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PR01466

Identifier
ARGDEIMINASE  [View Relations]  [View Alignment]  
Accession
PR01466
No. of Motifs
6
Creation Date
08-JAN-2001
Title
Bacterial arginine deiminase signature
Database References

PFAM; PF02726 Arg_deiminase
INTERPRO; IPR003876
Literature References
1. BROWN, D.M., UPCROFT, J.A., EDWARDS, M.R. AND UPCROFT, P.
Anaerobic bacterial metabolism in the ancient eukaryote Giardia duodenalis.
INT.J.PARASITOL. 28 149-64 (1998).
 
2. HARASAWA, R., KOSHIMIZU, K., KITAGAWA, M., ASADA, K. AND KATO, I. 
Nucleotide sequence of the arginine deiminase gene of Mycoplasma hominis.
MICROBIOL.IMMUNOL. 36 661-665 (1992). 
 
3. KANAOKA, M., KAWANAKA, C., NEGORO, T., FUKITA, Y., TAYA, K. AND AGUI, H. 
Cloning and expression of the antitumor glycoprotein gene of Streptococcus 
pyogenes Su in Escherichia coli.
AGRIC.BIOL.CHEM. 51 2641-2648 (1987).
 
4. DEGNAN, B.A., PALMER, J.M., ROBSON, T., JONES, C.E., FISCHER, M., 
GLANVILLE, M., MELLOR, G.D., DIAMOND, A.G., KEHOE, M.A. AND GOODACRE, J.A. 
Inhibition of human peripheral blood mononuclear cell proliferation by 
Streptococcus pyogenes cell extract is associated with arginine deiminase 
activity.
INFECT.IMMUN. 66 3050-3058 (1998). 

Documentation
The arginine dihydrolase (AD) pathway is found in many prokaryotes and some
primitive eukaryotes, an example of the latter being Giardia [1}. The three- 
enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon 
dioxide and ammonia. In simpler bacteria, the first enzyme, arginine 
deiminase, can account for up to 10% of total cell protein [1].
 
Arginine deiminase catalyses the conversion of L-arginine to L-citrulline
and ammonia. As well as producing energy via ATP, the ammonia also serves
to protect the bacteria against acid damage, and the citrulline generated
can be used in other biosynthetic pathways [2]. A streptococcal acid 
glycoprotein (SAGP) has also been shown to function as an arginine
deiminase [3].
 
Recently, another function of this enzyme has been discovered [4]. It has a 
potent anti-tumour effect, and can inhibit antigen, superantigen, or mitogen
-stimulated human peripheral blood mononuclear cell proliferation [4]. 
Another function of the protein may be to inhibit cell proliferation by 
cell cycle arrest and apoptosis induction. It has thus been hypothesised 
that recombinant arginine deiminase could be used as a novel anti-tumour 
agent [4].
 
ARGDEIMINASE is a 6-element fingerprint that provides a signature for 
the bacterial arginine deiminase protein family. The fingerprint was
derived from an initial alignment of 4 sequences: the motifs were drawn from
conserved regions spanning the full alignment length (~430 amino acids). Two
iterations on SPTR37_10f were required to reach convergence, at which point 
a true set comprising 13 sequences was identified. Three partial matches 
were also found: P75475 and P75474 are Mycoplasma pneumoniae arginine 
deiminases that match the first three and the last three motifs respectively;
and Q48294 is a Halobacterium salinarium arginine deiminase that matches
motifs 2 and 6.
Summary Information
  13 codes involving  6 elements
0 codes involving 5 elements
0 codes involving 4 elements
2 codes involving 3 elements
1 codes involving 2 elements
Composite Feature Index
6131313131313
5000000
4000000
3111111
2010001
123456
True Positives
ARCA_MYCAR    ARCA_MYCHO    ARCA_PSEAE    ARCA_PSEPU    
ARCA_STRPY O05585 O31017 O51781
O51896 O53088 O86131 P75475
Q46254
True Positive Partials
Codes involving 3 elements
P75474 P75475
Codes involving 2 elements
Q48294
Sequence Titles
ARCA_MYCAR  ARGININE DEIMINASE (EC 3.5.3.6) - MYCOPLASMA ARGININI. 
ARCA_MYCHO ARGININE DEIMINASE (EC 3.5.3.6) - MYCOPLASMA HOMINIS.
ARCA_PSEAE ARGININE DEIMINASE (EC 3.5.3.6) - PSEUDOMONAS AERUGINOSA.
ARCA_PSEPU ARGININE DEIMINASE (EC 3.5.3.6) - PSEUDOMONAS PUTIDA.
ARCA_STRPY ARGININE DEIMASE (EC 3.5.3.6) (ADI) (ARGININE DIHYDROLASE) (AD) (STREPTOCOCCAL ACID GLYCOPROTEIN) - STREPTOCOCCUS PYOGENES.
O05585 ARCA - MYCOBACTERIUM TUBERCULOSIS.
O31017 ARCA (EC 3.5.3.6) (ARGININE DEIMINASE) (ARGININE DIHYDROLASE) - RHIZOBIUM ETLI.
O51781 ARGININE DEIMINASE (ARCA) - BORRELIA BURGDORFERI (LYME DISEASE SPIROCHETE).
O51896 ARCA - BORRELIA AFZELII.
O53088 ARGININE DEIMINASE (EC 3.5.3.6) (ARGININE DIHYDROLASE) - LACTOBACILLUS SAKE.
O86131 ARGININE DEIMINASE (EC 3.5.3.6) (ARGININE DIHYDROLASE) - BACILLUS LICHENIFORMIS.
P75475 ARGININE DEIMINASE - MYCOPLASMA PNEUMONIAE.
Q46254 ARGININE DEIMINASE - CLOSTRIDIUM PERFRINGENS.

P75474 ARGININE DEIMINASE - MYCOPLASMA PNEUMONIAE.
P75475 ARGININE DEIMINASE - MYCOPLASMA PNEUMONIAE.

Q48294 ARGININE DESAMINASE - HALOBACTERIUM SALINARIUM.
Scan History
SPTR37_10f 2  75   NSINGLE    
Initial Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
TKLGVHSEAGKLRKVMVCSPG ARCA_PSEAE 5 5 -
NGIHVYSEIGELETVLVHEPG ARCA_MYCHO 8 8 -
SGVRVTSEISFLREVIAHHPG P75475 32 32 -
TPIHVYSEIGKLKKVLLHRPG ARCA_STRPY 4 4 -

Motif 2 width=19
Element Seqn Id St Int Rpt
PMPNLYFTRDPFASVGNGV ARCA_MYCHO 150 121 -
PLSFSLYPHKFFNTLGTGV P75475 180 127 -
PMPNLYFTRDPFATIGTGV ARCA_STRPY 156 131 -
PLPNTQFTRDTTCWIYGGV ARCA_PSEAE 156 130 -

Motif 3 width=16
Element Seqn Id St Int Rpt
LKRHSLVYEYIMRFHP P75475 208 9 -
RNRETLYGKYIFTHHP ARCA_STRPY 184 9 -
RRQETLLTTAIYKFHP ARCA_PSEAE 184 9 -
RRRETLFARFVFRNHP ARCA_MYCHO 178 9 -

Motif 4 width=18
Element Seqn Id St Int Rpt
RETNFDGTNYLAIKPGLV ARCA_MYCHO 342 148 -
REQWDDGNNVVCLEPGVV ARCA_PSEAE 351 151 -
REQWNDGSNTLTIAPGVV ARCA_STRPY 346 146 -
KELLDCGMGVLNLSPGEI P75475 376 152 -

Motif 5 width=15
Element Seqn Id St Int Rpt
YDRNTYTNTLLRKAG ARCA_PSEAE 371 2 -
YDRNEKTNAALKAAG ARCA_MYCHO 362 2 -
FDRNHYTNNLLNELG P75475 396 2 -
YNRNTITNAILESKG ARCA_STRPY 366 2 -

Motif 6 width=19
Element Seqn Id St Int Rpt
SELVRGRGGPRCMSMPFER ARCA_STRPY 389 8 -
SELSRGPSGPLEMVCSLWR P75475 419 8 -
NQLSLGMGNARCMSMPLSR ARCA_MYCHO 385 8 -
SELGRGRGGGHCMTCPIVR ARCA_PSEAE 394 8 -
Final Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
NPINIFSEIGRLKKVLLHRPG O51896 6 6 -
SPIHVNSEIGKLKTVLLKRPG O53088 3 3 -
TKLGVHSEAGKLRKVMVCSPG ARCA_PSEAE 5 5 -
NGIHVYSEIGELETVLVHEPG ARCA_MYCHO 8 8 -
RGFGVHSEVGKLRTVMVCRPS O31017 2 2 -
KGIHVYSEIGELESVLVHEPG ARCA_MYCAR 8 8 -
QKYGVHSEAGKLRKVMVCSPG ARCA_PSEPU 6 6 -
VELGSNSEVGALRVVILHRPG O05585 3 3 -
SGVRVTSEISFLREVIAHHPG P75475 32 32 -
TPIHVYSEIGKLKKVLLHRPG ARCA_STRPY 4 4 -
RALNVTSEIGRLKTVLLHRPG Q46254 5 5 -
NPINIFSEIGRLKKVLLHRPG O51781 7 7 -
TPIHVYSEIGPLKTVMLKRPG O86131 5 5 -

Motif 2 width=19
Element Seqn Id St Int Rpt
PMPNLYFTREPFATIGHGI Q46254 156 130 -
PMPNVLFTRDPFASIGNGI O51781 156 128 -
PMPNLYFTRDPAAAIGSGL O86131 154 128 -
PMPNLYFTRDPAASMGDGL O53088 152 128 -
PLPNTQFTRDTTCWIYGGV ARCA_PSEAE 156 130 -
PMPNLYFTRDPFASVGNGV ARCA_MYCHO 150 121 -
PIPNTLFQRDPSCWIYGGV O31017 150 127 -
PMPNLYFTRDPFASVGNGV ARCA_MYCAR 151 122 -
PLPNTQFTRDTTCWIYGGV ARCA_PSEPU 157 130 -
PLPNLVFTRDSSIWIGPRV O05585 154 130 -
PLSFSLYPHKFFNTLGTGV P75475 180 127 -
PMPNLYFTRDPFATIGTGV ARCA_STRPY 156 131 -
PMPNVLFTRDPFASIGNGV O51896 155 128 -

Motif 3 width=16
Element Seqn Id St Int Rpt
RRRETIFAEYIFKYHS O51781 184 9 -
RRRESLFMRYIINHHP O86131 182 9 -
RQRESMFMEVIMQHHP O53088 180 9 -
RRQETLLTTAIYKFHP ARCA_PSEAE 184 9 -
RRRETLFARFVFRNHP ARCA_MYCHO 178 9 -
RRAETLIQRAIYKFHP O31017 178 9 -
RQRETLFSRFVFSNHP ARCA_MYCAR 179 9 -
RRQETLLTTAIYKFHK ARCA_PSEPU 185 9 -
RVREASLTDLIYAHHP O05585 182 9 -
LKRHSLVYEYIMRFHP P75475 208 9 -
RNRETLYGKYIFTHHP ARCA_STRPY 184 9 -
RQRETIFAEYIFKYHP O51896 183 9 -
RNRETIFAKYIFRHHP Q46254 184 9 -

Motif 4 width=18
Element Seqn Id St Int Rpt
REQWNDGSNTLAIAPGVV O86131 348 150 -
REQWNDGANVLAIAPGEI O51896 345 146 -
REQWNDGSNTLAIAPGEV Q46254 349 149 -
REQWNDGANVLAIAPGEV O51781 346 146 -
REQWNDGSNTLAIAPGVV O53088 345 149 -
REQWDDGNNVVCLEPGVV ARCA_PSEAE 351 151 -
RETNFDGTNYLAIKPGLV ARCA_MYCHO 342 148 -
REQWDDGNNVVALEPGVV O31017 344 150 -
RETHFDGTNYLAIRPGVV ARCA_MYCAR 343 148 -
REQWDDGNNVVALEPGVV ARCA_PSEPU 354 153 -
REQWDDGNNTLALAPGVV O05585 338 140 -
KELLDCGMGVLNLSPGEI P75475 376 152 -
REQWNDGSNTLTIAPGVV ARCA_STRPY 346 146 -

Motif 5 width=15
Element Seqn Id St Int Rpt
YDRNYVSNENLRQYG O53088 365 2 -
YDRNTYTNTLLRKAG ARCA_PSEAE 371 2 -
YDRNEKTNAALKAAG ARCA_MYCHO 362 2 -
YDRNTYTNTLLRKAG O31017 364 2 -
YSRNEKTNAALEAAG ARCA_MYCAR 363 2 -
YDRNTYTNTLLRKAG ARCA_PSEPU 374 2 -
YERNVQTNARLQDAG O05585 358 2 -
FDRNHYTNNLLNELG P75475 396 2 -
YNRNTITNAILESKG ARCA_STRPY 366 2 -
YSRNHVTNKLFEENG O51896 365 2 -
YSRNHVTNKLFEENG O51781 366 2 -
YSRNYVTNEILEKEG Q46254 369 2 -
YDRNYISNECLREQG O86131 368 2 -

Motif 6 width=19
Element Seqn Id St Int Rpt
SELGRGRGGGHCMTCPIVR ARCA_PSEAE 394 8 -
NQLSLGMGNARCMSMPLSR ARCA_MYCHO 385 8 -
SELGRGRGGGHCMTCPIWR O31017 387 8 -
NQLSLGMGNARCMSMPLSR ARCA_MYCAR 386 8 -
GELGRGRGGGHCMTCPIVR ARCA_PSEPU 397 8 -
SELGTGRGGPRCMSCPAAR O05585 381 8 -
SELSRGPSGPLEMVCSLWR P75475 419 8 -
SELVRGRGGPRCMSMPFER ARCA_STRPY 389 8 -
SELSRGRGGPRCMSMPLIR O51896 388 8 -
SELSRGRGGPRCMSMPLIR Q46254 392 8 -
SELSRGRGGPRCMSMSLVR O51781 389 8 -
GELSRGRGGPRCMSMPLYR O86131 391 8 -
SELSRGRGGPRCMSMPLVR O53088 388 8 -