TPH - PFAM28P - GREMLIN Contacts

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TPH - Trichohyalin-plectin-homology domain

PFAM:	PF13868	Sequences: QSDELRELESKLLLAKVNKERDAQIEEKKEIKEEEKEEEKRLDELMEEERLKALEREEEKEEKRKEERKEGAEVLLEQIEEREEQREEAKEEKEEEKELLKEQVELIKEEEEREKEEKREKKKELRRELEEANEEQKERKAQEKEEEEEEDRKILEYAKEKEEREEEREAEKREIKREKEKERARLREQQEKEQDEREEEEELRAELAQEEAERKWRKKEKEEAEKRARLRLELLEAREEQIAEKEERKAEEKEEEKEERERLLEKLEEDEEKEKEEKEKRREKKLEHRRELEKQIEERRQQREAEKEEELEEGEALREEEEEREERIEEERQRKLEELAAKGLPY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	346 (341)
Sequences:	1356 (996)
Seq/√Len:	53.9
META:	0.294

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
47_E	50_R	4.189	1.00
218_K	222_E	3.047	1.00
221_K	225_E	2.857	1.00
223_E	227_R	2.815	1.00
225_E	229_R	2.604	1.00
145_E	149_E	2.482	1.00
228_A	232_L	2.427	1.00
62_E	66_E	2.419	1.00
289_R	293_E	2.301	1.00
116_E	120_E	2.298	1.00
56_R	60_K	2.287	1.00
177_R	181_K	2.242	1.00
155_L	159_K	2.214	1.00
232_L	236_E	2.202	1.00
276_E	280_K	2.188	1.00
272_E	276_E	2.166	1.00
173_R	177_R	2.126	1.00
47_E	51_L	2.121	1.00
229_R	233_E	2.101	1.00
63_K	67_E	2.069	1.00
142_Q	145_E	2.064	1.00
142_Q	146_E	2.049	1.00
210_E	214_R	2.037	1.00
215_K	219_K	2.002	1.00
156_E	160_E	1.997	1.00
105_E	108_K	1.963	1.00
312_E	315_E	1.959	1.00
55_E	59_E	1.944	1.00
184_A	188_E	1.938	1.00
124_E	128_E	1.885	0.99
201_E	205_A	1.878	0.99
226_K	230_L	1.865	0.99
283_E	287_E	1.851	0.99
170_A	174_E	1.839	0.99
59_E	62_E	1.825	0.99
247_E	251_E	1.811	0.99
171_E	174_E	1.793	0.99
107_I	110_E	1.781	0.99
141_A	145_E	1.778	0.99
218_K	221_K	1.753	0.99
159_K	163_E	1.740	0.99
261_E	265_E	1.728	0.99
149_E	153_K	1.725	0.99
106_L	110_E	1.714	0.99
118_K	122_K	1.710	0.99
59_E	63_K	1.701	0.99
38_E	41_R	1.696	0.99
281_R	285_K	1.686	0.99
112_E	116_E	1.671	0.99
282_R	286_L	1.659	0.99
3_D	6_R	1.654	0.99
51_L	55_E	1.652	0.99
216_W	219_K	1.637	0.98
266_K	270_D	1.635	0.98
276_E	279_E	1.634	0.98
143_E	146_E	1.633	0.98
272_E	275_K	1.633	0.98
206_E	210_E	1.626	0.98
192_K	196_E	1.620	0.98
21_R	24_Q	1.619	0.98
321_E	324_R	1.618	0.98
279_E	283_E	1.615	0.98
243_A	247_E	1.612	0.98
168_R	172_K	1.611	0.98
26_E	29_K	1.607	0.98
227_R	231_R	1.605	0.98
57_E	60_K	1.599	0.98
152_R	156_E	1.583	0.98
117_E	120_E	1.559	0.98
134_E	137_K	1.545	0.98
138_E	141_A	1.514	0.97
321_E	325_E	1.513	0.97
174_E	178_E	1.507	0.97
146_E	150_E	1.500	0.97
193_E	196_E	1.494	0.97
288_H	292_L	1.493	0.97
64_R	68_R	1.482	0.97
176_K	180_E	1.482	0.97
250_A	254_E	1.464	0.97
127_R	131_E	1.464	0.97
95_E	98_E	1.453	0.97
166_E	170_A	1.450	0.97
145_E	148_E	1.448	0.97
178_E	181_K	1.427	0.96
144_K	148_E	1.420	0.96
49_E	52_K	1.418	0.96
66_E	70_E	1.418	0.96
265_E	268_E	1.410	0.96
29_K	32_K	1.399	0.96
80_E	83_E	1.397	0.96
113_R	116_E	1.396	0.96
192_K	195_D	1.395	0.96
56_R	59_E	1.395	0.96
167_E	171_E	1.391	0.96
287_E	291_E	1.390	0.96
240_E	244_E	1.372	0.95
117_E	121_K	1.360	0.95
217_R	220_E	1.360	0.95
109_E	113_R	1.360	0.95
208_A	211_E	1.341	0.95
120_E	123_K	1.340	0.95
102_E	106_L	1.329	0.95
31_I	35_E	1.326	0.94
244_E	248_R	1.326	0.94
55_E	58_E	1.322	0.94
156_E	159_K	1.322	0.94
249_K	253_K	1.321	0.94
35_E	38_E	1.314	0.94
105_E	109_E	1.313	0.94
64_R	67_E	1.309	0.94
257_K	261_E	1.297	0.94
287_E	290_R	1.296	0.94
236_E	240_E	1.289	0.94
98_E	102_E	1.279	0.93
103_Q	107_I	1.279	0.93
229_R	232_L	1.278	0.93
183_R	187_R	1.271	0.93
9_E	13_L	1.264	0.93
50_R	54_L	1.257	0.93
87_E	91_E	1.254	0.93
44_E	48_E	1.242	0.92
163_E	167_E	1.233	0.92
152_R	155_L	1.232	0.92
76_L	79_I	1.230	0.92
160_E	163_E	1.227	0.92
258_E	262_R	1.220	0.92
13_L	17_V	1.211	0.91
65_K	69_K	1.209	0.91
251_E	254_E	1.209	0.91
213_E	217_R	1.207	0.91
227_R	230_L	1.198	0.91
194_Q	197_R	1.194	0.91
286_L	289_R	1.175	0.90
319_E	322_E	1.175	0.90
335_K	339_L	1.170	0.90
219_K	223_E	1.164	0.90
224_A	228_A	1.164	0.90
187_R	190_Q	1.161	0.89
297_E	301_Q	1.161	0.89
224_A	227_R	1.158	0.89
258_E	261_E	1.157	0.89
138_E	142_Q	1.157	0.89
57_E	61_E	1.149	0.89
14_L	18_N	1.149	0.89
84_E	88_E	1.144	0.89
253_K	257_K	1.138	0.88
148_E	152_R	1.138	0.88
23_A	26_E	1.136	0.88
63_K	66_E	1.134	0.88
46_M	49_E	1.132	0.88
182_E	186_L	1.127	0.88
186_L	190_Q	1.126	0.88
141_A	144_K	1.124	0.88
331_E	335_K	1.123	0.88
308_E	312_E	1.123	0.88
337_E	341_A	1.122	0.88
23_A	27_E	1.116	0.87
33_E	37_E	1.113	0.87
121_K	124_E	1.110	0.87
131_E	135_E	1.110	0.87
88_E	91_E	1.103	0.87
318_R	322_E	1.098	0.87
40_K	44_E	1.096	0.87
135_E	138_E	1.091	0.86
162_E	165_E	1.090	0.86
243_A	246_E	1.088	0.86
214_R	218_K	1.082	0.86
45_L	49_E	1.080	0.86
280_K	284_K	1.079	0.86
126_R	130_E	1.075	0.85
164_R	168_R	1.074	0.85
246_E	250_A	1.071	0.85
211_E	215_K	1.071	0.85
265_E	269_E	1.068	0.85
268_E	272_E	1.065	0.85
85_Q	89_A	1.059	0.85
113_R	117_E	1.058	0.85
171_E	175_I	1.057	0.84
254_E	258_E	1.056	0.84
326_E	330_E	1.056	0.84
307_K	310_E	1.047	0.84
179_K	183_R	1.045	0.84
28_K	32_K	1.042	0.84
251_E	255_E	1.041	0.84
180_E	187_R	1.038	0.83
215_K	218_K	1.032	0.83
298_E	302_Q	1.028	0.83
178_E	186_L	1.027	0.83
185_R	188_E	1.023	0.82
212_A	216_W	1.017	0.82
69_K	73_E	1.015	0.82
234_L	238_R	1.015	0.82
213_E	216_W	1.015	0.82
67_E	70_E	1.013	0.82
71_G	75_L	1.004	0.81
37_E	40_K	1.003	0.81
228_A	231_R	1.002	0.81
316_A	319_E	0.996	0.81
200_E	204_R	0.991	0.80
275_K	278_K	0.989	0.80
119_R	122_K	0.987	0.80
329_E	332_R	0.986	0.80
239_E	242_I	0.986	0.80
48_E	52_K	0.985	0.80
290_R	293_E	0.984	0.80
268_E	271_E	0.984	0.80
305_A	308_E	0.980	0.80
217_R	221_K	0.979	0.80
115_K	118_K	0.974	0.79
157_Y	161_K	0.974	0.79
134_E	138_E	0.972	0.79
248_R	252_E	0.971	0.79
52_K	56_R	0.970	0.79
326_E	329_E	0.963	0.78
333_Q	337_E	0.963	0.78
58_E	62_E	0.962	0.78
336_L	340_A	0.960	0.78
123_K	127_R	0.957	0.78
246_E	249_K	0.954	0.78
179_K	182_E	0.952	0.78
216_W	220_E	0.945	0.77
95_E	99_L	0.944	0.77
139_R	143_E	0.943	0.77
305_A	309_E	0.940	0.77
38_E	42_L	0.936	0.76
94_E	97_K	0.935	0.76
271_E	275_K	0.933	0.76
191_E	194_Q	0.933	0.76
43_D	47_E	0.932	0.76
225_E	232_L	0.931	0.76
46_M	50_R	0.930	0.76
172_K	175_I	0.929	0.76
193_E	197_R	0.928	0.76
93_K	97_K	0.920	0.75
174_E	177_R	0.916	0.75
91_E	95_E	0.914	0.75
247_E	250_A	0.912	0.75
195_D	198_E	0.911	0.74
162_E	166_E	0.910	0.74
90_K	94_E	0.908	0.74
133_N	136_Q	0.906	0.74
275_K	279_E	0.905	0.74
181_K	185_R	0.903	0.74
120_E	124_E	0.903	0.74
297_E	300_R	0.901	0.74
325_E	332_R	0.900	0.74
72_A	76_L	0.897	0.73
301_Q	305_A	0.895	0.73
172_K	176_K	0.895	0.73
190_Q	193_E	0.894	0.73
209_Q	213_E	0.892	0.73
130_E	134_E	0.888	0.73
73_E	77_E	0.887	0.72
36_K	40_K	0.885	0.72
26_E	30_E	0.885	0.72
222_E	225_E	0.878	0.72
115_K	119_R	0.876	0.72
308_E	311_L	0.875	0.71
311_L	315_E	0.872	0.71
182_E	185_R	0.866	0.71
42_L	46_M	0.865	0.71
8_L	18_N	0.864	0.70
102_E	105_E	0.861	0.70
202_E	206_E	0.861	0.70
300_R	304_E	0.856	0.70
222_E	226_K	0.853	0.70
235_L	238_R	0.850	0.69
179_K	186_L	0.849	0.69
175_I	179_K	0.847	0.69
199_E	202_E	0.845	0.69
256_E	259_E	0.841	0.68
30_E	33_E	0.838	0.68
189_Q	192_K	0.837	0.68
327_R	330_E	0.835	0.68
241_Q	295_Q	0.834	0.68
5_L	8_L	0.833	0.68
8_L	15_A	0.832	0.68
182_E	187_R	0.831	0.67
235_L	239_E	0.830	0.67
45_L	48_E	0.829	0.67
3_D	133_N	0.826	0.67
161_K	164_R	0.826	0.67
123_K	126_R	0.820	0.66
337_E	340_A	0.818	0.66
260_R	264_L	0.818	0.66
309_E	313_E	0.816	0.66
322_E	326_E	0.816	0.66
39_E	43_D	0.816	0.66
191_E	195_D	0.814	0.66
147_E	150_E	0.813	0.66
65_K	68_R	0.811	0.66
28_K	31_I	0.810	0.65
101_K	105_E	0.810	0.65
301_Q	304_E	0.805	0.65
306_E	336_L	0.803	0.65
315_E	318_R	0.802	0.65
323_E	326_E	0.794	0.64
190_Q	194_Q	0.793	0.64
164_R	167_E	0.789	0.63
317_L	320_E	0.788	0.63
79_I	213_E	0.785	0.63
328_I	331_E	0.784	0.63
49_E	53_A	0.781	0.63
263_L	267_L	0.780	0.63
97_K	101_K	0.780	0.63
197_R	201_E	0.779	0.62
5_L	15_A	0.779	0.62
266_K	269_E	0.778	0.62
196_E	200_E	0.771	0.62
175_I	178_E	0.769	0.61
53_A	57_E	0.768	0.61
80_E	84_E	0.760	0.61
54_L	58_E	0.760	0.61
239_E	243_A	0.760	0.61
179_K	184_A	0.758	0.60
158_A	162_E	0.756	0.60
291_E	294_K	0.754	0.60
257_K	260_R	0.749	0.59
94_E	98_E	0.746	0.59
22_D	118_K	0.740	0.58
192_K	199_E	0.737	0.58
330_E	333_Q	0.732	0.58
30_E	34_E	0.731	0.58
152_R	159_K	0.729	0.57
16_K	339_L	0.729	0.57
47_E	54_L	0.726	0.57
109_E	112_E	0.725	0.57
183_R	195_D	0.725	0.57
170_A	173_R	0.725	0.57
83_E	86_R	0.723	0.57
198_E	201_E	0.723	0.57
188_E	192_K	0.720	0.56
321_E	328_I	0.719	0.56
252_E	255_E	0.717	0.56
103_Q	106_L	0.714	0.56
85_Q	88_E	0.713	0.56
197_R	200_E	0.708	0.55
46_M	53_A	0.707	0.55
184_A	187_R	0.707	0.55
159_K	252_E	0.704	0.55
314_G	318_R	0.698	0.54
207_L	210_E	0.697	0.54
72_A	238_R	0.697	0.54
279_E	282_R	0.695	0.54
176_K	179_K	0.694	0.54
332_R	336_L	0.694	0.54
305_A	310_E	0.694	0.54
307_K	311_L	0.693	0.54
183_R	194_Q	0.688	0.53
125_L	128_E	0.684	0.53
278_K	282_R	0.682	0.52
269_E	273_K	0.682	0.52
4_E	12_L	0.681	0.52
151_D	154_I	0.679	0.52
187_R	191_E	0.669	0.51
138_E	143_E	0.665	0.51
32_K	44_E	0.665	0.51
211_E	225_E	0.663	0.50
188_E	191_E	0.663	0.50
150_E	153_K	0.662	0.50
79_I	82_R	0.660	0.50
286_L	290_R	0.656	0.50
110_E	113_R	0.651	0.49
281_R	284_K	0.648	0.49
320_E	324_R	0.648	0.49
199_E	203_L	0.648	0.49
276_E	283_E	0.647	0.49
10_S	13_L	0.644	0.48
327_R	331_E	0.643	0.48
262_R	266_K	0.642	0.48
84_E	87_E	0.641	0.48
75_L	194_Q	0.637	0.48
261_E	264_L	0.636	0.47
21_R	238_R	0.635	0.47
292_L	299_R	0.633	0.47
136_Q	140_K	0.632	0.47
283_E	286_L	0.632	0.47
179_K	219_K	0.630	0.47
126_R	129_L	0.630	0.47
22_D	25_I	0.630	0.47
143_E	147_E	0.630	0.47
194_Q	200_E	0.630	0.47
39_E	105_E	0.630	0.47
167_E	170_A	0.628	0.47
157_Y	162_E	0.627	0.47
183_R	186_L	0.624	0.46
294_K	297_E	0.622	0.46
245_K	274_E	0.621	0.46
178_E	182_E	0.621	0.46
4_E	328_I	0.620	0.46
114_E	117_E	0.618	0.46
61_E	64_R	0.618	0.46
124_E	127_R	0.615	0.45
163_E	166_E	0.614	0.45
104_V	107_I	0.613	0.45
207_L	211_E	0.611	0.45
324_R	328_I	0.609	0.45
63_K	322_E	0.608	0.45
292_L	296_I	0.607	0.44
8_L	14_L	0.607	0.44
315_E	319_E	0.605	0.44
116_E	119_R	0.604	0.44
82_R	85_Q	0.603	0.44
3_D	21_R	0.601	0.44
255_E	258_E	0.600	0.44
173_R	188_E	0.599	0.44
197_R	202_E	0.599	0.44
70_E	73_E	0.597	0.43
196_E	199_E	0.596	0.43
4_E	18_N	0.595	0.43
202_E	205_A	0.594	0.43
80_E	326_E	0.592	0.43
328_I	332_R	0.592	0.43
106_L	109_E	0.588	0.42
309_E	312_E	0.587	0.42
67_E	71_G	0.586	0.42
286_L	293_E	0.584	0.42
261_E	268_E	0.581	0.42
18_N	22_D	0.579	0.41
2_S	6_R	0.579	0.41
16_K	27_E	0.579	0.41
67_E	242_I	0.578	0.41
226_K	231_R	0.573	0.41
31_I	34_E	0.571	0.41
330_E	334_R	0.570	0.41
212_A	215_K	0.570	0.41
33_E	36_K	0.567	0.40
66_E	69_K	0.566	0.40
132_A	137_K	0.563	0.40
6_R	14_L	0.561	0.40
32_K	336_L	0.560	0.40
43_D	54_L	0.560	0.40
304_E	308_E	0.559	0.39
155_L	158_A	0.559	0.39
265_E	291_E	0.559	0.39
52_K	55_E	0.556	0.39
108_K	112_E	0.554	0.39
8_L	11_K	0.554	0.39
259_E	263_L	0.553	0.39
280_K	283_E	0.549	0.38
51_L	54_L	0.548	0.38
221_K	229_R	0.548	0.38
192_K	217_R	0.548	0.38
238_R	241_Q	0.547	0.38
12_L	19_K	0.546	0.38
221_K	224_A	0.545	0.38
180_E	183_R	0.543	0.38
165_E	210_E	0.542	0.38
186_L	194_Q	0.539	0.37
154_I	157_Y	0.539	0.37
289_R	296_I	0.538	0.37
335_K	338_E	0.538	0.37
185_R	189_Q	0.538	0.37
78_Q	241_Q	0.535	0.37
179_K	256_E	0.534	0.37
47_E	79_I	0.533	0.37
232_L	337_E	0.533	0.37
237_A	240_E	0.533	0.37
243_A	258_E	0.532	0.37
302_Q	306_E	0.530	0.37
50_R	79_I	0.530	0.37
309_E	316_A	0.530	0.37
109_E	116_E	0.529	0.36
167_E	174_E	0.529	0.36
25_I	51_L	0.528	0.36
91_E	99_L	0.527	0.36
205_A	208_A	0.527	0.36
13_L	16_K	0.527	0.36
86_R	217_R	0.525	0.36
220_E	226_K	0.525	0.36
116_E	337_E	0.524	0.36
155_L	162_E	0.523	0.36
231_R	234_L	0.522	0.36
2_S	5_L	0.521	0.36
6_R	132_A	0.521	0.36
29_K	33_E	0.520	0.36
207_L	331_E	0.520	0.36
299_R	303_R	0.519	0.35
150_E	287_E	0.519	0.35
179_K	187_R	0.518	0.35
180_E	205_A	0.518	0.35
16_K	20_E	0.517	0.35
60_K	64_R	0.517	0.35
5_L	9_E	0.516	0.35
313_E	317_L	0.516	0.35
173_R	176_K	0.514	0.35
70_E	74_V	0.514	0.35
97_K	104_V	0.513	0.35
44_E	70_E	0.513	0.35
325_E	328_I	0.513	0.35
292_L	295_Q	0.512	0.35
60_K	63_K	0.512	0.35
23_A	210_E	0.510	0.35
10_S	17_V	0.510	0.35
189_Q	194_Q	0.510	0.35
143_E	149_E	0.509	0.34
179_K	190_Q	0.508	0.34
208_A	212_A	0.508	0.34
3_D	7_E	0.508	0.34
7_E	10_S	0.507	0.34
96_E	259_E	0.507	0.34
122_K	130_E	0.507	0.34
53_A	56_R	0.506	0.34
198_E	205_A	0.506	0.34
56_R	244_E	0.504	0.34
198_E	202_E	0.503	0.34
265_E	274_E	0.503	0.34
206_E	214_R	0.502	0.34
8_L	20_E	0.501	0.34
21_R	25_I	0.501	0.34
229_R	280_K	0.500	0.34
113_R	145_E	0.500	0.34

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.

PDB	Chains	Cov	%	HHΔ
2ww6A	3	0.0347	1.1	0.96	Contact Map
2lnmA	1	0.0607	0.9	0.962	Contact Map
4w4mA	1	0.0809	0.9	0.963	Contact Map
3j60G	1	0.1763	0.9	0.963	Contact Map
4ujpH	1	0.1734	0.8	0.963	Contact Map
1to2I	1	0.0636	0.8	0.964	Contact Map
2nzcA	3	0.078	0.8	0.964	Contact Map
2iboA	4	0.104	0.8	0.964	Contact Map
2akfA	3	0.0434	0.8	0.964	Contact Map
4u7iA	1	0.0925	0.7	0.964	Contact Map

Sequence Conservation (Image Generated using WebLogo v3)

Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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