Struct-NA 0.1 report

2013-06-05 11:05:29 (265 seconds taken)

Run with:

nCores = 3
β = ∞
τ = 0.5
ζ = 0.7
ξ = 2

See the readme or paper for more details.

Weighted graph

property name	property value
Manager	SmartWeightManager
N vertices	1279
N interactions	1045
N homology edges	14170
Maximum interaction degree	38
Maximum homology degree	90
N homology relations	14170

weighted network — The graph after homology edges (dashed red lines) have been added.

Crossed graph

property name	property value
Manager	SimpleCrossingManager
N vertices	1279
N interactions	1045
N homology edges	6059
N edges updated	174
N updates	229

Updated interactions

Interaction Id	initial	updated	Ids	UniProt Ids	PDB Ids	SCOP Ids
1044813	0.65	0.779	1044797 1044800	P01137 Q90999	1kla 1ks6	d1klaa_ d1ks6a_
564220	0.8	0.902	564205 564208	P45983 P05412	1ukh 1a02	d1ukha_ d1a02j_
761964	0.9	0.991	489630 761937	P07174 Q13114	1ngr 1flk	d1ngra_ d1flka1
875770	0.9	0.963	875027 875028	Q9UBU9 Q9Y5S9	1fo1 1p27	d1fo1a1 d1p27b_
964337	0.9	0.935	964327 964344	P03372 Q09472	1a52 1l3e	d1a52a_ d1l3eb_
874156	0.99	0.995	875026 875740	Q9HAU5 Q9BZI7	1uw4 1uw4	d1uw4b_ d1uw4a_
361610	0.9	0.985	361608 361609	P16410 P42081	1ah1 1i85	d1ah1a_ d1i85a_
361584	0.9	0.991	361582 361583	P98170 P55210	1c9q 1f1j	d1c9qa_ d1f1ja_
185762	0.91	0.979	185757 361583	Q13490 P55210	1qbh 1f1j	d1qbha_ d1f1ja_
185768	0.9	0.972	185757 185759	Q13490 P55211	1qbh 1jxq	d1qbha_ d1jxqa_
185775	0.99	0.999	185759 185760	Q96CA5 P55211	1oxn 1jxq	d1oxna_ d1jxqa_
185787	0.8	0.954	185757 185761	P42574 Q13490	1cp3 1qbh	d1cp3a_ d1qbha_
185792	0.8	0.991	185760 185761	Q96CA5 P42574	1oxn 1cp3	d1oxna_ d1cp3a_
588968	0.55	0.987	588963 588963	P15531 P15531	1jxv 1jxv	d1jxva_ d1jxva_
361340	0.99	0.998	361338 361339	P21802 P05230	1djs 1axm	d1djsa1 d1axma_
184864	0.9	0.972	184859 185759	P55211 O15392	1jxq 1e31	d1jxqa_ d1e31a_
361455	0.9	0.972	361454 361477	P63000 Q51451	1e96 1he1	d1e96a_ d1he1a_
391540	0.798	0.958	97161 391538	P03372 Q00987	1a52 1rv1	d1a52a_ d1rv1a_
391550	0.55	0.996	229694 391538	Q00987 P04637	1rv1 1a1u	d1rv1a_ d1a1ua_
361057	0.9	0.958	361055 361056	P12643 P36894	1es7 1es7	d1es7a_ d1es7b_
338325	0.55	0.909	338312 338312	P54253 P54253	1oa8 1oa8	d1oa8a_ d1oa8a_
97136	0.909	0.947	97133 97134	P41743 Q9NPB6	1vd2 1wmh	d1vd2a_ d1wmhb_
183971	0.9	0.98	229139 229140	P13010 P12956	1jeq 1jeq	d1jeqb1 d1jeqa1
361721	0.99	0.998	361304 361338	P09038 P21802	1bas 1djs	d1basa_ d1djsa1
184444	0.9	0.964	184431 185757	Q9NR28 Q13490	1few 1qbh	d1fewa_ d1qbha_
360808	0.9	0.944	360806 360807	P15927 P35244	1dpu 1l1o	d1dpua_ d1l1oa_
361020	0.9	0.975	361018 361019	P21953 P12694	1dtw 1dtw	d1dtwb1 d1dtwa_
745043	0.992	0.997	745040 745041	P61823 P13489	1a2w 1a4y	d1a2wa_ d1a4ya_
98824	0.955	1.0	17557 98822	Q06609 P51587	1b22 1n0w	d1b22a_ d1n0wb_
953735	0.9	0.964	185757 953658	O43464 Q13490	1lcy 1qbh	d1lcya1 d1qbha_
1034759	0.97	0.993	1034743 1034747	P25815 Q9CXW3	1j55 1ysm	d1j55a_ d1ysma1
1007330	0.9	0.996	1007326 1007326	Q9UQB8 Q9UQB8	1wdz 1wdz	d1wdza1 d1wdza1
362672	0.9	0.979	362670 362671	P00533 P01135	1ivo 1gk5	d1ivoa1 d1gk5a_
185486	0.991	0.997	185481 185482	P55211 Q96CA5	1jxq 1oxn	d1jxqa_ d1oxna_
185500	0.91	0.975	185482 185484	O43464 Q96CA5	1lcy 1oxn	d1lcya1 d1oxna_
362444	0.999	1.0	362442 362443	P49356 P49354	1jcq 1jcq	d1jcqb_ d1jcqa_
286678	0.991	0.997	286655 286657	Q13133 O60869	1uhl 1x57	d1uhlb_ d1x57a1
228056	0.94	1.0	228054 228054	P08514 P08514	1dpk 1dpk	d1dpka_ d1dpka_
228061	0.94	0.995	362997 362997	P05106 P05106	1jv2 1jv2	d1jv2b1 d1jv2b1
363245	0.9	0.935	363243 363244	Q9UJY5 Q8BSL7	1j2j 1j2j	d1j2jb_ d1j2ja_
362503	0.99	0.998	362501 362502	P29016 P61769	1gzp 1a1m	d1gzpa1 d1a1mb_
362730	0.9	0.971	362728 362729	Q13952 P25208	1n1j 1n1j	d1n1jb_ d1n1ja_
159641	0.55	0.748	159625 159628	O18973 Q9NZ52	2fid 1jpl	d2fidb1 d1jpla_
159645	0.55	0.748	159625 159629	O18973 Q9UJY4	2fid 1mhq	d2fidb1 d1mhqa_
362014	0.9	0.944	362012 363134	P28829 P01112	1i35 121p	d1i35a_ d121pa_
362304	0.9	0.951	99420 362997	P06756 P05106	1jv2 1jv2	d1jv2a1 d1jv2b1
362263	0.9	0.937	362261 362262	P37173 P10600	1ktz 1ktz	d1ktzb_ d1ktza_
177950	0.99	0.998	177908 177910	Q86VP6 Q13619	1u6g 2hye	d1u6gc_ d2hyec1
189816	0.909	0.949	363134 413408	P01112 P04049	121p 1c1y	d121pa_ d1c1yb_
189955	0.55	0.877	189707 413408	P62070 P04049	2ery 1c1y	d2erya1 d1c1yb_
362807	0.9	0.971	362805 362806	P01848 P01850	1j8h 1fyt	d1j8hd1 d1fyte1
362035	0.99	1.0	362034 362736	P35222 Q9NQB0	1g3j 1jdh	d1g3ja_ d1jdhb_
658184	0.8	0.952	658171 658172	P08572 P02462	1li1 1li1	d1li1c1 d1li1a1
130544	0.55	0.837	130524 130525	Q9NQT5 Q9NQT4	2nn6 2nn6	d2nn6g1 d2nn6d1
130553	0.798	0.887	130525 130526	Q9NQT4 Q9Y3B2	2nn6 2nn6	d2nn6d1 d2nn6i1
230815	0.9	0.98	230814 230814	P16118 P16118	1k6m 1k6m	d1k6ma1 d1k6ma1
480850	0.9	0.965	480801 480801	Q15628 Q15628	1f2h 1f2h	d1f2ha_ d1f2ha_
363158	0.9	0.985	363156 363157	P08559 P11177	1ni4 1ni4	d1ni4a_ d1ni4b1
362069	0.99	0.999	362067 491196	P68871 P69905	1a00 1a00	d1a00b_ d1a00a_
100608	0.99	0.994	100377 100381	Q9NPB6 P41743	1wmh 1vd2	d1wmhb_ d1vd2a_
100613	0.99	0.996	100381 100410	Q9NPB6 P60953	1wmh 1a4r	d1wmhb_ d1a4ra_
100723	0.99	0.996	100377 100410	P41743 P60953	1vd2 1a4r	d1vd2a_ d1a4ra_
100838	0.9	0.952	100377 100418	P41743 P63104	1vd2 1ib1	d1vd2a_ d1ib1a_
949940	0.9	0.978	949927 949929	P62937 Q9Z0X1	1ak4 1gv4	d1ak4a_ d1gv4a1
288398	0.9	0.999	288371 426561	Q00987 P04637	1rv1 1a1u	d1rv1a_ d1a1ua_
646254	0.8	0.928	646200 646207	P02462 Q92876	1li1 1gvl	d1li1a1 d1gvla_
646259	0.8	0.928	646200 646208	Q92876 P08572	1gvl 1li1	d1gvla_ d1li1c1
500426	0.9	0.99	363420 500404	P63208 Q13616	1fqv 1ldj	d1fqvb1 d1ldja1
160232	0.9	0.979	160230 160231	P84077 P47102	1hur 1re0	d1hura_ d1re0b_
363463	0.9	0.982	363461 363462	P06126 P61769	1onq 1a1m	d1onqa1 d1a1mb_
363596	0.9	0.958	363594 363595	P40189 P15018	1bj8 1emr	d1bj8a_ d1emra_
228099	0.96	0.992	228080 228080	P02724 P02724	1afo 1afo	d1afoa_ d1afoa_
228106	0.96	1.0	228081 228081	P08514 P08514	1dpk 1dpk	d1dpka_ d1dpka_
228125	0.96	0.995	228084 228084	P05106 P05106	1jv2 1jv2	d1jv2b1 d1jv2b1
363444	0.9	1.0	363442 363443	P49354 P49356	1jcq 1jcq	d1jcqa_ d1jcqb_
283974	0.8	0.98	282408 282408	P16118 P16118	1k6m 1k6m	d1k6ma1 d1k6ma1
284297	0.8	0.954	228084 282547	P05106 P06756	1jv2 1jv2	d1jv2b1 d1jv2a1
363503	0.999	1.0	363501 363502	P12694 P21953	1dtw 1dtw	d1dtwa_ d1dtwb1
1005386	0.965	0.996	1005384 1005384	Q9UQB8 Q9UQB8	1wdz 1wdz	d1wdza1 d1wdza1
363969	0.9	0.958	363967 363968	P07359 P04275	1gwb 1ao3	d1gwba_ d1ao3a_
122432	0.65	0.9	119950 159148	Q9Y2U5 Q99759	2cu1 2c60	d2cu1a1 d2c60a1
122440	0.65	0.915	159148 159148	Q99759 Q99759	2c60 2c60	d2c60a1 d2c60a1
122928	0.65	0.93	119685 119789	P23396 Q00653	1wh9 1a3q	d1wh9a_ d1a3qa1
125736	0.65	0.965	120130 120130	Q15628 Q15628	1f2h 1f2h	d1f2ha_ d1f2ha_
363844	0.9	0.982	363843 363976	P61769 P29016	1a1m 1gzp	d1a1mb_ d1gzpa1
477126	0.9	0.972	363872 477123	P00533 P62158	1ivo 1cdl	d1ivoa1 d1cdla_
228000	0.8	0.992	227998 227998	P02724 P02724	1afo 1afo	d1afoa_ d1afoa_
228011	0.988	1.0	227999 227999	P08514 P08514	1dpk 1dpk	d1dpka_ d1dpka_
184483	0.55	0.748	184456 184460	P23727 P08069	1bfi 1igr	d1bfia_ d1igra1
184486	0.55	0.748	184457 184460	P23727 P06213	1bfi 1gag	d1bfia_ d1gaga_
364313	0.99	1.0	364309 364310	P49356 P49354	1jcq 1jcq	d1jcqb_ d1jcqa_
364405	0.9	0.958	364403 364404	P63165 Q9HC62	1a5r 1tgz	d1a5ra_ d1tgza_
159498	0.55	0.809	159491 159492	P84077 Q9UJY5	1hur 1j2j	d1hura_ d1j2jb_
178830	0.9	0.928	178809 178812	O43432 Q09161	1hu3 1h2t	d1hu3a_ d1h2tc1
364912	0.9	0.958	364910 364911	Q96LD8 Q15843	1xt9 1ndd	d1xt9a_ d1ndda_
364029	0.9	0.958	364027 364028	P36894 P12643	1es7 1es7	d1es7b_ d1es7a_
364220	0.9	0.958	364214 364311	Q04631 Q02293	1d8d 1d8d	d1d8da_ d1d8db_
129022	0.55	0.869	178815 178815	Q9HAU5 Q9HAU5	1uw4 1uw4	d1uw4b_ d1uw4b_
364702	0.9	0.965	364694 364695	O14836 Q9D777	1xu1 1u5x	d1xu1r_ d1u5xa_
364953	0.9	0.942	364952 606635	P41743 Q9NPB6	1vd2 1wmh	d1vd2a_ d1wmhb_
1005929	0.8	0.902	1005923 1005924	P45983 P05412	1ukh 1a02	d1ukha_ d1a02j_
352014	0.99	0.999	352005 352006	Q13490 Q9NR28	1qbh 1few	d1qbha_ d1fewa_
352019	0.9	0.972	352006 352007	P98170 Q9NR28	1c9q 1few	d1c9qa_ d1fewa_
354613	0.999	1.0	354611 354612	Q06609 P51587	1b22 1n0w	d1b22a_ d1n0wb_
354451	0.97	0.984	354447 354448	P00772 P01009	1b0e 1atu	d1b0ea_ d1atua_
229005	0.55	0.748	228992 228994	P27694 P15927	1ewi 1dpu	d1ewia_ d1dpua_
229009	0.55	0.748	228994 228995	P15927 P35244	1dpu 1l1o	d1dpua_ d1l1oa_
365266	0.9	0.987	365264 365265	P68871 P69905	1a00 1a00	d1a00b_ d1a00a_
479355	0.7	0.999	479337 479339	P68431 Q8WTS6	1cs9 1h3i	d1cs9a_ d1h3ia1
493563	0.99	0.997	493555 493555	P25963 P25963	1ikn 1ikn	d1iknd_ d1iknd_
344727	0.798	0.909	342276 342276	P54253 P54253	1oa8 1oa8	d1oa8a_ d1oa8a_
345179	0.55	0.748	342276 342391	Q15654 P54253	1x61 1oa8	d1x61a1 d1oa8a_
418535	0.99	0.997	418521 418522	P01106 Q13309	1a93 1fqv	d1a93a_ d1fqva1
745201	0.98	0.995	745198 745199	P07998 P13489	1dza 1a4y	d1dzaa_ d1a4ya_
967082	0.99	0.999	434404 966838	P10415 Q07812	1g5m 1f16	d1g5ma_ d1f16a_
589053	0.91	0.987	589034 589034	P15531 P15531	1jxv 1jxv	d1jxva_ d1jxva_
589058	0.55	0.931	589034 589036	P15531 P22392	1jxv 1nsk	d1jxva_ d1nskl_
477258	0.9	0.98	477244 477357	Q12888 P38398	1gzh 1jm7	d1gzhb1 d1jm7a_
507213	0.8	0.928	483422 506729	P00519 Q8NFP9	1ab2 1mi1	d1ab2a_ d1mi1a1
507332	0.96	0.986	483422 506745	P00519 Q14315	1ab2 1v05	d1ab2a_ d1v05a_
508172	0.96	0.991	506745 506851	P46108 Q14315	1ju5 1v05	d1ju5a_ d1v05a_
508851	0.8	0.982	506851 506891	P46108 O75369	1ju5 2di8	d1ju5a_ d2di8a1
509649	0.8	0.928	483425 506729	Q8NFP9 P06241	1mi1 1a0n	d1mi1a1 d1a0nb_
509838	0.8	0.928	483425 506745	P06241 Q14315	1a0n 1v05	d1a0nb_ d1v05a_
510699	0.96	0.986	483493 506745	Q14315 P62993	1v05 1aze	d1v05a_ d1azea_
510867	0.8	0.972	483493 506891	P62993 O75369	1aze 2di8	d1azea_ d2di8a1
511343	0.8	0.954	483493 544120	Q05193 P62993	1dyn 1aze	d1dyna_ d1azea_
515032	0.8	0.965	506712 506891	P19174 O75369	1hsq 2di8	d1hsqa_ d2di8a1
515256	0.8	0.928	506712 506745	P19174 Q14315	1hsq 1v05	d1hsqa_ d1v05a_
999017	0.9	0.979	998946 998963	P11940 Q9UBU9	1cvj 1fo1	d1cvja1 d1fo1a1
504338	0.9	0.966	504232 504235	P55211 P98170	1jxq 1c9q	d1jxqa_ d1c9qa_
505041	0.8	0.915	505002 505006	P38398 Q12888	1jm7 1gzh	d1jm7a_ d1gzhb1
500552	0.9	1.0	494249 500543	Q93009 Q00987	1nb8 1rv1	d1nb8a_ d1rv1a_

crossed network — The graph after interactions that are conserved between homologus vertices have been updated in probability.

Merged graph

property name	property value
Manager	ConcurrentBronKerboschMergeManager
N vertices	1222
N interactions	981
N homology edges	5132
N connected components	26
N nontrivial degenerate sets	42

Degenerate sets

V0 Id	V0 UniProt Id	Vertices removed
1002987	P15153	P17081, P60763, P08134, P62745, P61586
557573	P20339	P36017, P07560, P01123, P32939
735033	P62158	P62204, P62158
581583	Q13148	P55795, P22626
489630	Q13114	Q12933, Q9Y4K3
434404	P10415	Q92843, P97287
354447	P00772	P00760, P08246
342342	P61978	Q15366, P51513
282565	P20701	P11215, P20702
241951	P62993	P06241, P08631
1034747	P25815	P02638
999459	O08816	P50552
980815	P05106	P05106
949927	Q9Z0X1	O95831
761803	Q9NQT4	Q15024
745040	P61823	P03950
553494	Q92731	P03372
506784	Q86UR5	P29074
506750	Q15427	O15056
506745	Q14315	P21333
506729	Q8NFP9	P50851
478340	P17706	P18031
477148	P62157	P62161
418522	Q13309	Q969H0
364694	O14836	Q02223
364214	Q02293	P53610
363843	P29016	Q31206
362671	P01135	P01133
361609	P42081	P33681
361454	Q51451	P74873
347452	P04271	P06703
342391	Q15654	Q14192
342344	P26599	Q9UKM9
282429	P24864	P20248
228601	P08631	P62993
197009	Q16539	P53778
185482	Q96CA5	P98170
185026	O14836	Q02223
160231	P47102	Q99418
119950	Q9Y2U5	Q13163
119944	Q14160	Q12959
119717	P05109	P31151

merged network — The graph after fully degenerate vertex sets have been contracted. A degenerate vertex set is a maximal clique whose members share interactions exactly.