 227 227 -
DIDQLNPESADLRAL O18971 228 228 -
DIDQLNPESADLRAL PPAT_RABIT 198 198 -
DIDQLNPESADLRAL O77815 227 227 -
DIDQLNPESADLRAL O88275 198 198 -
DIDQLNPESADLRAL PPAT_MOUSE 198 198 -
DIDQLNPESADLRQA Q15180 228 228 -
DIDQLNPESADQRVL PPAT_XENLA 202 202 -
DQDVKDSQMADLLSL PPAR_XENLA 199 199 -
EHDIEDSETADLKSL PPAR_HUMAN 192 192 -
EHDLKDSETADLKSL PPAR_RAT 192 192 -
EHDLKDSETADLKSL PPAR_MOUSE 192 192 -
EGSQYNPQVADLKAF PPAS_HUMAN 164 164 -
DRDSEGAETADLKSL PPAR_CAVPO 192 192 -
EGCQHNPQLADLKAF PPAS_MOUSE 163 163 -
EGCQQNPQLADLKAF Q62879 163 163 -

Motif 2 width=20
Element Seqn Id St Int Rpt
LAKHLYDSYIKSFPLTKAKA O18924 242 -1 -
LAKHLYDSYIKSFPLTKAKA Q15832 242 -1 -
LAKHLYDSYIKSFPLTKAKA PPAT_HUMAN 212 -1 -
LAKHLYDSYIKSFPLTKAKA O62807 241 -1 -
LAKHLYDSYIKSFPLTKAKA O18971 242 -1 -
LAKHLYDSYIKSFPLTKAKA PPAT_RABIT 212 -1 -
LAKHLYDSYIKSFPLTKAKA O77815 241 -1 -
LAKHLYDSYIKSFPLTKAKA O88275 212 -1 -
LAKHLYDSYIKSFPLTKAKA PPAT_MOUSE 212 -1 -
LAKHLYDSYIKSFPLTKAKA Q15180 243 0 -
LAKHLYDSYVKSFPLTKAKA PPAT_XENLA 216 -1 -
LARLIYDAYLKNFNMNKVKA PPAR_XENLA 213 -1 -
LAKRIYEAYLKNFNMNKVKA PPAR_HUMAN 206 -1 -
LAKRIHEAYLKNFNMNKVKA PPAR_RAT 206 -1 -
LGKRIHEAYLKNFNMNKVKA PPAR_MOUSE 206 -1 -
FSKHIYNAYLKNFNMTKKKA PPAS_HUMAN 178 -1 -
LAKRIYEAYLKNFHMNKVKA PPAR_CAVPO 206 -1 -
FSKHIYNAYLKNFNMTKKKA PPAS_MOUSE 177 -1 -
FSKHIYNAYLKNFNMTKKKA Q62879 177 -1 -

Motif 3 width=14
Element Seqn Id St Int Rpt
YTMLASLMNKDGVL O18924 355 93 -
YTMLASLMNKDGVL Q15832 355 93 -
YTMLASLMNKDGVL PPAT_HUMAN 325 93 -
YTMLASLMNKDGVL O62807 354 93 -
YTMLASLMNKDGVL O18971 355 93 -
YTMLASLMNKDGVL PPAT_RABIT 325 93 -
YTMLASLMNKDGVL O77815 354 93 -
YTMLASLMNKDGVL O88275 325 93 -
YTMLASLMNKDGVL PPAT_MOUSE 325 93 -
YTMLASLMNKDGVL Q15180 356 93 -
FTMLASLMNKDGVL PPAT_XENLA 327 91 -
FAMLASVMNKDGML PPAR_XENLA 324 91 -
FAMLSSVMNKDGML PPAR_HUMAN 318 92 -
FTMLSSLMNKDGML PPAR_RAT 318 92 -
FTMLSSLMNKDGML PPAR_MOUSE 318 92 -
FAMLASIVNKDGLL PPAS_HUMAN 291 93 -
FTMLSSTMNKDGML PPAR_CAVPO 318 92 -
FAMLASIVNKDGLL PPAS_MOUSE 290 93 -
FAMLASIVNKDGLL Q62879 290 93 -

Motif 4 width=16
Element Seqn Id St Int Rpt
GQGFMTREFLKSLRKP O18924 372 3 -
GQGFMTREFLKSLRKP Q15832 372 3 -
GQGFMTREFLKSLRKP PPAT_HUMAN 342 3 -
GQGFMTREFLKSLRKP O62807 371 3 -
GQGFMTREFLKSLRKP O18971 372 3 -
GQGFMTREFLKSLRKP PPAT_RABIT 342 3 -
GQGFMTREFLRSLRKP O77815 371 3 -
GQGFMTREFLKSLRKP O88275 342 3 -
GQGFMTREFLKSLRKP PPAT_MOUSE 342 3 -
GQGFMTREFLKSLRKP Q15180 373 3 -
GQGFMTREFLKSLRKP PPAT_XENLA 344 3 -
GNGFITREFLKSLRKP PPAR_XENLA 341 3 -
GNGFITREFLKSLRKP PPAR_HUMAN 335 3 -
GNGFITREFLKNLRKP PPAR_RAT 335 3 -
GNGFITREFLKNLRKP PPAR_MOUSE 335 3 -
GSGFVTREFLRSLRKP PPAS_HUMAN 308 3 -
GHGFITREFLKNLRKP PPAR_CAVPO 335 3 -
GSGFVTHEFLRSLRKP PPAS_MOUSE 307 3 -
GSGFVTHEFLRSIRKP Q62879 307 3 -

Motif 5 width=14
Element Seqn Id St Int Rpt
DFMEPKFEFAVKFN O18924 390 2 -
DFMEPKFEFAVKFN Q15832 390 2 -
DFMEPKFEFAVKFN PPAT_HUMAN 360 2 -
DFMEPKFEFAVKFN O62807 389 2 -
DFMEPKFEFAVKFN O18971 390 2 -
DFMEPKFEFAVKFN PPAT_RABIT 360 2 -
DFMEPKFEFAVKFN O77815 389 2 -
DFMEPKFEFAVKFN O88275 360 2 -
DFMEPKFEFAVKFN PPAT_MOUSE 360 2 -
DFMEPKFEFAVKFN Q15180 391 2 -
DFMEPKFEFAIRFN PPAT_XENLA 362 2 -
DMMEPKFEFAMKFN PPAR_XENLA 359 2 -
DIMEPKFDFAMKFN PPAR_HUMAN 353 2 -
DIMEPKFDFAMKFN PPAR_RAT 353 2 -
DIMEPKFDFAMKFN PPAR_MOUSE 353 2 -
DIIEPKFEFAVKFN PPAS_HUMAN 326 2 -
DMMEPKFNFAMKFN PPAR_CAVPO 353 2 -
DIIEPKFEFAVKFN PPAS_MOUSE 325 2 -
DIIEPKFEFAVKFN Q62879 325 2 -

Motif 6 width=18
Element Seqn Id St Int Rpt
NHPESSQLFAKLLQKMTD O18924 452 48 -
NHPESSQLFAKLLQKMTD Q15832 452 48 -
NHPESSQLFAKLLQKMTD PPAT_HUMAN 422 48 -
NHPESSQLFAKLLQKMTD O62807 451 48 -
NHPESSQLFAKLLQKMTD O18971 452 48 -
NHPEASQLFAKLLQKMTD PPAT_RABIT 422 48 -
NHPESSQLFAKLLQKMTD O77815 451 48 -
NHPESSQLFAKVLQKMTD O88275 422 48 -
NHPESSQLFAKVLQKMTD PPAT_MOUSE 422 48 -
NHPESSQLFAKLLQKMTD Q15180 453 48 -
NHPDSAQLFAKLLQKMTD PPAT_XENLA 424 48 -
NHPDDSFLFPKLLQKMAD PPAR_XENLA 421 48 -
NHPDDIFLFPKLLQKMAD PPAR_HUMAN 415 48 -
NHPDDTFLFPKLLQKMVD PPAR_RAT 415 48 -
NHPDDTFLFPKLLQKMVD PPAR_MOUSE 415 48 -
NHPDAQYLFPKLLQKMAD PPAS_HUMAN 388 48 -
NHPDDTFLFPKLLQKLAD PPAR_CAVPO 415 48 -
NHPDSQYLFPKLLQKMAD PPAS_MOUSE 387 48 -
NHPDSQYLFPKLLQKMAD Q62879 387 48 -

Motif 7 width=13
Element Seqn Id St Int Rpt
KTETDMSLHPLLQ O18924 486 16 -
KTETDMSLHPLLQ Q15832 486 16 -
KTETDMSLHPLLQ PPAT_HUMAN 456 16 -
KTETDMSLHPLLQ O62807 485 16 -
KTETDMSLHPLLQ O18971 486 16 -
KTETDMSLHPLLQ PPAT_RABIT 456 16 -
KTETDMSLHPLLQ O77815 485 16 -
KTETDMSLHPLLQ O88275 456 16 -
KTETDMSLHPLLQ PPAT_MOUSE 456 16 -
KTETDMSLHPLLQ Q15180 487 16 -
KTEADMCLHPLLQ PPAT_XENLA 458 16 -
KTETDAALHPLLQ PPAR_XENLA 455 16 -
KTESDAALHPLLQ PPAR_HUMAN 449 16 -
KTESDAALHPLLQ PPAR_RAT 449 16 -
KTESDAALHPLLQ PPAR_MOUSE 449 16 -
KTETETSLHPLLQ PPAS_HUMAN 422 16 -
KTESDAALHPLLQ PPAR_CAVPO 448 15 -
KTESETLLHPLLQ PPAS_MOUSE 421 16 -
KTESETLLHPLLQ Q62879 421 16 -