Models

Summary of the characteristics of the 43 investigated organisms:

The table contains for each organism,

1. number of substrate (N)

2. number of links (L)

3. number of individual reactions or temporary substrate-enzyme complexes (R)

4. number of enzymes (E)

5. exponent g_in and g_out

6. diameter of the metabolic network (D).

In the last two columns we list the ten substrates with the largest number of incoming (IN) and outgoing (OUT) links. The letters correspond to: a=H₂O, b=ADP, c=orthophosphate, d=ATP, e=L-glutamate, f=NADP⁺, g=pyrophosphate, h=NAD⁺, i=NADPH, j=NADH, k=CO₂, l=NH₄⁺, m=CoA, n=AMP, o=pyruvate, p=L-glutamine, q=2-oxoglutarate, r='alpha'-D-glucose 1-phosphate, s=phospho`enol`pyruvate, t=acetyl-CoA, u=H⁺, v=uridine, w=cytidine, x=UMP, y=CMP, z=glycerol, a =D-fructose 6-phosphate. The color code of the fields denotes the different domains of life such a yellow = Archae green = Bacterium sky blue =Eukaryote.

Models		ORFs	Kb	Organism Name / Links	N	L (IN)	L (OUT)	R	E	g (IN)	g (OUT)	D	Hub (IN)	Hub (OUT)
1	AP	1,631	1,670	Aeropyrum pernix	204	588	575	178	135	2.2	2.2	3.2	bacdelgfij	adbcegipfh
2	AG	2,491	2,178	Archaeoglobus fulgidus	496	1527	1484	486	299	2.2	2.2	3.5	abcdghefjk	adbijchemf
3	TH	1,866	1,751	Methanobacterium thermoautotrophicum	430	1374	1331	428	280	2.2	2.2	3.4	abcdgefkhi	adbicejfkh
4	MJ	1,811	1,740	Methanococcus jannaschii	424	1317	1272	415	264	2.2	2.3	3.5	abcdgekfnh	adbciejkhf
5	PF	1,932	1,581	Pyrococcus furiosus	316	901	867	283	191	2.0	2.3	3.4	abcdgeknfh	dabceipjhf
6	PH	1,825	1,739	Pyrococcus horikoshii	323	914	882	288	196	2.0	2.2	3.4	abdcgefknl	dabciepjhq
7	AA	1,744	1,591	Aquifex aeolicus	419	1278	1249	401	285	2.1	2.2	3.3	bcadgefhki	adbciejgfh
8	CQ	993	1,230	Chlamydia pneumoniae	194	401	391	134	84	2.2	2.3	3.4	bdcagfleri	dabciergfp
9	CT	867	1,057	Chlamydia trachomatis	215	479	462	158	94	2.2	2.4	3.5	bdacgfelrm	dbaciegrfp
10	CY	3,226	3,573	Synechocystis sp.	546	1782	1746	570	370	2.0	2.2	3.3	abcdegfhjk	adbicjehfg
11	PG	1,832	2,448	Porphyromonas gingivalis	424	1192	1156	374	254	2.2	2.2	3.3	abdcgefnkh	adbceipjhg
12	MB	4,108	4,094	Mycobacterium bovis	429	1247	1221	391	282	2.2	2.2	3.2	abdcgelfkm	adbceifhjq
13	ML	2,940	3,807	Mycobacterium leprae	422	1271	1244	402	282	2.2	2.2	3.2	abcdgefkml	adbceifjhq
14	MT	3,924	4,412	Mycobacterium tuberculosis	587	1862	1823	589	358	2.0	2.2	3.3	adbcghemjk	adbjhmceit
15	BS	4,093	4,215	Bacillus subtilis	785	2794	2741	916	516	2.2	2.1	3.3	abdcjhmegf	adhbjcimef
16	EF	2,966	3,209	Enterococcus faecalis	386	1244	1218	382	281	2.1	2.2	3.1	bdacgelfik	adbciefghj
17	CA	3,967	4,031	Clostridium acetobutylicum	494	1624	1578	511	344	2.1	2.2	3.3	abcdgefhlk	adbceijhfo
18	MG	532	580	Mycoplasma genitalium	209	535	525	196	85	2.4	2.2	3.5	bdcgzxuyos	adbcguvwos
19	MP	674	816	Mycoplasma pneumoniae	178	470	466	154	88	2.3	2.2	3.2	bcdgxoyasl	dabcgowvsr
20	PN	1,844	2,105	Streptococcus pneumoniae	416	1331	1298	412	288	2.1	2.2	3.2	abdcgelfno	adbceifghj
21	ST	1,697	1,851	Streptococcus pyogenes	403	1300	1277	404	280	2.1	2.2	3.1	abdcegfoln	adbceifohg
22	CL	1,908	1,938	Chlorobium tepidum	389	1097	1062	333	231	2.1	2.2	3.3	badcgenfki	dabceipgfq
23	RC	3,345	3,721	Rhodobacter capsulatus	670	2174	2122	711	427	2.1	2.2	3.4	abcdhgefjk	adbjhicmet
24	RP	854	1,112	Rickettsia prowazekii	214	510	504	155	100	2.3	2.3	3.4	bdacfegilm	dabicfemgt
25	NG	1,853	2,063	Neisseria gonorrhoeae	406	1298	1270	413	285	2.1	2.2	3.2	abdcgefkjh	adbiechfjg
26	NM	1,838	2,169	Neisseria meningitidis	381	1212	1181	380	271	2.2	2.2	3.2	abdcegfkli	adbecifhjg
27	CJ	1,641	1,641	Campylobacter jejuni	380	1142	1115	359	254	2.1	2.3	3.2	abdcegfkih	adbeicfgjh
28	HP	1,547	1,668	Helicobacter pylori	375	1181	1144	375	246	2.0	2.3	3.3	abcdgefnhk	dabciejfhp
29	EC	4,285	4,639	Escherichia coli	778	2904	2859	968	570	2.2	2.1	3.2	abcdhjemlf	adhjbciefm
30	TY	4,688	4,464	Salmonella typhi	819	3008	2951	1007	577	2.2	2.2	3.2	abcdhjegfm	adhjbciefm
31	YP	4,230	4,934	Yersinia pestis	568	1754	1715	580	386	2.1	2.2	3.3	abdcgeklfh	adbceihjfl
32	AB	1,884	1,971	Actinobacillus actinomycetemcomitans	395	1202	1166	380	271	2.1	2.2	3.2	bacdgefikl	adbciefhgj
33	HI	1,846	1,830	Haemophilus influenzae	526	1773	1746	597	361	2.1	2.3	3.2	abcdegfjhm	adbchiefju
34	PA	5,626	6,246	Pseudomonas aeruginosa	734	2453	2398	799	490	2.1	2.2	3.3	abdchjkgef	adjhbimcef
35	TP	1,031	1,138	Treponema pallidum	207	562	555	175	124	2.2	2.3	3.1	bdcgaelnfh	dabcegiplf
36	BB	1,666	1,520	Borrelia burgdorferi	187	442	438	140	106	2.3	2.4	3.0	bdgcaleifn	dabcgifea l
37	TM	1,846	1,861	Thermotoga maritima	338	1004	976	302	223	2.1	2.2	3.2	badcegfikn	dabceifgqh
38	DR	3,103	3,284	Deinococcus radiodurans	815	2870	2811	965	557	2.2	2.1	3.3	acbdhjgekm	adhbjcimef
39	EN	4,472	4,286	Emericella nidulans	383	1095	1081	339	254	2.1	2.2	3.3	abdcegjhfl	adbcjheifq
40	SC	6,259	12,058	Saccharomyces cerevisiae	561	1934	1889	596	402	2.0	2.2	3.3	abdcehjgkm	adbhcjeifm
41	CE	16,639	100,096	Caenorhabditis elegans	462	1446	1418	450	295	2.1	2.2	3.3	abdcjhelgk	adbhcjiefm
42	OS	8,384	4,265	Oryza sativa	292	763	751	238	178	2.1	2.3	3.5	badcegljkn	adbcehjifn
43	AT	9,460	36,506	Arabidopsis thaliana	302	804	789	250	185	2.1	2.3	3.5	badcegjhlk	adbcehjign