YSOA - BACSU - GREMLIN Contacts

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YSOA - TPR repeat-containing protein YsoA

UniProt:	P94569	Sequences: MTHDKKNAKIIPFPHLKDRLVEKGMSSLKEKKYQEALELFSEAMKYDDTESDLHLGMAICFLELGELEEAESVCEKMLKEGYGHYFTVLQVYMTILIQLKKYEEVKSTIEAVLEENQLPAESAEQFYKLLDFSRKMTDPDREDEAWAEEYEDTIDTEKVLASPEEQMNLIHSLKDRNVAKYTGLLKTILQDPSAHPIIKTMIVMLLAEHEYSKPVHISKFGESLTIEPSEIVPPDAAPILHRVLRVLDETLGNENPTLYAAVEELWRRHLYVLYPFQPKLLSADLWAAALHKVGYEMHGIEIESEELHMMYEFTDRELDEACTMLKDIEEISYL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	334 (289)
Sequences:	737 (678)
Seq/√Len:	39.9

BACSU - YSOA YVCD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
58_A	74_C	4.584	1.00
37_L	57_M	4.524	1.00
57_M	73_V	4.480	1.00
101_K	104_E	4.437	1.00
93_M	109_I	3.958	1.00
66_E	69_E	3.951	1.00
43_A	77_M	3.829	1.00
78_L	89_L	3.673	1.00
61_F	69_E	3.611	1.00
134_R	139_P	2.810	1.00
24_G	40_F	2.781	1.00
47_D	50_E	2.712	1.00
35_E	38_E	2.613	1.00
71_E	92_Y	2.578	1.00
37_L	60_C	2.571	1.00
92_Y	108_T	2.535	1.00
21_V	56_G	2.397	1.00
306_E	310_M	2.324	1.00
44_M	54_H	2.302	1.00
32_K	35_E	2.284	1.00
71_E	95_I	2.249	1.00
273_L	278_P	2.100	0.99
41_S	57_M	2.092	0.99
55_L	91_V	2.083	0.99
81_G	84_H	2.010	0.99
92_Y	96_L	1.946	0.99
33_Y	67_L	1.886	0.98
24_G	39_L	1.883	0.98
307_L	310_M	1.824	0.98
304_S	310_M	1.791	0.98
20_L	54_H	1.788	0.98
305_E	309_M	1.740	0.97
61_F	66_E	1.715	0.97
280_L	284_D	1.711	0.97
112_V	122_S	1.689	0.97
55_L	95_I	1.679	0.96
300_I	310_M	1.665	0.96
45_K	82_Y	1.659	0.96
89_L	108_T	1.639	0.96
269_H	273_L	1.635	0.96
308_H	311_Y	1.634	0.96
27_S	35_E	1.623	0.96
148_E	151_E	1.618	0.96
75_E	92_Y	1.618	0.96
48_D	51_S	1.566	0.95
130_L	133_S	1.550	0.94
20_L	42_E	1.541	0.94
19_R	53_L	1.540	0.94
305_E	308_H	1.532	0.94
153_T	157_E	1.524	0.94
89_L	111_A	1.516	0.94
307_L	311_Y	1.503	0.94
135_K	138_D	1.498	0.93
258_L	262_V	1.493	0.93
57_M	92_Y	1.489	0.93
54_H	73_V	1.487	0.93
300_I	308_H	1.468	0.93
304_S	309_M	1.457	0.92
300_I	306_E	1.452	0.92
115_E	118_L	1.449	0.92
284_D	291_H	1.426	0.92
93_M	112_V	1.422	0.91
284_D	298_H	1.419	0.91
262_V	269_H	1.409	0.91
74_C	81_G	1.388	0.90
84_H	92_Y	1.376	0.90
255_N	262_V	1.364	0.90
136_M	139_P	1.353	0.89
74_C	91_V	1.342	0.89
291_H	295_Y	1.338	0.89
284_D	287_A	1.336	0.89
77_M	88_V	1.308	0.88
63_E	88_V	1.308	0.88
206_L	210_E	1.307	0.88
271_Y	275_P	1.304	0.87
74_C	95_I	1.298	0.87
91_V	95_I	1.292	0.87
55_L	62_L	1.284	0.87
255_N	258_L	1.275	0.86
40_F	77_M	1.275	0.86
19_R	23_K	1.260	0.86
288_A	292_K	1.254	0.85
20_L	39_L	1.239	0.85
123_A	127_Y	1.238	0.85
275_P	278_P	1.236	0.84
25_M	40_F	1.236	0.84
39_L	73_V	1.223	0.84
150_Y	155_D	1.213	0.83
59_I	91_V	1.209	0.83
81_G	85_Y	1.208	0.83
68_E	99_L	1.207	0.83
207_A	210_E	1.204	0.83
69_E	72_S	1.202	0.83
196_P	208_E	1.198	0.83
23_K	39_L	1.190	0.82
163_P	168_N	1.183	0.82
55_L	77_M	1.172	0.81
263_E	269_H	1.167	0.81
303_E	306_E	1.154	0.80
306_E	311_Y	1.147	0.80
292_K	311_Y	1.132	0.79
59_I	74_C	1.130	0.79
87_T	91_V	1.114	0.78
32_K	65_G	1.110	0.77
300_I	311_Y	1.108	0.77
71_E	74_C	1.106	0.77
164_E	168_N	1.105	0.77
285_L	294_G	1.103	0.77
144_E	147_A	1.103	0.77
93_M	105_V	1.100	0.77
301_E	308_H	1.099	0.77
302_I	308_H	1.098	0.77
56_G	91_V	1.093	0.76
57_M	61_F	1.092	0.76
60_C	95_I	1.081	0.75
62_L	91_V	1.079	0.75
56_G	59_I	1.076	0.75
89_L	97_I	1.074	0.75
60_C	64_L	1.071	0.75
167_M	174_K	1.063	0.74
202_I	206_L	1.057	0.74
93_M	96_L	1.049	0.73
299_G	308_H	1.045	0.73
84_H	87_T	1.043	0.73
88_V	122_S	1.041	0.73
288_A	300_I	1.038	0.72
199_K	210_E	1.037	0.72
56_G	77_M	1.037	0.72
287_A	291_H	1.037	0.72
95_I	99_L	1.032	0.72
291_H	300_I	1.031	0.72
147_A	151_E	1.025	0.71
33_Y	84_H	1.023	0.71
35_E	75_E	1.019	0.71
58_A	73_V	1.018	0.71
130_L	139_P	1.018	0.71
54_H	77_M	1.008	0.70
58_A	105_V	1.006	0.70
92_Y	109_I	1.006	0.70
171_H	184_L	1.005	0.70
267_R	271_Y	0.997	0.69
288_A	311_Y	0.989	0.69
303_E	311_Y	0.985	0.68
297_M	300_I	0.982	0.68
130_L	134_R	0.975	0.68
294_G	300_I	0.975	0.68
91_V	97_I	0.974	0.68
170_I	177_N	0.973	0.67
300_I	307_L	0.962	0.67
207_A	212_S	0.962	0.67
294_G	307_L	0.959	0.66
300_I	305_E	0.959	0.66
67_L	95_I	0.955	0.66
147_A	156_T	0.950	0.66
167_M	170_I	0.940	0.65
262_V	268_R	0.939	0.65
59_I	63_E	0.937	0.65
305_E	310_M	0.936	0.64
302_I	310_M	0.932	0.64
21_V	28_L	0.926	0.64
281_L	301_E	0.923	0.63
292_K	304_S	0.923	0.63
291_H	311_Y	0.915	0.63
240_L	307_L	0.915	0.63
273_L	285_L	0.915	0.63
268_R	271_Y	0.914	0.63
298_H	308_H	0.905	0.62
23_K	26_S	0.901	0.61
23_K	27_S	0.896	0.61
20_L	89_L	0.894	0.61
25_M	28_L	0.892	0.61
266_W	274_Y	0.891	0.61
55_L	74_C	0.890	0.60
43_A	53_L	0.889	0.60
291_H	299_G	0.886	0.60
294_G	298_H	0.883	0.60
202_I	210_E	0.883	0.60
266_W	290_L	0.882	0.60
97_I	109_I	0.881	0.60
161_A	166_Q	0.879	0.60
133_S	137_T	0.879	0.60
303_E	310_M	0.870	0.59
123_A	139_P	0.867	0.58
23_K	57_M	0.867	0.58
27_S	71_E	0.866	0.58
28_L	40_F	0.866	0.58
27_S	32_K	0.864	0.58
132_F	135_K	0.860	0.58
216_H	220_F	0.859	0.58
129_L	136_M	0.855	0.57
42_E	67_L	0.853	0.57
69_E	74_C	0.847	0.57
117_Q	121_E	0.845	0.56
58_A	92_Y	0.842	0.56
222_E	225_T	0.841	0.56
295_Y	300_I	0.836	0.56
91_V	94_T	0.835	0.56
299_G	306_E	0.835	0.56
302_I	309_M	0.833	0.55
259_Y	264_E	0.833	0.55
285_L	293_V	0.832	0.55
132_F	139_P	0.829	0.55
295_Y	301_E	0.826	0.55
140_D	152_D	0.822	0.54
263_E	285_L	0.822	0.54
298_H	304_S	0.820	0.54
53_L	71_E	0.817	0.54
24_G	47_D	0.812	0.53
281_L	284_D	0.812	0.53
32_K	38_E	0.812	0.53
303_E	308_H	0.811	0.53
261_A	268_R	0.803	0.53
85_Y	93_M	0.802	0.53
299_G	311_Y	0.802	0.53
63_E	77_M	0.801	0.52
78_L	82_Y	0.798	0.52
301_E	307_L	0.796	0.52
75_E	78_L	0.785	0.51
296_E	301_E	0.785	0.51
151_E	159_V	0.784	0.51
25_M	99_L	0.782	0.51
285_L	288_A	0.781	0.51
200_T	208_E	0.780	0.51
40_F	56_G	0.780	0.51
221_G	225_T	0.779	0.50
149_E	155_D	0.779	0.50
291_H	294_G	0.778	0.50
291_H	298_H	0.778	0.50
22_E	29_K	0.777	0.50
30_E	33_Y	0.776	0.50
104_E	107_S	0.775	0.50
263_E	266_W	0.772	0.50
152_D	155_D	0.770	0.50
290_L	297_M	0.768	0.49
55_L	59_I	0.768	0.49
25_M	59_I	0.767	0.49
68_E	79_K	0.767	0.49
49_T	66_E	0.765	0.49
62_L	98_Q	0.764	0.49
122_S	138_D	0.763	0.49
304_S	307_L	0.761	0.49
55_L	63_E	0.761	0.49
268_R	272_V	0.759	0.49
301_E	306_E	0.756	0.48
200_T	209_H	0.755	0.48
292_K	296_E	0.751	0.48
294_G	299_G	0.749	0.48
71_E	80_E	0.748	0.48
266_W	286_W	0.748	0.48
299_G	307_L	0.747	0.48
63_E	95_I	0.746	0.47
285_L	306_E	0.745	0.47
109_I	116_N	0.744	0.47
80_E	112_V	0.742	0.47
122_S	125_Q	0.740	0.47
301_E	304_S	0.739	0.47
57_M	91_V	0.738	0.47
106_K	110_E	0.738	0.47
154_I	157_E	0.737	0.47
288_A	291_H	0.736	0.47
284_D	292_K	0.734	0.46
168_N	172_S	0.733	0.46
26_S	75_E	0.732	0.46
64_L	100_K	0.730	0.46
153_T	156_T	0.729	0.46
289_A	293_V	0.728	0.46
24_G	56_G	0.728	0.46
24_G	124_E	0.726	0.46
301_E	310_M	0.722	0.45
127_Y	136_M	0.721	0.45
202_I	209_H	0.718	0.45
82_Y	85_Y	0.717	0.45
116_N	119_P	0.717	0.45
30_E	67_L	0.713	0.44
269_H	278_P	0.713	0.44
127_Y	131_D	0.711	0.44
131_D	135_K	0.710	0.44
40_F	57_M	0.710	0.44
31_K	35_E	0.709	0.44
297_M	306_E	0.706	0.44
296_E	311_Y	0.704	0.44
59_I	62_L	0.703	0.44
179_A	182_T	0.702	0.43
23_K	30_E	0.701	0.43
127_Y	134_R	0.701	0.43
102_Y	106_K	0.699	0.43
131_D	136_M	0.698	0.43
269_H	280_L	0.696	0.43
302_I	305_E	0.692	0.43
291_H	297_M	0.691	0.42
205_L	209_H	0.687	0.42
201_M	204_M	0.686	0.42
284_D	288_A	0.683	0.42
55_L	84_H	0.681	0.42
294_G	297_M	0.680	0.41
196_P	199_K	0.680	0.41
259_Y	270_L	0.679	0.41
67_L	102_Y	0.679	0.41
58_A	96_L	0.679	0.41
298_H	311_Y	0.679	0.41
162_S	169_L	0.678	0.41
35_E	50_E	0.677	0.41
233_P	236_A	0.676	0.41
167_M	172_S	0.675	0.41
288_A	299_G	0.675	0.41
34_Q	60_C	0.671	0.41
301_E	305_E	0.670	0.41
162_S	168_N	0.669	0.41
296_E	310_M	0.667	0.40
295_Y	298_H	0.666	0.40
293_V	296_E	0.665	0.40
131_D	134_R	0.662	0.40
59_I	90_Q	0.660	0.40
288_A	295_Y	0.660	0.40
25_M	95_I	0.659	0.40
197_I	200_T	0.658	0.40
105_V	132_F	0.654	0.39
285_L	292_K	0.651	0.39
116_N	120_A	0.651	0.39
196_P	200_T	0.648	0.39
96_L	104_E	0.647	0.39
292_K	300_I	0.646	0.38
67_L	99_L	0.645	0.38
24_G	59_I	0.643	0.38
287_A	296_E	0.642	0.38
94_T	97_I	0.641	0.38
295_Y	302_I	0.641	0.38
118_L	122_S	0.641	0.38
25_M	87_T	0.640	0.38
24_G	43_A	0.638	0.38
269_H	284_D	0.638	0.38
288_A	308_H	0.637	0.38
198_I	203_V	0.635	0.38
105_V	109_I	0.635	0.38
60_C	90_Q	0.633	0.37
289_A	299_G	0.633	0.37
62_L	71_E	0.632	0.37
273_L	280_L	0.632	0.37
126_F	139_P	0.632	0.37
62_L	95_I	0.630	0.37
262_V	266_W	0.627	0.37
63_E	91_V	0.627	0.37
292_K	308_H	0.626	0.37
26_S	50_E	0.625	0.37
23_K	58_A	0.623	0.37
50_E	67_L	0.622	0.36
113_L	123_A	0.619	0.36
23_K	71_E	0.618	0.36
60_C	63_E	0.613	0.36
162_S	181_Y	0.613	0.36
163_P	166_Q	0.612	0.36
286_W	291_H	0.611	0.36
269_H	288_A	0.606	0.35
286_W	294_G	0.606	0.35
66_E	113_L	0.604	0.35
54_H	89_L	0.603	0.35
304_S	308_H	0.602	0.35
298_H	306_E	0.601	0.35
90_Q	95_I	0.600	0.35
19_R	22_E	0.599	0.35
189_L	196_P	0.594	0.34
216_H	226_I	0.593	0.34
72_S	107_S	0.592	0.34
28_L	63_E	0.591	0.34
203_V	210_E	0.591	0.34
283_A	294_G	0.588	0.34
110_E	113_L	0.585	0.33
145_A	148_E	0.584	0.33
23_K	35_E	0.584	0.33
22_E	47_D	0.584	0.33
296_E	304_S	0.580	0.33
227_E	231_I	0.580	0.33
180_K	185_L	0.580	0.33
42_E	45_K	0.579	0.33
23_K	32_K	0.578	0.33
285_L	291_H	0.578	0.33
299_G	305_E	0.576	0.33
62_L	78_L	0.576	0.33
170_I	173_L	0.575	0.33
147_A	150_Y	0.575	0.33
239_I	245_R	0.572	0.32
302_I	306_E	0.571	0.32
55_L	88_V	0.571	0.32
296_E	307_L	0.568	0.32
169_L	175_D	0.566	0.32
40_F	51_S	0.565	0.32
199_K	203_V	0.564	0.32
261_A	266_W	0.564	0.32
40_F	124_E	0.564	0.32
33_Y	45_K	0.563	0.32
288_A	293_V	0.563	0.32
61_F	89_L	0.562	0.32
230_E	236_A	0.562	0.32
229_S	232_V	0.560	0.31
271_Y	274_Y	0.559	0.31
155_D	159_V	0.556	0.31
99_L	108_T	0.556	0.31
203_V	206_L	0.556	0.31
281_L	295_Y	0.551	0.31
241_H	247_L	0.550	0.31
45_K	49_T	0.550	0.31
61_F	68_E	0.550	0.31
299_G	302_I	0.550	0.31
52_D	91_V	0.549	0.30
94_T	98_Q	0.549	0.30
77_M	87_T	0.549	0.30
126_F	133_S	0.549	0.30
189_L	217_I	0.549	0.30
117_Q	123_A	0.547	0.30
265_L	286_W	0.545	0.30
47_D	51_S	0.545	0.30
42_E	76_K	0.544	0.30
283_A	286_W	0.541	0.30
238_P	251_L	0.540	0.30
269_H	286_W	0.537	0.30
289_A	292_K	0.536	0.29
79_K	82_Y	0.535	0.29
260_A	269_H	0.532	0.29
159_V	241_H	0.529	0.29
25_M	91_V	0.529	0.29
73_V	92_Y	0.526	0.29
41_S	87_T	0.522	0.28
21_V	53_L	0.521	0.28
56_G	60_C	0.518	0.28
20_L	44_M	0.518	0.28
106_K	123_A	0.514	0.28
54_H	59_I	0.508	0.27
267_R	274_Y	0.507	0.27
298_H	302_I	0.506	0.27
169_L	180_K	0.506	0.27
105_V	112_V	0.506	0.27
237_A	244_L	0.504	0.27
23_K	37_L	0.502	0.27
295_Y	310_M	0.500	0.27

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
3q7aA	1	0.6437	99.9	0.536	Contact Map
3dssA	1	0.5988	99.9	0.539	Contact Map
2pziA	1	0.6168	99.9	0.541	Contact Map
1p5qA	5	0.476	99.9	0.542	Contact Map
1kt0A	2	0.4251	99.9	0.542	Contact Map
1w3bA	2	0.5778	99.9	0.548	Contact Map
4l9pA	1	0.6108	99.9	0.551	Contact Map
2h6fA	1	0.6946	99.9	0.552	Contact Map
1fchA	3	0.4701	99.8	0.554	Contact Map
4eqfA	1	0.4671	99.8	0.555	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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