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PR00302

Identifier
LUPUSLA  [View Relations]  [View Alignment]  
Accession
PR00302
No. of Motifs
5
Creation Date
02-FEB-1995  (UPDATE 07-JUN-1999)
Title
Lupus La protein signature
Database References

PROSITE; PS00030 RNP_1
BLOCKS; BL00030
INTERPRO; IPR002344
Literature References
1. PRUIJN, G.J.M., SLOBBE, R.L. AND VAN VENROOIJ, W.J.
Structure and function of La and Ro RNPs.
MOL.BIOL.REP. 14 43-48 (1990).
 
2. LIN-MARQ, N. AND CLARKSON, S.G.
A yeast RNA binding protein that resembles the human autoantigen La.
J.MOL.BIOL. 244(5) 81-85 (1995).

Documentation
The La protein is a 47kDa polypeptide that often acts as an autoantigen
in systemic lupus erythematosus and Sjogren's syndrome patients [1]. A
vital property of the protein is its association with the U-rich termini
of newly-synthesised RNA polymerase III transcripts. A 32kDa yeast
protein shows similarity to the N-termini of vertebrate La proteins, 
and also preferentially binds U-rich RNAs [2].
 
LUPUSLA is a 5-element fingerprint that provides a signature for the
lupus La proteins and the related La protein homologue. The fingerprint
was derived from an initial alignment of 4 sequences: the motifs were
drawn from conserved regions in the N-terminal region of the alignment,
motifs 4 and 5 each including an RNA-binding region (cf. PROSITE pattern
RNP_1 (PS00030)). Two iterations on OWL25.1 were required to reach
convergence, at which point a true set comprising 9 sequences was
identified.
 
An update on SPTR37_9f identified a true set of 11 sequences.
Summary Information
11 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
51111111111
400000
300000
200000
12345
True Positives
LAA_XENLA     LAB_XENLA     LAH1_SCHPO    LAH1_YEAST    
LA_AEDAL LA_BOVIN LA_DROME LA_HUMAN
LA_MOUSE LA_RAT O01806
Sequence Titles
LAA_XENLA   LUPUS LA PROTEIN HOMOLOG A (LA RIBONUCLEOPROTEIN A) (LA AUTOANTIGEN HOMOLOG A) - XENOPUS LAEVIS (AFRICAN CLAWED FROG). 
LAB_XENLA LUPUS LA PROTEIN HOMOLOG B (LA RIBONUCLEOPROTEIN B) (LA AUTOANTIGEN HOMOLOG B) - XENOPUS LAEVIS (AFRICAN CLAWED FROG).
LAH1_SCHPO LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
LAH1_YEAST LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
LA_AEDAL LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - AEDES ALBOPICTUS (FOREST DAY MOSQUITO).
LA_BOVIN LUPUS LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - BOS TAURUS (BOVINE).
LA_DROME LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - DROSOPHILA MELANOGASTER (FRUIT FLY).
LA_HUMAN LUPUS LA PROTEIN (SJOGREN SYNDROME TYPE B ANTIGEN (SS-B)) (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN) - HOMO SAPIENS (HUMAN).
LA_MOUSE LUPUS LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - MUS MUSCULUS (MOUSE).
LA_RAT LUPUS LA PROTEIN HOMOLOG (LA RIBONUCLEOPROTEIN) (LA AUTOANTIGEN HOMOLOG) - RATTUS NORVEGICUS (RAT).
O01806 SIMILARITY TO AN RNA RECOGNITION MOTIF - CAENORHABDITIS ELEGANS.
Scan History
OWL25_1    2  50   NSINGLE    
SPTR37_9f 2 12 NSINGLE
Initial Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
QIEYYFGDFNLPRDKFLK LA_HUMAN 20 20 -
QIEYYFGDFNLPRDKFLK LA_BOVIN 20 20 -
QIEYYFGDHNLPRDKFLK LAB_XENLA 19 19 -
QIEYYFGDHNLPRDKFLK LAA_XENLA 20 20 -

Motif 2 width=16
Element Seqn Id St Int Rpt
GWVPLEIMIKFNRLNR LA_HUMAN 45 7 -
GWVPLEIMIKFNRLNR LA_BOVIN 45 7 -
GWVPLETMIKFNRLSK LAB_XENLA 44 7 -
GWVPLETMIKFNRLSK LAA_XENLA 45 7 -

Motif 3 width=14
Element Seqn Id St Int Rpt
ELMEISEDKTKIRR LA_HUMAN 78 17 -
ELMEISEDKTKIRR LA_BOVIN 78 17 -
ELLEINEEKCKIRR LAB_XENLA 77 17 -
ELLEINEEKCKIRR LAA_XENLA 78 17 -

Motif 4 width=17
Element Seqn Id St Int Rpt
KNDVKNRSVYIKGFPTD LA_HUMAN 105 13 -
KNDVKNRSVYIKGFPTD LA_BOVIN 105 13 -
KNSFKHRSVYIKGFPTI LAB_XENLA 104 13 -
KNSLKHKSVYIKGFPTS LAA_XENLA 105 13 -

Motif 5 width=19
Element Seqn Id St Int Rpt
FKGSIFVVFDSIESAKKFV LA_HUMAN 150 28 -
FKGSIFAVFDSIESAKKFV LA_BOVIN 150 28 -
FKGSVFLVFNTEDGAKKFL LAB_XENLA 149 28 -
FKGSIFIIFNTDDDAKKFL LAA_XENLA 150 28 -
Final Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
QIEYYFGDFNLPRDKFLK LA_HUMAN 20 20 -
QIEYYFGDFNLPRDKFLK LA_BOVIN 20 20 -
QIEYYFGDFNLPRDKFLK LA_MOUSE 20 20 -
QIEYYFGDFNLPRDKFLK LA_RAT 20 20 -
QIEYYFGDHNLPRDKFLK LAB_XENLA 19 19 -
QIEYYFGDHNLPRDKFLK LAA_XENLA 20 20 -
QVEYYFGDANLNRDKFLR LA_DROME 57 57 -
QLEYYFGDANLARDKFLQ LA_AEDAL 50 50 -
QLEYYFGNINLPRDKFLQ O01806 19 19 -
QVEFYFSDTNLPHDKFLW LAH1_SCHPO 70 70 -
QVEFYFSEFNFPYDRFLR LAH1_YEAST 36 36 -

Motif 2 width=16
Element Seqn Id St Int Rpt
GWVPLEIMIKFNRLNR LA_HUMAN 45 7 -
GWVPLEIMIKFNRLNR LA_BOVIN 45 7 -
GWVPLETMIKFNRLNR LA_MOUSE 45 7 -
GWVPLETMIKFNRLNR LA_RAT 45 7 -
GWVPLETMIKFNRLSK LAB_XENLA 44 7 -
GWVPLETMIKFNRLSK LAA_XENLA 45 7 -
GWVPLSVLVTFKRLAS LA_DROME 83 8 -
GWVPVDVLLTFKRLKS LA_AEDAL 75 7 -
GWVPITTMLNFNRLAS O01806 44 7 -
GWVPIQTIANFKRMRR LAH1_SCHPO 95 7 -
GWVPISTIATFNRMKK LAH1_YEAST 61 7 -

Motif 3 width=14
Element Seqn Id St Int Rpt
ELMEISEDKTKIRR LA_HUMAN 78 17 -
ELMEISEDKTKIRR LA_BOVIN 78 17 -
KLMEVSADKTKIRR LA_MOUSE 78 17 -
NLMEVSADKTKIRR LA_RAT 78 17 -
ELLEINEEKCKIRR LAB_XENLA 77 17 -
ELLEINEEKCKIRR LAA_XENLA 78 17 -
GLVEISEDKLSLRR LA_DROME 116 17 -
GLIEVSEDREKLRR LA_AEDAL 108 17 -
GIISVSEDNQKIRR O01806 77 17 -
ELLEVDEAGEKVRR LAH1_SCHPO 126 15 -
EILEVSADGENVKR LAH1_YEAST 91 14 -

Motif 4 width=17
Element Seqn Id St Int Rpt
KNDVKNRSVYIKGFPTD LA_HUMAN 105 13 -
KNDVKNRSVYIKGFPTD LA_BOVIN 105 13 -
KNDVKNRSVYIKGFPTD LA_MOUSE 105 13 -
KNDVKNRSVYIKGFPTD LA_RAT 105 13 -
KNSFKHRSVYIKGFPTI LAB_XENLA 104 13 -
KNSLKHKSVYIKGFPTS LAA_XENLA 105 13 -
RKEIQERTAYAKGFPLD LA_DROME 143 13 -
RKEIYGRTVYVKGFAPE LA_AEDAL 135 13 -
WQKIKHRTVYMKGFSTD O01806 104 13 -
NKSVMERSVYCKGFGDE LAH1_SCHPO 148 8 -
RIEQNQRTLAVMNFPHE LAH1_YEAST 117 12 -

Motif 5 width=19
Element Seqn Id St Int Rpt
FKGSIFVVFDSIESAKKFV LA_HUMAN 150 28 -
FKGSIFAVFDSIESAKKFV LA_BOVIN 150 28 -
FKGSIFAVFDSIQSAKKFV LA_MOUSE 150 28 -
FKGSIFAVFDSIQSAKKFV LA_RAT 150 28 -
FKGSVFLVFNTEDGAKKFL LAB_XENLA 149 28 -
FKGSIFIIFNTDDDAKKFL LAA_XENLA 150 28 -
FKGSIFLTFETKDQAKAFL LA_DROME 193 33 -
FKGSVFVTFATKDHCAEFL LA_AEDAL 187 35 -
FKGSVFITYKTREEAEAAQ O01806 151 30 -
FKGSVFVEFKEPDVANKFL LAH1_SCHPO 196 31 -
FNGTVLVEFKTIPECEAFL LAH1_YEAST 171 37 -