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PR00729

Identifier
CDVENDOPTASE  [View Relations]  [View Alignment]  
Accession
PR00729
No. of Motifs
3
Creation Date
01-JUN-1997  (UPDATE 10-JUN-1999)
Title
Cattle diarrhoea virus endopeptidase P80 (S31) signature
Database References

INTERPRO; IPR000280
Literature References
1. RAWLINGS, N.D. AND BARRETT, A.J.
Families of serine peptidases.
METHODS ENZYMOL. 244 19-61 (1994).
 
2. RAWLINGS, N.D AND BARRETT, A.J.
Evolutionary families of peptidases.
BIOCHEM.J. 290 205-218 (1993).
 
3. WISKERCHEN, M. AND COLLETT, M.S.
Pestivirus gene expression: protein p80 of bovine viral diarrhoea virus is a
proteinase involved in polyprotein processing.
VIROLOGY 184 341-350 (1991).
 
4. BAZAN, J.F. AND FLETTERICK, R.J.
Detection of a trypsin-like serine protease domain in flaviviruses and
pestiviruses.
VIROLOGY 171 637-639 (1989).

Documentation
Proteolytic enzymes that exploit serine in their catalytic activity are
ubiquitous, being found in viruses, bacteria and eukaryotes [1]. They
include a wide range of peptidase activity, including exopeptidase, endo-
peptidase, oligopeptidase and omega-peptidase activity. Over 20 families
(denoted S1 - S27) of serine protease have been identified, these being
grouped into 6 clans (SA, SB, SC, SE, SF and SG) on the basis of structural
similarity and other functional evidence [1]. Structures are known for four
of the clans (SA, SB, SC and SE): these appear to be totally unrelated,
suggesting at least four evolutionary origins of serine peptidases and
possibly many more [1].
 
Notwithstanding their different evolutionary origins, there are similarities
in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin
and carboxypeptidase C clans have a catalytic triad of serine, aspartate and 
histidine in common: serine acts as a nucleophile, aspartate as an
electrophile, and histidine as a base [1]. The geometric orientations of
the catalytic residues are similar between families, despite different 
protein folds [1]. The linear arrangements of the catalytic residues
commonly reflect clan relationships. For example the catalytic triad in 
the chymotrypsin clan (SA) is ordered HDS, but is ordered DHS in the
subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [1,2].
 
Cattle diarrhoea virus and hog cholera virus belong to the pestiviruses, 
single-stranded RNA viruses whose genomes encode one large polyprotein [1].
The p80 endopeptidase resides towards the middle of the polyprotein and is
responsible for processing all non-structural pestivirus proteins [1,3].
The p80 enzyme is similar to other proteases in the SA clan and is predicted 
to have a fold similar to that of chymotrypsin [1,4]. An HDS catalytic triad
has been identified [4].
 
CDVENDOPTASE is a 3-element fingerprint that provides a signature for the 
cattle virus p80 endopeptidase and related peptides (family S31). The 
fingerprint was derived from an initial alignment of 4 sequences: the motifs 
were drawn from conserved regions around the active site of the p80 protease
domain, the central residue of each motif being the active His, Asp and Ser
respectively. Two iterations on OWL29.3 were required to reach convergence,
at which point a true set comprising 30 sequences was identified. Three
partial matches were also found, all of which are fragments that lack one
of the 3 motifs.
 
An update on SPTR37_9f identified a true set of 24 sequences.
Summary Information
24 codes involving  3 elements
0 codes involving 2 elements
Composite Feature Index
3242424
2000
123
True Positives
O09461        O09710        O11993        O11994        
O92364 O92365 O92366 O92872
P87514 POLG_BVDVN POLG_BVDVS POLG_HCVA
POLG_HCVB Q65464 Q65786 Q65815
Q68534 Q68535 Q68871 Q68872
Q68964 Q68965 Q96662 Q96891
Sequence Titles
O09461      PUTATIVE POLYPROTEIN - BORDER DISEASE VIRUS STRAIN C413. 
O09710 POLYPROTEIN - PESTIVIRUS TYPE 2.
O11993 CYTOPATHIC GENOMIC RNA, COMPLETE GENOME - MUCOSAL DISEASE VIRUS.
O11994 NONCYTOPATHIC GENOMIC RNA, COMPLETE GENOME - MUCOSAL DISEASE VIRUS.
O92364 POLYPROTEIN - HOG CHOLERA VIRUS.
O92365 POLYPROTEIN - BOVINE VIRAL DIARRHEA VIRUS STRAIN OREGON C24V.
O92366 POLYPROTEIN - HOG CHOLERA VIRUS.
O92872 POLYPROTEIN - MUCOSAL DISEASE VIRUS.
P87514 PESTIVIRUS POLYPROTEIN - PESTIVIRUS TYPE 3.
POLG_BVDVN GENOME POLYPROTEIN - BOVINE VIRAL DIARRHEA VIRUS (ISOLATE NADL) (BVDV) (MUCOSAL DISEASE VIRUS).
POLG_BVDVS GENOME POLYPROTEIN - BOVINE VIRAL DIARRHEA VIRUS (STRAIN SD-1) (BVDV) (MUCOSAL DISEASE VIRUS).
POLG_HCVA GENOME POLYPROTEIN - HOG CHOLERA VIRUS (STRAIN ALFORT) (SWINE FEVER VIRUS).
POLG_HCVB GENOME POLYPROTEIN - HOG CHOLERA VIRUS (STRAIN BRESCIA) (SWINE FEVER VIRUS).
Q65464 POLYPROTEIN - BORDER DISEASE VIRUS STRAIN X818.
Q65786 POLYPROTEIN - MUCOSAL DISEASE VIRUS.
Q65815 POLYPROTEIN - MUCOSAL DISEASE VIRUS.
Q68534 POLYPROTEIN - HOG CHOLERA VIRUS.
Q68535 POLYPROTEIN - HOG CHOLERA VIRUS.
Q68871 HOG CHOLERA VIRUS - HOG CHOLERA VIRUS.
Q68872 COMPLETE GENOME - HOG CHOLERA VIRUS.
Q68964 HOG CHOLERA VIRUS POLYPROTEIN - HOG CHOLERA VIRUS.
Q68965 HOG CHOLERA VIRUS POLYPROTEIN - HOG CHOLERA VIRUS.
Q96662 POLYPROTEIN - MUCOSAL DISEASE VIRUS.
Q96891 POLYPROTEIN - HOG CHOLERA VIRUS.
Scan History
OWL29_3    2  100  NSINGLE    
SPTR37_9f 2 26 NSINGLE
Initial Motifs
Motif 1  width=29
Element Seqn Id St Int Rpt
GWAYTHQGGISSVDHVTCGKDLLVCDTMG POLG_HCVA 1644 1644 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG POLG_BVDVS 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG POLG_HCVB 1644 1644 -
AWAYTHQGGISSVDHVTAGKDLLVCDSMG POLG_BVDVN 1734 1734 -

Motif 2 width=29
Element Seqn Id St Int Rpt
NNKMTDESEYGVKTDSGCPEGARCYVFNP POLG_HCVA 1681 8 -
NNKLTDETEYGVKTDSGCPDGARCYVLNP POLG_BVDVS 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNR POLG_HCVB 1681 8 -
NNRLTDETEYGVKTDSGCPDGARCYVLNP POLG_BVDVN 1771 8 -

Motif 3 width=29
Element Seqn Id St Int Rpt
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_HCVA 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_BVDVS 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_HCVB 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_BVDVN 1828 28 -
Final Motifs
Motif 1  width=29
Element Seqn Id St Int Rpt
GWAYTHQGGISSVDHVTCGKDLLVCDTMG O09710 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG O92364 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG O92366 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG POLG_HCVA 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q68534 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q68535 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q68871 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q68872 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q68964 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q68965 1644 1644 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG Q96891 1644 1644 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG POLG_BVDVS 1644 1644 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG Q96662 1653 1653 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG Q65815 1721 1721 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG Q65464 1641 1641 -
GCAYTHQGGISSVDHVTAGKDLLVCDSMG P87514 1642 1642 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG O09461 1642 1642 -
GWAYTHQGGISSVDHVTCGKDLLVCDTMG POLG_HCVB 1644 1644 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG Q65786 1718 1718 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG O92365 1644 1644 -
GWAYTHQGGISSVDHVTAGKDLLVCDSMG O92872 1644 1644 -
AWAYTHQGGISSVDHVTAGKDLLVCDSMG POLG_BVDVN 1734 1734 -
GLGLTHQGGISSVDHVTAGKDLLVCDSMG O11994 1644 1644 -
GLGLTHQGGISSVDHVTTGKDRLVCDSMG O11993 1644 1644 R1
GLGLTHQGGISSVDHVTTGKDRLVCDSMG O11993 2729 2729 R2

Motif 2 width=29
Element Seqn Id St Int Rpt
NNKMTDESEYGVKTDSGCPEGARCYVFNP O09710 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP O92364 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP O92366 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP POLG_HCVA 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q68534 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q68535 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q68871 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q68872 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q68964 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q68965 1681 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNP Q96891 1681 8 -
NNKLTDETEYGVKTDSGCPDGARCYVLNP POLG_BVDVS 1681 8 -
NNKLTDETEYGVKTDSGCPDGARCYVLNP Q96662 1690 8 -
NNKLTDETEYGVKTDSGCPDGARCYVLNP Q65815 1758 8 -
NNRMTDETEYGVKTDSGCPEGARCYVFNP Q65464 1678 8 -
NNKMTDETEYGVKTDSGCPEGARCYVFNP P87514 1679 8 -
NNKMTDETEYGIKTDSGCPEGARCYVLNP O09461 1679 8 -
NNKMTDESEYGVKTDSGCPEGARCYVFNR POLG_HCVB 1681 8 -
NNKMTDETEYGIKTDSGCPEGARCYVLNP Q65786 1755 8 -
NNRLTDETEYGVKTDSGCPDGARCYVLNP O92365 1681 8 -
NNRLTDETEYGVKTDSGCPDGARCYVLNP O92872 1681 8 -
NNRLTDETEYGVKTDSGCPDGARCYVLNP POLG_BVDVN 1771 8 -
NNKLTDETEYGVKTDSGCPDGARCYVLNP O11994 1681 8 -
NNKLTDETEYGVKTDSGCPDGARCYVLNP O11993 1681 8 R1
NNKLTDETEYGVKTDSGCPDGARCYVLNP O11993 2766 8 R2

Motif 3 width=29
Element Seqn Id St Int Rpt
GTPAFFDLKNLKGWSGLPIFEASSGRVVG O09710 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG O92364 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG O92366 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_HCVA 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q68534 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q68535 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q68871 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q68872 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q68964 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q68965 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q96891 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_BVDVS 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q96662 1747 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q65815 1815 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q65464 1735 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG P87514 1736 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG O09461 1736 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_HCVB 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG Q65786 1812 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG O92365 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG O92872 1738 28 -
GTPAFFDLKNLKGWSGLPIFEASSGRVVG POLG_BVDVN 1828 28 -
GTPAFFDLKNKKGWSGLPIFEASSGRVVG O11994 1738 28 -
GTPAFFDSKNLKGGSNPPIFEASSGRMVG O11993 1738 28 R1
GTPAFFDSKNLKGGSNPPIFEASSGRMVG O11993 2823 28 R2