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PR00793

Identifier
PROAMNOPTASE  [View Relations]  [View Alignment]  
Accession
PR00793
No. of Motifs
3
Creation Date
10-JUN-1997  (UPDATE 28-JUN-1999)
Title
Prolyl aminopeptidase (S33) family signature
Database References

PROSITE; PS00120 LIPASE_SER
BLOCKS; BL00120
INTERPRO; IPR002410
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. ALBERTSON, N.H. AND  KOOMEY, M.
Molecular cloning and characterization of a proline iminopeptidase gene
from Neisseria gonorrhoeae.
MOL.MICROBIOL. 9 1203-1211 (1993).

Documentation
Proteolytic enzymes that use serine in their catalytic machinery are 
widespread and numerous, being found in viruses, bacteria and eukaryotes
[1]. They encompass a range of peptidase activity, including exopeptidase,
endopeptidase, oligopeptidase and omega-peptidase. More than 20 serine
protease families (denoted S1 - S27) have been identified, which have been
grouped into 6 clans (SA, SB, SC, SE, SF and SG) on the basis of structural
and functional similarities [1]. Structures are known for four of the clans
(SA, SB, SC and SE): these appear to be unrelated, suggesting at least four
evolutionary origins of serine peptidase, and possibly many more [1].
 
There are similarities in the reaction mechanisms of several peptidases
from different evolutionary origins. Chymotrypsin, subtilisin and
carboxypeptidase C clans exploit a catalytic triad of serine, aspartate
and histidine, in which 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 arrangement of the catalytic residues
commonly reflect clan relationships. For example, in the chymotrypsin clan
(SA), the catalytic triad is ordered HDS, whereas it is ordered DHS in the
subtilisin clan (SB), and SDH in the carboxypeptidase clan (SC) [1,2].
 
Prolyl aminopeptidase is an ~350 residue serine peptidase that selectively
cleaves N-terminal proline residues [1,3]. Sequence analysis has indicated
similarity to the carboxypeptidase C family (S8), and hence this peptiase
can be grouped into the SC clan [1].
 
PROAMNOPTASE is a 3-element fingerprint that provides a signature for the
proline aminopeptidase family (S33) of serine peptidases. The fingerprint
was derived from an initial alignment of 7 sequences: the motifs were drawn
from conserved regions within the N-terminal portion of the alignment -
motif 2 contains an aspartate that may be involved in catalysis; and motif
3 includes the region encoded by PROSITE pattern LIPASE_SER (PS00120), which
contains the active serine. Two iterations on OWL29.3 were required to
reach convergence, at which point a true set comprising 21 sequences was
identified. Three partial matches were also found, all of which lack the
portion of sequence bearing motif 1.
 
An update on SPTR37_9f identified a true set of 24 sequences, and 6
partial matches.
Summary Information
  24 codes involving  3 elements
6 codes involving 2 elements
Composite Feature Index
3242424
2066
123
True Positives
O05420        O32449        O33480        O53852        
O69785 O83041 P70981 P74847
P93732 P94800 P96084 PIP_AERSO
PIP_BACCO PIP_LACDE PIP_LACDL PIP_LACHE
PIP_MYCGE PIP_MYCPN PIP_NEIGO PIP_XANCI
Q48531 Q48556 Q48570 YZZE_ECOLI
True Positive Partials
Codes involving 2 elements
O02218 O22975 O23227 O87637
P95959 Q13855
Sequence Titles
O05420      PROLYL AMINOPEPTIDASE - FLAVOBACTERIUM MENINGOSEPTICUM. 
O32449 PROLYL AMINOPEPTIDASE - SERRATIA MARCESCENS.
O33480 PROLINE IMINOPEPTIDASE - PROPIONIBACTERIUM FREUDENREICHII SHERMANII.
O53852 HYPOTHETICAL 31.9 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
O69785 PROLINASE - LACTOBACILLUS RHAMNOSUS.
O83041 PROLINE IMINOPEPTIDASE - PLECTONEMA BORYANUM.
P70981 HYPOTHETICAL 36.9 KD PROTEIN - BACILLUS SUBTILIS.
P74847 PROLINE IMINOPEPTIDASE LIKE PROTEIN - SALMONELLA TYPHIMURIUM.
P93732 PROLINE IMINOPEPTIDASE - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
P94800 PROLYL AMINOPEPTIDASE - HAFNIA ALVEI.
P96084 PROLINE IMINOPEPTIDASE - THERMOPLASMA ACIDOPHILUM.
PIP_AERSO PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - AEROMONAS SOBRIA.
PIP_BACCO PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - BACILLUS COAGULANS.
PIP_LACDE PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - LACTOBACILLUS DELBRUECKII (SUBSP. BULGARICUS).
PIP_LACDL PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - LACTOBACILLUS DELBRUECKII (SUBSP. LACTIS).
PIP_LACHE PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - LACTOBACILLUS HELVETICUS.
PIP_MYCGE PUTATIVE PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - MYCOPLASMA GENITALIUM.
PIP_MYCPN PUTATIVE PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - MYCOPLASMA PNEUMONIAE.
PIP_NEIGO PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - NEISSERIA GONORRHOEAE.
PIP_XANCI PROLINE IMINOPEPTIDASE (EC 3.4.11.5) (PROLYL AMINOPEPTIDASE) - XANTHOMONAS CAMPESTRIS (PV. CITRI).
Q48531 LEUCYL AMINOPEPTIDASE - LACTOBACILLUS DELBRUECKII.
Q48556 PROLINASE - LACTOBACILLUS HELVETICUS.
Q48570 PROLINASE - LACTOBACILLUS HELVETICUS.
YZZE_ECOLI HYPOTHETICAL 49.6 KD PROTEIN IN OMPP 3'REGION PRECURSOR - ESCHERICHIA COLI.

O02218 C25A1.12 PROTEIN - CAENORHABDITIS ELEGANS.
O22975 T19F06.4 PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O23227 HYPOTHETICAL 41.9 KD PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O87637 LACTONE-SPECIFIC ESTERASE - PSEUDOMONAS FLUORESCENS.
P95959 ORF C04020 - SULFOLOBUS SOLFATARICUS.
Q13855 BIPHENYL HYDROLASE-RELATED PROTEIN - HOMO SAPIENS (HUMAN).
Scan History
OWL29_3    2  100  NSINGLE    
SPTR37_9f 2 120 NSINGLE
Initial Motifs
Motif 1  width=9
Element Seqn Id St Int Rpt
LLLLHGGPG PIP_LACDE 30 30 -
LVLLHGGPG PIP_LACHE 29 29 -
VLYIHGGPG PIP_MYCGE 32 32 -
VVMLHGGPG PIP_XANCI 37 37 -
VIFLHGGPG PIP_NEIGO 34 34 -
LLYLQGGPG PIP_AERSO 53 53 -
VIIISGGPG YZZE_ECOLI 96 96 -

Motif 2 width=12
Element Seqn Id St Int Rpt
VIMYDQLGCGNS PIP_LACDE 58 19 -
IIMYDQLGCGES PIP_LACHE 57 19 -
IILLDQRGCGKS PIP_MYCGE 58 17 -
IVLFDQRGSGRS PIP_XANCI 63 17 -
IVIIDQRGCGRS PIP_NEIGO 60 17 -
VLLLDQRGTGHS PIP_AERSO 83 21 -
IIGFDPRGVGQS YZZE_ECOLI 127 22 -

Motif 3 width=15
Element Seqn Id St Int Rpt
LLGQSWGGMLALIYL PIP_LACDE 103 33 -
LLGQSWGGMLAIIYM PIP_LACHE 101 32 -
LFGGSWGSALALVYA PIP_MYCGE 101 31 -
VFGGSWGSTLALAYA PIP_XANCI 106 31 -
VFGGSWGSTLSLAYA PIP_NEIGO 103 31 -
LLGQSFGGFCSLTYL PIP_AERSO 141 46 -
AVAYSYGTQIAALYA YZZE_ECOLI 203 64 -
Final Motifs
Motif 1  width=9
Element Seqn Id St Int Rpt
LLLLHGGPG PIP_LACDE 30 30 -
LLLLHGGPG PIP_LACDL 29 29 -
ALYVHGGPG PIP_MYCPN 32 32 -
LVLLHGGPG PIP_LACHE 29 29 -
VLYIHGGPG PIP_MYCGE 32 32 -
VVMLHGGPG PIP_XANCI 37 37 -
VIVLHGGPG PIP_BACCO 28 28 -
AVFIHGGPG O32449 40 40 -
VVFLHGGPG P93732 48 48 -
LLALHGGPG Q48556 28 28 -
LLALHGGPG Q48570 28 28 -
VVFLHGGPG O83041 37 37 -
VIFLHGGPG PIP_NEIGO 34 34 -
LLCLHGGPG O69785 28 28 -
LLFLHGGPG P70981 35 35 -
LLCVHGGPG Q48531 27 27 -
LLVVHGGPG O53852 25 25 -
LMTMHGGPG P96084 31 31 -
LIILHGGPS P74847 32 32 -
LLFLQGGPG P94800 53 53 -
LLYLQGGPG PIP_AERSO 53 53 -
LLFLQGGPG O33480 50 50 -
VLLLHGGPA O05420 26 26 -
VIIISGGPG YZZE_ECOLI 96 96 -

Motif 2 width=12
Element Seqn Id St Int Rpt
VIMYDQLGCGNS PIP_LACDE 58 19 -
VIMYDQLGCGNS PIP_LACDL 57 19 -
VILLDQRGCGQS PIP_MYCPN 58 17 -
IIMYDQLGCGES PIP_LACHE 57 19 -
IILLDQRGCGKS PIP_MYCGE 58 17 -
IVLFDQRGSGRS PIP_XANCI 63 17 -
VILYDQLGCGKS PIP_BACCO 54 17 -
VLLFDQRGCGRS O32449 66 17 -
IVLFDQRGAGKS P93732 74 17 -
VTMYDQLGSLYS Q48556 58 21 -
VTMYDQLGSLYS Q48570 58 21 -
IILFDQRGAGKS O83041 63 17 -
IVIIDQRGCGRS PIP_NEIGO 60 17 -
VHMYDQLGSFYS O69785 56 19 -
VVHWDQRGSGLS P70981 63 19 -
VYSYDQLGSYWS Q48531 55 19 -
VIFWDQLGCGNS O53852 51 17 -
VLFYDQFGCGRS P96084 58 18 -
VIFYDQYGCGRS P74847 59 18 -
VILLDQRGTGQS P94800 83 21 -
VLLLDQRGTGHS PIP_AERSO 83 21 -
LVFLDQRGTGLS O33480 83 24 -
FYEYDQLGSYYS O05420 54 19 -
IIGFDPRGVGQS YZZE_ECOLI 127 22 -

Motif 3 width=15
Element Seqn Id St Int Rpt
LLGQSWGGMLALIYL PIP_LACDE 103 33 -
LLGQSWGGMLALIYL PIP_LACDL 102 33 -
LFGGSWGSTLALVYA PIP_MYCPN 101 31 -
LLGQSWGGMLAIIYM PIP_LACHE 101 32 -
LFGGSWGSALALVYA PIP_MYCGE 101 31 -
VFGGSWGSTLALAYA PIP_XANCI 106 31 -
ILGHSWGTTLAAAYC PIP_BACCO 97 31 -
VFGGSWGSTLALAYA O32449 109 31 -
VFGGSWGSTLALAYS P93732 117 31 -
LIGQSWGGLLVQEYA Q48556 107 37 -
LIGQSWGGLLVQEYA Q48570 107 37 -
VFGGSWGSTLSLAYS O83041 106 31 -
VFGGSWGSTLSLAYA PIP_NEIGO 103 31 -
LIGQSWGGALTQLYA O69785 105 37 -
LAGHSWGSILALHVL P70981 111 36 -
LLGHSWGGLLAQEYA Q48531 103 36 -
IFSHSWGGMLAQQYV O53852 94 31 -
LMGSSYGGALALAYA P96084 101 31 -
ILGHSWGGMLAAEHA P74847 105 34 -
TLGQSFGGFITLTYL P94800 141 46 -
LLGQSFGGFCSLTYL PIP_AERSO 141 46 -
VLGQSFGGFTALHYL O33480 137 42 -
VLGNSWGGILAMEYA O05420 99 33 -
AVAYSYGTQIAALYA YZZE_ECOLI 203 64 -