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PR00749

Identifier
LYSOZYMEG  [View Relations]  [View Alignment]  
Accession
PR00749
No. of Motifs
8
Creation Date
04-JUN-1997  (UPDATE 07-JUN-1999)
Title
Lysozyme G signature
Database References

INTERPRO; IPR002152
PDB; 153L
SCOP; 153L
CATH; 153L
Literature References
1. WEAVER, L.H., GRUTTER, M.G. AND MATTHEWS, B.W.
The refined structures of goose lysozyme and its complex with a bound
trisaccharide show that the "goose-type" lysozymes lack a catalytic
aspartate residue. 
J.MOL.BIOL. 245(1) 54-68 (1995).
 
2. HENRISSAT, B. AND BAIROCH, A.
Updating the sequence-based classification of glycosyl hydrolases.
BIOCHEM.J. 316 695-696 (1996).

Documentation
Goose-type lysozyme (lysozyme G) hydrolyses 1,4-beta-linkages between
N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan hetero-
polymers of prokaryote cell walls. Lysozyme G shows preference for 
N-acetylmuramic acid residues that are substituted with a peptide moiety;
it acts only as a glycanohydrolase.
 
The structure of goose egg-white lysozyme (GEWL) with a bound trisaccharide
has been refined to 1.6A resolution [1]. The trisaccharide occupies
analogous sites to the B, C and D subsites of chicken (HEWL) and phage T4
(T4L) lysozymes. All of these enzymes display the same characteristic 
hydrogen bonding pattern between protein and substrate [1]. Glu73 of GEWL 
corresponds closely to Glu35 of HEWL (Glu11 of T4L), supporting the view
that this group is critical to the catalytic mechanism. However, lysozyme G
has no obvious counterpart to Asp52 of chicken lysozyme (Asp20 in T4L),
suggesting that a second acidic residue is not essential for its catalytic
activity, and may not be required for the activity of other lysozymes.
 
The structure of GEWL belongs to the mainly alpha class, its sequence
showing no discernible similarity to other lysozymes. The enzyme has
been classified as belonging to family 23 of glycosyl hydrolases [2]
(http://expasy.hcuge.ch/cgi-bin/lists?glycosid.txt).
 
LYSOZYMEG is an 8-element fingerprint that provides a signature for
lysozyme G. The fingerprint was derived from an initial alignment of 4
sequences: the motifs were drawn from conserved regions spanning the
full alignment length - motif 1 spans the first 3 helices; motif 2 spans
helices 4 and 5; motif 3 encompasses part of helices 6 and 7; motif 4 spans
the C-terminus of helix 7 and the first beta-strand; motif 5 includes the
second beta-strand; motif 6 encompasses part of helices 8 and 9; motif 7
spans the C-terminus of helix 9 and helix 10; and motif 8 spans helices 11
and 12. A single iteration on OWL29.3 was required to reach convergence,
no further sequences being identified beyond the starting set. 
 
An update on SPTR37_9f identified a true set of 4 sequences.
Summary Information
4 codes involving  8 elements
0 codes involving 7 elements
0 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
844444444
700000000
600000000
500000000
400000000
300000000
200000000
12345678
True Positives
LYG_ANSAN     LYG_CHICK     LYG_CYGAT     LYG_STRCA     
Sequence Titles
LYG_ANSAN   LYSOZYME G (EC 3.2.1.17) (1,4-BETA-N-ACETYLMURAMIDASE) (GOOSE-TYPE LYSOZYME) - ANSER ANSER ANSER (WESTERN GRAYLAG GOOSE). 
LYG_CHICK LYSOZYME G PRECURSOR (EC 3.2.1.17) (1,4-BETA-N-ACETYLMURAMIDASE) (GOOSE-TYPE LYSOZYME) - GALLUS GALLUS (CHICKEN).
LYG_CYGAT LYSOZYME G (EC 3.2.1.17) (1,4-BETA-N-ACETYLMURAMIDASE) (GOOSE-TYPE LYSOZYME) - CYGNUS ATRATUS (BLACK SWAN).
LYG_STRCA LYSOZYME G (EC 3.2.1.17) (1,4-BETA-N-ACETYLMURAMIDASE) (GOOSE-TYPE LYSOZYME) - STRUTHIO CAMELUS (OSTRICH).
Scan History
OWL29_3    1  25   NSINGLE    
SPTR37_9f 2 6 NSINGLE
Initial Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
CYGNVNRIDTTGASCKTAKPE LYG_ANSAN 4 4 -
CYGNVNRIDTTGASCKTAKPE LYG_CYGAT 4 4 -
CYGDVNRVDTTGASCKSAKPE LYG_STRCA 4 4 -
CYGSVSRIDTTGASCRTAKPE LYG_CHICK 30 30 -

Motif 2 width=22
Element Seqn Id St Int Rpt
YCGVSASKKIAERDLQAMDRYK LYG_ANSAN 28 3 -
YCGVPASKTIAERDLKAMDRYK LYG_CYGAT 28 3 -
YCGVAASRKIAERDLQSMDRYK LYG_STRCA 28 3 -
YCGVRASRTIAERDLGSMNKYK LYG_CHICK 54 3 -

Motif 3 width=19
Element Seqn Id St Int Rpt
IKKVGEKLCVEPAVIAGII LYG_ANSAN 52 2 -
IKKVGEKLCVEPAVIAGII LYG_CYGAT 52 2 -
IKKVGQKLCVDPAVIAGII LYG_STRCA 52 2 -
IKRVGEALCIEPAVIAGII LYG_CHICK 78 2 -

Motif 4 width=21
Element Seqn Id St Int Rpt
SRESHAGKVLKNGWGDRGNGF LYG_ANSAN 71 0 -
SRESHAGKVLKNGWGDRGNGF LYG_CYGAT 71 0 -
SRESHAGKALRNGWGDNGNGF LYG_STRCA 71 0 -
SRESHAGKILKNGWGDRGNGF LYG_CHICK 97 0 -

Motif 5 width=19
Element Seqn Id St Int Rpt
GLMQVDKRSHKPQGTWNGE LYG_ANSAN 92 0 -
GLMQVDKRSHKPQGTWNGE LYG_CYGAT 92 0 -
GLMQVDRRSHKPVGEWNGE LYG_STRCA 92 0 -
GLMQVDKRYHKIEGTWNGE LYG_CHICK 118 0 -

Motif 6 width=17
Element Seqn Id St Int Rpt
KTIQKKFPSWTKDQQLK LYG_ANSAN 125 14 -
KRIQKKFPSWTKDQQLK LYG_CYGAT 125 14 -
KAIQKKFPRWTKEQQLK LYG_STRCA 125 14 -
KKIQRKFPRWTRDQQLK LYG_CHICK 151 14 -

Motif 7 width=22
Element Seqn Id St Int Rpt
GGISAYNAGAGNVRSYARMDIG LYG_ANSAN 142 0 -
GGISAYNAGAGNVRSYARMDIG LYG_CYGAT 142 0 -
GGISAYNAGPGNVRSYERMDIG LYG_STRCA 142 0 -
GGISAYNAGVGNVRSYERMDIG LYG_CHICK 168 0 -

Motif 8 width=21
Element Seqn Id St Int Rpt
TTHDDYANDVVARAQYYKQHG LYG_ANSAN 164 0 -
TTHDDYANDVVARAQYYKQHG LYG_CYGAT 164 0 -
TTHDDYANDVVARAQYYKQHG LYG_STRCA 164 0 -
TLHDDYSNDVVARAQYFKQHG LYG_CHICK 190 0 -
Final Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
CYGNVNRIDTTGASCKTAKPE LYG_ANSAN 4 4 -
CYGNVNRIDTTGASCKTAKPE LYG_CYGAT 4 4 -
CYGDVNRVDTTGASCKSAKPE LYG_STRCA 4 4 -
CYGSVSRIDTTGASCRTAKPE LYG_CHICK 30 30 -

Motif 2 width=22
Element Seqn Id St Int Rpt
YCGVSASKKIAERDLQAMDRYK LYG_ANSAN 28 3 -
YCGVPASKTIAERDLKAMDRYK LYG_CYGAT 28 3 -
YCGVAASRKIAERDLQSMDRYK LYG_STRCA 28 3 -
YCGVRASRTIAERDLGSMNKYK LYG_CHICK 54 3 -

Motif 3 width=19
Element Seqn Id St Int Rpt
IKKVGEKLCVEPAVIAGII LYG_ANSAN 52 2 -
IKKVGEKLCVEPAVIAGII LYG_CYGAT 52 2 -
IKKVGQKLCVDPAVIAGII LYG_STRCA 52 2 -
IKRVGEALCIEPAVIAGII LYG_CHICK 78 2 -

Motif 4 width=21
Element Seqn Id St Int Rpt
SRESHAGKVLKNGWGDRGNGF LYG_ANSAN 71 0 -
SRESHAGKVLKNGWGDRGNGF LYG_CYGAT 71 0 -
SRESHAGKALRNGWGDNGNGF LYG_STRCA 71 0 -
SRESHAGKILKNGWGDRGNGF LYG_CHICK 97 0 -

Motif 5 width=19
Element Seqn Id St Int Rpt
GLMQVDKRSHKPQGTWNGE LYG_ANSAN 92 0 -
GLMQVDKRSHKPQGTWNGE LYG_CYGAT 92 0 -
GLMQVDRRSHKPVGEWNGE LYG_STRCA 92 0 -
GLMQVDKRYHKIEGTWNGE LYG_CHICK 118 0 -

Motif 6 width=17
Element Seqn Id St Int Rpt
KTIQKKFPSWTKDQQLK LYG_ANSAN 125 14 -
KRIQKKFPSWTKDQQLK LYG_CYGAT 125 14 -
KAIQKKFPRWTKEQQLK LYG_STRCA 125 14 -
KKIQRKFPRWTRDQQLK LYG_CHICK 151 14 -

Motif 7 width=22
Element Seqn Id St Int Rpt
GGISAYNAGAGNVRSYARMDIG LYG_ANSAN 142 0 -
GGISAYNAGAGNVRSYARMDIG LYG_CYGAT 142 0 -
GGISAYNAGPGNVRSYERMDIG LYG_STRCA 142 0 -
GGISAYNAGVGNVRSYERMDIG LYG_CHICK 168 0 -

Motif 8 width=21
Element Seqn Id St Int Rpt
TTHDDYANDVVARAQYYKQHG LYG_ANSAN 164 0 -
TTHDDYANDVVARAQYYKQHG LYG_CYGAT 164 0 -
TTHDDYANDVVARAQYYKQHG LYG_STRCA 164 0 -
TLHDDYSNDVVARAQYFKQHG LYG_CHICK 190 0 -