Structural fragment clustering reveals novel structural and functional motifs in α-helical transmembrane proteins

Marsico, Annalisa; Henschel, Andreas; Winter, Christof; Tuukkanen, Anne; Vassilev, Boris; Scheubert, Kerstin; Schroeder, Michael

doi:10.1186/1471-2105-11-204

BMC Bioinformatics

Table 1 Overall statistics for the generated clusters.

From: Structural fragment clustering reveals novel structural and functional motifs in α-helical transmembrane proteins

	Hydrogen bonding clustering				Torsion angle clustering
	Region Cytoplasm				Region Cytoplasm
length in aa	fragments	clusters	outliers	largest cluster	fragments	clusters	outliers	largest cluster
3	641	13	0	166	9669	11	0	294
4	2307	25	0	1182	9281	28	2	1722
5	4911	46	0	1901	8908	52	4	4656
6	5602	63	0	1796	8550	74	7	3656
7	6001	95	2	1804	8214	100	7	4621
8	6213	99	4	2185	7896	78	8	4810
9	6330	144	12	1997	7593	74	13	5837
10	6366	171	19	2038	7308	78	22	5894
11	6347	165	25	2428	7039	71	21	5899
12	6282	147	27	2822	6785	64	26	5943
13	6188	157	37	3837	6546	73	28	5843
14	6075	132	36	3745	6319	78	29	5688
	Region Extracellular				Region Extracellular
3	621	13	0	169	9236	20	0	198
4	2234	26	0	1086	8848	34	2	1435
5	4865	45	0	1837	8477	42	6	4168
6	5557	69	0	1750	8126	66	17	3690
7	5941	97	2	2048	7797	72	17	4445
8	6125	123	10	2094	7481	77	19	5587
9	6179	139	19	2108	7176	74	15	5671
10	6160	167	27	2337	6886	70	14	5846
11	6089	152	32	1441	6613	84	15	5655
12	5989	160	40	2617	6359	71	8	5650
13	5863	167	44	2549	6118	81	8	4404
14	5717	156	36	2678	5895	78	11	5361
	Region Helix core				Region Helix core
3	83	12	2	14	10753	22	4	27
4	1111	23	3	48	10131	27	11	1020
5	8327	32	8	7751	9509	33	12	8340
6	8335	36	16	7247	8887	36	12	8374
7	7912	36	18	7256	8265	30	10	8054
8	7357	27	9	6978	7643	32	14	7491
9	6771	24	6	6722	7021	43	14	6864
10	6178	23	6	6243	6399	43	17	6253
11	5581	17	4	5687	5777	41	17	5648
12	4981	13	2	5116	5158	39	18	5064
13	4382	20	10	4503	4541	42	22	4437
14	3785	17	9	3900	3925	42	21	3837
	Region Interface				Region Interface
3	114	13	2	23	2433	16	3	52
4	682	25	3	430	3608	27	5	385
5	3715	40	4	2228	4749	40	9	3214
6	5122	56	8	3503	5847	64	11	3964
7	6352	71	11	4576	6885	68	17	5071
8	7480	74	8	5770	7881	77	23	6346
9	8533	82	15	6952	8842	82	29	7311
10	9522	83	19	8200	9758	100	26	8860
11	10429	86	19	9202	10621	122	27	9285
12	11263	84	25	10123	11422	149	34	9687
13	12039	85	27	11142	12175	168	29	10400
14	12766	79	25	1207	12883	180	33	9907
	Region Reentrant				Region Reentrant
3	21	7	1	6	313	4	2	9
4	65	12	1	32	291	10	3	35
5	204	14	3	135	269	11	6	151
6	210	19	5	123	247	10	8	143
7	205	20	6	122	225	15	9	128
8	193	16	4	128	203	15	10	123
9	177	12	4	126	181	14	10	116
10	158	10	4	134	159	15	9	91
11	137	14	9	112 20	137	18	10	55
12	116	14	7	57	116	18	8	36
13	95	11	6	45	95	19	5	21
14	77	19	10	26	77	20	10	14

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ISSN: 1471-2105

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