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PR00066

Identifier
XRODRMPGMNTG  [View Relations]  [View Alignment]  
Accession
PR00066
No. of Motifs
10
Creation Date
08-MAR-1995  (UPDATE 10-JUN-1999)
Title
Xeroderma pigmentosum group G protein signature
Database References
PRINTS; PR00853 XPGRADSUPER
PFAM; PF00752 XPG_N
INTERPRO; IPR001044
Literature References
1. TANAKA, K. AND WOOD, R.D.
Xeroderma pigmentosum and nucleotide excision-repair of DNA.
TRENDS BIOCHEM.SCI. 19 83-86 (1994).
 
2. SCHERLY, D., NOUSPIKEL, T., CORLET, J., UCLA, C., BAIROCH, A.
AND CLARKSON, S.G.
Complementation of the DNA repair defect in xeroderma pigmentosum
group G cells by a human cDNA related to yeast RAD2.
NATURE 363 182-185 (1993).
 
3. CARR, A.M., SHELDRICK, K.S., MURRAY, J.M., AL-HARITHY, R., WATTS, F.Z.
AND LEHMANN, A.R.
Evolutionary conservation of excision repair in Schizosaccharomyces pombe - 
evidence for a family of sequences related to the Saccharomyces cerevisiae
rad2 gene.
NUCLEIC ACIDS RES. 21 1345-1349 (1993). 
 
4. O'DONOVAN, A., SCHERLY, D., CLARKSON, S.G. AND WOOD, R.D.
Isolation of active recombinant XPG protein, a human DNA repair
endonuclease.
J.BIOL.CHEM. 269 15965-15968 (1994).
 
5. O'DONOVAN, A., DAVIES, A.A., MOGGS, J.G., WEST, S.C. AND WOOD, R.D.
XPG endonuclease makes the 3' incision in human DNA nucleotide excision
repair.
NATURE 371 432-435 (1994).
 
6. HABRAKEN, Y., SUNG, P., PRAKASH, L. AND PRAKASH, S.
Yeast excision repair gene RAD2 encodes a single-stranded DNA endonuclease.
NATURE 366 365-368 (1993).

Documentation
Defects in DNA repair proteins can give rise, in humans, to the autosomal
recessive disorders xeroderma pigmentosum (XP) and Cockayne's syndrome [1,2].
XP is characterised by a high incidence of sunlight-induced skin cancer,
the effect of skin-cell hypersensitivity to UV resulting from defects in
the nucleotide excision pathway. Seven XP complementation groups have
been identified: XP-A to XP-G. 
 
XP-G is one of the most rare and phenotypically heterogeneous of XP, showing
anything from slight to extreme dysfunction in DNA excision repair [3,4].
XP-G can be corrected by a 133 Kd nuclear protein, XPGC [1]. XPGC is an
acidic protein that confers normal UV resistance in expressing cells [4]. 
It is a magnesium-dependent, single-strand DNA endonuclease that makes
structure-specific endonucleolytic incisions in a DNA substrate containing
a duplex region and single-stranded arms [4,5]. XPGC cleaves one strand of
the duplex at the border with the single-stranded region [5].
 
XPG belongs to a family of proteins that includes RAD2 from budding yeast
and rad13 from fission yeast, which are single-stranded DNA endonucleases
[5,6]; mouse and human FEN-1, a structure-specific endonuclease; RAD2 from 
fission yeast and RAD27 from budding yeast; fission yeast exo1, a 5'->3'
double-stranded DNA exonuclease that may act in a pathway that corrects
mismatched base pairs; yeast DHS1 and yeast DIN7.
 
Sequence analysis reveals that similarities within the family are largely
confined to two well-conserved domains, the first of which is located at 
the N-terminal extremity (the N-region), the second lying towards the
C-terminus (the I-region). The I-region contains a perfectly conserved
hexapeptide, EAEAQC, the Glu and Cys residues of which may be involved in
the excision repair mechanism.
 
XRODRMPGMNTG is a 10-element fingerprint that provides a signature for
xeroderma pigmentosum group G complementation proteins. The fingerprint was
derived from an initial alignment of 7 sequences: the motifs were drawn
from conserved sections spanning virtually the full alignment length,
focusing on those regions that characterise group G proteins but distinguish
them from the rest of the XPG family - motifs 1 and 2 reside in the N-domain;
motifs 3-8 span the central region; and motifs 9 and 10 reside in the 
C-terminal domain. A single iteration on OWL30.0 was required to reach 
convergence, no further sequences being identified beyond the starting set.
A single partial match was also found, RA13_SCHPO, a related DNA repair
protein (RAD13) from S.pombe.
 
An update on SPTR37_9f identified a true set of 5 sequences, and 2
partial matches.
Summary Information
   5 codes involving 10 elements
0 codes involving 9 elements
0 codes involving 8 elements
0 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
2 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
105555555555
90000000000
80000000000
70000000000
60000000000
50000000000
40000000000
32200020000
20000000000
12345678910
True Positives
Q61528        Q64248        XPG_HUMAN     XPG_MOUSE     
XPG_XENLA
True Positive Partials
Codes involving 3 elements
O59728 RA13_SCHPO
Sequence Titles
Q61528      DNA-REPAIR PROTEIN COMPLEMENTING XP-G CELLS HOMOLOG (XERODERMA PIGMENTOSUM GROUP G COMPLEMENTING PROTEIN HOMOLOG) (DNA EXCISION REPAIR PROTEIN ERCC-5) - MUS MUSCULUS (MOUSE). 
Q64248 DNA-REPAIR PROTEIN COMPLEMENTING XP-G CELLS HOMOLOG (XERODERMA PIGMENTOSUM GROUP G COMPLEMENTING PROTEIN HOMOLOG) (DNA EXCISION REPAIR PROTEIN ERCC-5) - MUS MUSCULUS (MOUSE).
XPG_HUMAN DNA-REPAIR PROTEIN COMPLEMENTING XP-G CELLS (XERODERMA PIGMENTOSUM GROUP G COMPLEMENTING PROTEIN) (DNA EXCISION REPAIR PROTEIN ERCC-5) - HOMO SAPIENS (HUMAN).
XPG_MOUSE DNA-REPAIR PROTEIN COMPLEMENTING XP-G CELLS HOMOLOG (XERODERMA PIGMENTOSUM GROUP G COMPLEMENTING PROTEIN HOMOLOG) (DNA EXCISION REPAIR PROTEIN ERCC-5) - MUS MUSCULUS (MOUSE).
XPG_XENLA DNA-REPAIR PROTEIN COMPLEMENTING XP-G CELLS HOMOLOG (XERODERMA PIGMENTOSUM GROUP G COMPLEMENTING PROTEIN HOMOLOG) - XENOPUS LAEVIS (AFRICAN CLAWED FROG).

O59728 DNA REPAIR PROTEIN RAD13 - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
RA13_SCHPO DNA REPAIR PROTEIN RAD13 - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
Scan History
OWL30_0    1  50   NSINGLE    
SPTR37_9f 2 32 NSINGLE
Initial Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
GVQGLWKLLECSGRQVSP XPG_HUMAN 2 2 -
GVQGLWKLLECSGRQVSP A54439 2 2 -
GVQGLWKLLECSGHRVSP MMU40796 2 2 -
GVQGLWKLLECSGRQVSP I58009 2 2 -
GVQGLWKLLECSGHRVSP A57650 2 2 -
GVQGLWKLLECSGHRVSP XPG_MOUSE 2 2 -
GVQGLWKLLECSGRPINP XPG_XENLA 2 2 -

Motif 2 width=24
Element Seqn Id St Int Rpt
HLLTLFHRLCKLLFFRIRPIFVFD XPG_HUMAN 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD A54439 54 34 -
HPLTLFHRLCKLLFFRIRPIFVFD I58009 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD A57650 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD MMU40796 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD XPG_MOUSE 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD XPG_XENLA 54 34 -

Motif 3 width=23
Element Seqn Id St Int Rpt
DKASNDARKTNEKLLRTFLKRQA XPG_XENLA 96 18 -
DLASSDSRKTTEKLLKTFLKRQA A54439 96 18 -
DLASSDSRKTTEKLLKTFLKRQA I58009 96 18 -
DSASIDSRKTTEKLLKTFLKRQA A57650 96 18 -
DSASIDSRKTTEKLLKTFLKRQA MMU40796 96 18 -
DSASIDSRKTTEKLLKTFLKRQA XPG_MOUSE 96 18 -
DLASSDSRKTTEKLLKTFLKRQA XPG_HUMAN 96 18 -

Motif 4 width=19
Element Seqn Id St Int Rpt
LQEEFFHNPQAIDIESEDF XPG_MOUSE 175 56 -
LQEEFFHNPQAIDIESEDF A54439 175 56 -
LQEEFFHNPQAIDIESEDF I58009 175 56 -
LQEEFFHNPQAIDIESEDF A57650 175 56 -
LQEEFFHNPQAIDIESEDF MMU40796 175 56 -
LQEDFFANPSSVDIESEEF XPG_XENLA 179 60 -
LQEEFFHNPQAIDIESEDF XPG_HUMAN 175 56 -

Motif 5 width=26
Element Seqn Id St Int Rpt
RTLFEAMPEESDDFSQYQLKGLLKKN A54439 216 22 -
RTLFEAMPEDSSDFSQYQLKGLLKKN XPG_XENLA 220 22 -
RTLFEAMPEESDDFSQYQLKGLLKKN XPG_HUMAN 216 22 -
RTLFEAMPEESNDFSQYQLKGLLKKN MMU40796 216 22 -
RTLFEAMPEESNDFSQYQLKGLLKKN A57650 216 22 -
RTLFEAMPEESMDFSQYQLKGLLKKN XPG_MOUSE 216 22 -
RTLFEAMPEESDDFSQYQLKGLLKKN I58009 216 22 -

Motif 6 width=25
Element Seqn Id St Int Rpt
FLKEVESRRVVSEDTSHYILIKGIQ A57650 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ XPG_HUMAN 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ XPG_MOUSE 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ I58009 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ A54439 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ MMU40796 272 30 -
FLKEVETRRLVSEDDSHYILIKGIQ XPG_XENLA 276 30 -

Motif 7 width=19
Element Seqn Id St Int Rpt
ESEESESDGSFIEVQSVVS MMU40796 644 347 -
DSEESESDGSFIEVQSVIS A54439 644 347 -
DSEESESDGSFIEVQSVIS I58009 644 347 -
ESEESESDGSFIEVQSVVS A57650 644 347 -
ESEESESDGSFIEVQSVVS XPG_MOUSE 658 361 -
DSEESESDGSFIEVQSVIS XPG_HUMAN 644 347 -
EKEDSDSDDSFIEVDSEFS XPG_XENLA 680 379 -

Motif 8 width=17
Element Seqn Id St Int Rpt
EWQDINLEELETLESNL XPG_HUMAN 727 64 -
EWQDINLEELDALESNL MMU40796 726 63 -
EWQDINLEELDALESNL A57650 726 63 -
EWQDINLEELETLESNL I58009 727 64 -
EWQDINLEELETLESNL A54439 727 64 -
EWQDINLEELDALESNL XPG_MOUSE 740 63 -
EWQDISVEELESLENNL XPG_XENLA 760 61 -

Motif 9 width=21
Element Seqn Id St Int Rpt
EILNEFPGRGLDPLLKFSEWW A57650 875 132 -
EILNEFPGRGLDPLLKFSEWW XPG_MOUSE 889 132 -
EILNEFPGHGLEPLLKFSEWW XPG_HUMAN 876 132 -
EILNEFPGQGLEPLVKFKEWW XPG_XENLA 909 132 -
EILNEFPGHGLEPLLKFSEWW A54439 876 132 -
EILNEFPGHGLEPLLKFSEWW I58009 875 131 -
EILNEFPGRGLDPLLKFSEWW MMU40796 875 132 -

Motif 10 width=21
Element Seqn Id St Int Rpt
PVLKQLDAQQTQLRIDSFFRL I58009 978 82 -
PVLKHLNAHQTQLRIDSFFRL XPG_MOUSE 992 82 -
PVLKQLDAQQTQLRIDSFFRL XPG_HUMAN 979 82 -
PVLKQLNAQQTQLRIDSFFRL XPG_XENLA 1012 82 -
PVLKHLNAHQTQLRIDSFFRL MMU40796 978 82 -
PVLKHLNAHQTQLRIDSFFRL A57650 978 82 -
PVLKQLDAQQTQLRIDSFFRL A54439 979 82 -
Final Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
GVQGLWKLLECSGHRVSP Q61528 2 2 -
GVQGLWKLLECSGHRVSP Q64248 2 2 -
GVQGLWKLLECSGHRVSP XPG_MOUSE 2 2 -
GVQGLWKLLECSGRQVSP XPG_HUMAN 2 2 -
GVQGLWKLLECSGRPINP XPG_XENLA 2 2 -

Motif 2 width=24
Element Seqn Id St Int Rpt
HLLTLFHRLCKLLFFRIRPIFVFD Q61528 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD Q64248 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD XPG_MOUSE 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD XPG_HUMAN 54 34 -
HLLTLFHRLCKLLFFRIRPIFVFD XPG_XENLA 54 34 -

Motif 3 width=23
Element Seqn Id St Int Rpt
DSASIDSRKTTEKLLKTFLKRQA Q61528 96 18 -
DSASIDSRKTTEKLLKTFLKRQA Q64248 96 18 -
DSASIDSRKTTEKLLKTFLKRQA XPG_MOUSE 96 18 -
DLASSDSRKTTEKLLKTFLKRQA XPG_HUMAN 96 18 -
DKASNDARKTNEKLLRTFLKRQA XPG_XENLA 96 18 -

Motif 4 width=19
Element Seqn Id St Int Rpt
LQEEFFHNPQAIDIESEDF Q61528 175 56 -
LQEEFFHNPQAIDIESEDF Q64248 175 56 -
LQEEFFHNPQAIDIESEDF XPG_MOUSE 175 56 -
LQEEFFHNPQAIDIESEDF XPG_HUMAN 175 56 -
LQEDFFANPSSVDIESEEF XPG_XENLA 179 60 -

Motif 5 width=26
Element Seqn Id St Int Rpt
RTLFEAMPEESNDFSQYQLKGLLKKN Q61528 216 22 -
RTLFEAMPEESNDFSQYQLKGLLKKN Q64248 216 22 -
RTLFEAMPEESMDFSQYQLKGLLKKN XPG_MOUSE 216 22 -
RTLFEAMPEESDDFSQYQLKGLLKKN XPG_HUMAN 216 22 -
RTLFEAMPEDSSDFSQYQLKGLLKKN XPG_XENLA 220 22 -

Motif 6 width=25
Element Seqn Id St Int Rpt
FLKEVESRRVVSEDTSHYILIKGIQ Q61528 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ Q64248 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ XPG_MOUSE 272 30 -
FLKEVESRRVVSEDTSHYILIKGIQ XPG_HUMAN 272 30 -
FLKEVETRRLVSEDDSHYILIKGIQ XPG_XENLA 276 30 -

Motif 7 width=19
Element Seqn Id St Int Rpt
ESEESESDGSFIEVQSVVS Q61528 644 347 -
ESEESESDGSFIEVQSVVS Q64248 644 347 -
ESEESESDGSFIEVQSVVS XPG_MOUSE 658 361 -
DSEESESDGSFIEVQSVIS XPG_HUMAN 644 347 -
EKEDSDSDDSFIEVDSEFS XPG_XENLA 680 379 -

Motif 8 width=17
Element Seqn Id St Int Rpt
EWQDINLEELDALESNL Q61528 726 63 -
EWQDINLEELDALESNL Q64248 726 63 -
EWQDINLEELDALESNL XPG_MOUSE 740 63 -
EWQDINLEELETLESNL XPG_HUMAN 727 64 -
EWQDISVEELESLENNL XPG_XENLA 760 61 -

Motif 9 width=21
Element Seqn Id St Int Rpt
EILNEFPGRGLDPLLKFSEWW Q61528 875 132 -
EILNEFPGRGLDPLLKFSEWW Q64248 875 132 -
EILNEFPGRGLDPLLKFSEWW XPG_MOUSE 889 132 -
EILNEFPGHGLEPLLKFSEWW XPG_HUMAN 876 132 -
EILNEFPGQGLEPLVKFKEWW XPG_XENLA 909 132 -

Motif 10 width=21
Element Seqn Id St Int Rpt
PVLKHLNAHQTQLRIDSFFRL Q61528 978 82 -
PVLKHLNAHQTQLRIDSFFRL Q64248 978 82 -
PVLKHLNAHQTQLRIDSFFRL XPG_MOUSE 992 82 -
PVLKQLDAQQTQLRIDSFFRL XPG_HUMAN 979 82 -
PVLKQLNAQQTQLRIDSFFRL XPG_XENLA 1012 82 -