added ardinine degradation to custom pathways

- identical to metacyc pathway ARGDEGRAD-PWY that is classified as
  superpathway (which are usually not considered)
- without the pathway arginine deaminas 3.5.3.6 is not added if no
  in stickland pathways are found
- thanks to Anna Burrichter for reporting the issue

dat/custom_pwy.tbl

@@ -48,3 +48,4 @@ THRBIOSYN-GS	Threonine biosynthis from aspartate via homoserine (gapseq)	L-threo
 ISOBILE-BIOSYN	iso-bile acids biosynthesis (NADH or NADPH dependent)	iso-bile acids biosynthesis (NADH or NADPH dependent)	|Fatty-Acid-and-Lipid-Degradation|,|Steroids-Degradation|,|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Degradation|,|CARBOXYLATES-DEG|,|Bile-Acids-Degradation|	|TAX-2|	3alpha-HSDH,3beta-HSDH	,		3alpha-hydroxysteroid dehydrogenase;3beta-hydroxysteroid dehydrogenase			False	True	
 |ARGDEGRAD-PWY2|	L-arginine degradation V (arginine deiminase pathway)	L-arginine degradation V (arginine deiminase pathway),L-arginine dihydrolase pathway,L-arginine deiminase degradation	|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Degradation|,|Amino-Acid-Degradation|,|Proteinogenic-Amino-Acids-Degradation|,|ARGININE-DEG|	|TAX-2157|,|TAX-2759|,|TAX-2|	ORNCARBAMTRANSFER-RXN,RXN-14196,RXN0-5222,ARGININE-DEIMINASE-RXN	2.1.3.3,2.7.2.2,,3.5.3.6	ORNCARBAMTRANSFER-RXN	ornithine carbamoyltransferase, catabolic;carbamate kinase;cyanase;arginine deiminase	4	2	False	True	RXN0-5222
 |PWY-8017-2|	L-tryptophan degradation XIII (reductive Stickland reaction)	L-tryptophan degradation XIII (reductive Stickland reaction),L-tryptophan reductive fermentation,L-tryptophan fermentation	|Degradation|,|Amino-Acid-Degradation|,|Proteinogenic-Amino-Acids-Degradation|,|TRYPTOPHAN-DEG|,|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Energy-Metabolism|,|Fermentation|,|Amino-Acid-Fermentation|,|Stickland-Reductive|	|TAX-2|	RXN-19885,INDOLELACTATE-DEHYDROGENASE-RXN,TRYPTOPHAN-AMINOTRANSFERASE-RXN,RXN-19895,RXN-19896	1.3.8.15,1.1.1.110,2.6.1.1/2.6.1.27,2.8.3.17,4.2.1.175		(indolyl)propenoate reducatse;indole-3-pyruvate reductase;L-tryptophan transaminase;(indol-3-yl)-acryloyl-CoA:(indol-3-yl)-(R)-lactate CoA-transferase;(indol-3-yl)-(R)-lactoyl-CoA dehydratase			False	True	
+|ARGDEGRAD-PWY2|	L-arginine degradation V (arginine deiminase pathway)	L-arginine degradation V (arginine deiminase pathway),L-arginine dihydrolase pathway,L-arginine deiminase degradation	|Super-Pathways|,|THINGS|,|FRAMES|,|Generalized-Reactions|,|Pathways|,|Degradation|,|Amino-Acid-Degradation|,|Proteinogenic-Amino-Acids-Degradation|,|ARGININE-DEG|	|TAX-2157|,|TAX-2759|,|TAX-2|	ORNCARBAMTRANSFER-RXN,RXN-14196,RXN0-5222,ARGININE-DEIMINASE-RXN	2.1.3.3,,,3.5.3.6	ORNCARBAMTRANSFER-RXN	ornithine carbamoyltransferase, catabolic;carbamate kinase;cyanase;arginine deiminase	4	2	False	True	RXN0-5222