YIHM - ECOLI - GREMLIN Contacts

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YIHM - Uncharacterized protein YihM

UniProt:	P32134	Sequences: MVTINNARKILQRVDTLPLYLHAYAFHLNMRLERVLPADLLDIASENNLRGVKIHVLDGERFSLGNMDDKELSAFGDKARRLNLDIHIETSASDKASIDEAVAIALKTGASSVRFYPRYEGNLRDVLSIIANDIAYVRETYQDSGLTFTIEQHEDLKSHELVSLVKESEMESLSLLFDFANMINANEHPIDALKTMAPHITQVHIKDALIVKEPGGLGHKACISGQGDMPFKALLTHLICLGDDEPQVTAYGLEEEVDYYAPAFRFEDEDDNPWIPYRQMSETPLPENHLLDARLRKEKEDAINQINHVRNVLQQIKQEANHLLNH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11839
Length:	326 (250)
Sequences:	1026 (809)
Seq/√Len:	51.2

ECOLI - YIHM FRLC SGBU ULAE YCJR YGBM HYI
BACSU - IOLE IOLH IOLI YFIH
SULSO - Q97UI8 Q97UG9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
76_G	80_R	4.604	1.00
230_P	233_A	3.853	1.00
265_R	269_E	3.149	1.00
207_D	225_G	3.137	1.00
42_D	82_L	3.124	1.00
267_E	270_D	2.710	1.00
174_S	201_T	2.569	1.00
73_S	107_K	2.558	1.00
147_T	201_T	2.532	1.00
41_L	82_L	2.505	1.00
194_K	237_H	2.457	1.00
163_S	167_E	2.356	1.00
141_Y	148_F	2.326	1.00
138_R	173_L	2.308	1.00
103_A	144_S	2.268	1.00
149_T	201_T	2.254	1.00
131_A	167_E	2.250	1.00
51_G	246_P	2.246	1.00
79_A	86_I	2.241	1.00
98_I	137_V	2.237	1.00
147_T	174_S	2.213	1.00
188_H	191_D	2.199	1.00
78_K	82_L	2.130	1.00
263_A	270_D	2.079	1.00
149_T	176_L	2.057	1.00
139_E	170_M	2.024	1.00
42_D	78_K	2.008	1.00
139_E	142_Q	1.996	1.00
153_H	206_K	1.947	0.99
192_A	196_M	1.924	0.99
207_D	227_G	1.911	0.99
18_P	85_D	1.869	0.99
102_V	144_S	1.845	0.99
38_A	78_K	1.803	0.99
99_D	140_T	1.788	0.99
76_G	108_T	1.785	0.99
36_L	39_D	1.784	0.99
263_A	266_F	1.779	0.99
106_L	144_S	1.761	0.99
135_A	169_E	1.741	0.99
178_D	250_A	1.736	0.99
51_G	84_L	1.708	0.99
203_V	238_L	1.706	0.99
128_S	167_E	1.693	0.99
263_A	267_E	1.663	0.98
128_S	132_N	1.660	0.98
74_A	77_D	1.660	0.98
264_F	267_E	1.642	0.98
266_F	269_E	1.635	0.98
264_F	270_D	1.600	0.98
236_T	240_C	1.592	0.98
191_D	194_K	1.581	0.98
96_A	99_D	1.579	0.98
266_F	270_D	1.576	0.98
261_A	265_R	1.576	0.98
99_D	143_D	1.567	0.98
127_L	163_S	1.532	0.97
268_D	272_N	1.517	0.97
77_D	81_R	1.500	0.97
44_A	52_V	1.498	0.97
149_T	174_S	1.496	0.97
41_L	79_A	1.474	0.96
111_S	147_T	1.465	0.96
42_D	46_E	1.457	0.96
115_F	137_V	1.443	0.96
162_V	195_T	1.438	0.96
221_A	224_S	1.433	0.96
262_P	265_R	1.425	0.96
131_A	168_S	1.423	0.96
271_D	274_W	1.400	0.95
105_A	110_A	1.365	0.95
264_F	268_D	1.363	0.94
102_V	141_Y	1.341	0.94
38_A	74_A	1.334	0.94
235_L	247_Q	1.321	0.94
180_A	206_K	1.320	0.93
142_Q	172_S	1.314	0.93
20_Y	51_G	1.311	0.93
163_S	166_K	1.297	0.93
256_E	259_Y	1.293	0.93
221_A	225_G	1.293	0.93
216_G	221_A	1.276	0.92
205_I	247_Q	1.266	0.92
102_V	140_T	1.252	0.92
140_T	144_S	1.248	0.91
152_Q	161_L	1.242	0.91
115_F	141_Y	1.228	0.91
92_A	96_A	1.222	0.91
151_E	250_A	1.219	0.90
138_R	170_M	1.207	0.90
270_D	274_W	1.195	0.90
135_A	168_S	1.193	0.89
217_L	223_I	1.193	0.89
114_R	206_K	1.177	0.89
45_S	83_N	1.174	0.89
216_G	223_I	1.171	0.89
95_K	136_Y	1.169	0.88
179_F	234_L	1.168	0.88
99_D	136_Y	1.166	0.88
217_L	221_A	1.145	0.87
269_E	273_P	1.132	0.87
193_L	237_H	1.129	0.87
96_A	100_E	1.118	0.86
114_R	153_H	1.113	0.86
259_Y	265_R	1.111	0.86
142_Q	171_E	1.106	0.86
153_H	252_G	1.102	0.85
77_D	96_A	1.078	0.84
74_A	81_R	1.071	0.84
260_Y	267_E	1.067	0.83
181_N	224_S	1.064	0.83
51_G	87_H	1.063	0.83
162_V	165_V	1.062	0.83
85_D	205_I	1.057	0.83
262_P	266_F	1.053	0.83
22_H	25_A	1.049	0.82
141_Y	173_L	1.047	0.82
242_G	245_E	1.039	0.82
131_A	135_A	1.037	0.82
91_S	95_K	1.028	0.81
269_E	274_W	1.027	0.81
233_A	236_T	1.022	0.81
232_K	236_T	1.022	0.81
229_M	234_L	1.018	0.80
103_A	106_L	1.014	0.80
151_E	204_H	1.006	0.80
128_S	191_D	0.999	0.79
81_R	103_A	0.997	0.79
53_K	89_E	0.993	0.79
260_Y	264_F	0.986	0.78
134_I	148_F	0.978	0.78
91_S	94_D	0.966	0.77
51_G	85_D	0.963	0.77
53_K	204_H	0.962	0.76
206_K	251_Y	0.961	0.76
102_V	148_F	0.959	0.76
81_R	166_K	0.955	0.76
39_D	42_D	0.955	0.76
103_A	140_T	0.953	0.76
181_N	206_K	0.951	0.76
230_P	254_E	0.938	0.75
154_E	184_N	0.929	0.74
270_D	273_P	0.927	0.74
174_S	199_H	0.925	0.74
105_A	146_L	0.921	0.73
112_S	149_T	0.908	0.72
93_S	244_D	0.908	0.72
138_R	172_S	0.904	0.72
142_Q	170_M	0.902	0.72
149_T	207_D	0.901	0.72
49_L	249_T	0.898	0.71
159_H	195_T	0.898	0.71
263_A	269_E	0.897	0.71
151_E	252_G	0.890	0.71
65_G	69_D	0.889	0.71
37_P	41_L	0.888	0.70
168_S	173_L	0.888	0.70
52_V	161_L	0.885	0.70
221_A	253_L	0.877	0.70
218_G	221_A	0.876	0.69
216_G	219_H	0.875	0.69
20_Y	248_V	0.873	0.69
130_I	164_L	0.872	0.69
23_A	202_Q	0.871	0.69
162_V	196_M	0.868	0.69
184_N	229_M	0.859	0.68
115_F	134_I	0.854	0.67
193_L	196_M	0.852	0.67
92_A	194_K	0.847	0.67
104_I	211_V	0.843	0.66
197_A	241_L	0.841	0.66
269_E	272_N	0.838	0.66
78_K	258_D	0.838	0.66
165_V	175_L	0.834	0.66
72_L	107_K	0.831	0.65
45_S	82_L	0.831	0.65
152_Q	182_M	0.830	0.65
53_K	252_G	0.828	0.65
221_A	252_G	0.826	0.65
116_Y	153_H	0.823	0.65
155_D	204_H	0.823	0.65
125_D	128_S	0.823	0.65
265_R	268_D	0.821	0.64
95_K	99_D	0.813	0.64
162_V	199_H	0.810	0.63
76_G	107_K	0.809	0.63
21_L	26_F	0.803	0.63
41_L	52_V	0.802	0.63
178_D	204_H	0.800	0.62
157_K	160_E	0.793	0.62
80_R	109_G	0.791	0.61
61_R	64_L	0.790	0.61
237_H	241_L	0.783	0.61
138_R	142_Q	0.783	0.61
43_I	47_N	0.776	0.60
17_L	247_Q	0.771	0.60
181_N	196_M	0.770	0.59
185_A	193_L	0.769	0.59
166_K	240_C	0.764	0.59
77_D	80_R	0.761	0.58
194_K	240_C	0.760	0.58
150_I	162_V	0.757	0.58
124_R	244_D	0.756	0.58
114_R	202_Q	0.755	0.58
38_A	77_D	0.752	0.58
68_D	71_E	0.752	0.58
206_K	221_A	0.748	0.57
127_L	164_L	0.738	0.56
258_D	263_A	0.736	0.56
115_F	150_I	0.735	0.56
18_P	228_D	0.731	0.55
260_Y	265_R	0.723	0.55
154_E	181_N	0.722	0.55
64_L	67_M	0.722	0.55
99_D	144_S	0.719	0.54
62_F	65_G	0.719	0.54
152_Q	200_I	0.716	0.54
73_S	240_C	0.715	0.54
93_S	96_A	0.714	0.54
46_E	146_L	0.710	0.53
255_E	258_D	0.707	0.53
38_A	42_D	0.706	0.53
158_S	187_E	0.705	0.53
35_V	150_I	0.704	0.53
77_D	143_D	0.704	0.53
151_E	181_N	0.703	0.53
83_N	145_G	0.703	0.53
100_E	128_S	0.703	0.53
230_P	238_L	0.702	0.52
39_D	43_I	0.700	0.52
168_S	229_M	0.697	0.52
124_R	163_S	0.697	0.52
237_H	240_C	0.696	0.52
18_P	239_I	0.692	0.51
116_Y	154_E	0.683	0.50
260_Y	270_D	0.680	0.50
129_I	167_E	0.679	0.50
125_D	129_I	0.678	0.50
141_Y	229_M	0.678	0.50
103_A	107_K	0.672	0.49
108_T	146_L	0.670	0.49
206_K	252_G	0.667	0.49
73_S	190_I	0.666	0.49
54_I	88_I	0.662	0.48
22_H	252_G	0.660	0.48
135_A	173_L	0.660	0.48
90_T	204_H	0.657	0.48
140_T	143_D	0.657	0.48
122_N	125_D	0.655	0.48
234_L	237_H	0.653	0.47
145_G	172_S	0.653	0.47
161_L	175_L	0.653	0.47
154_E	206_K	0.651	0.47
87_H	246_P	0.648	0.47
259_Y	264_F	0.648	0.47
83_N	86_I	0.647	0.47
180_A	252_G	0.647	0.47
25_A	154_E	0.646	0.47
41_L	238_L	0.646	0.47
162_V	166_K	0.645	0.47
261_A	264_F	0.645	0.47
73_S	166_K	0.644	0.46
74_A	86_I	0.641	0.46
263_A	268_D	0.639	0.46
84_L	103_A	0.638	0.46
107_K	128_S	0.637	0.46
255_E	267_E	0.635	0.46
116_Y	254_E	0.630	0.45
40_L	153_H	0.628	0.45
77_D	195_T	0.628	0.45
53_K	202_Q	0.623	0.44
190_I	194_K	0.613	0.43
248_V	253_L	0.610	0.43
42_D	167_E	0.609	0.43
165_V	196_M	0.607	0.43
46_E	110_A	0.607	0.43
18_P	246_P	0.606	0.43
219_H	222_C	0.603	0.42
132_N	136_Y	0.603	0.42
238_L	241_L	0.603	0.42
24_Y	206_K	0.602	0.42
43_I	46_E	0.601	0.42
202_Q	206_K	0.600	0.42
21_L	153_H	0.600	0.42
126_V	163_S	0.596	0.42
99_D	134_I	0.596	0.42
152_Q	181_N	0.596	0.42
151_E	178_D	0.592	0.41
203_V	235_L	0.590	0.41
138_R	168_S	0.589	0.41
95_K	140_T	0.589	0.41
119_Y	122_N	0.589	0.41
127_L	131_A	0.588	0.41
36_L	46_E	0.588	0.41
139_E	172_S	0.586	0.41
257_V	266_F	0.585	0.40
80_R	241_L	0.585	0.40
96_A	169_E	0.584	0.40
138_R	157_K	0.584	0.40
236_T	239_I	0.584	0.40
22_H	55_H	0.583	0.40
21_L	44_A	0.583	0.40
41_L	75_F	0.581	0.40
95_K	133_D	0.580	0.40
146_L	159_H	0.580	0.40
116_Y	252_G	0.579	0.40
36_L	198_P	0.575	0.39
181_N	219_H	0.574	0.39
53_K	246_P	0.573	0.39
141_Y	243_D	0.573	0.39
189_P	235_L	0.572	0.39
128_S	244_D	0.569	0.39
169_E	236_T	0.568	0.39
168_S	171_E	0.565	0.38
81_R	128_S	0.565	0.38
78_K	83_N	0.563	0.38
112_S	147_T	0.563	0.38
145_G	189_P	0.562	0.38
164_L	269_E	0.561	0.38
36_L	164_L	0.559	0.38
188_H	197_A	0.555	0.37
262_P	273_P	0.555	0.37
40_L	150_I	0.555	0.37
55_H	153_H	0.553	0.37
73_S	76_G	0.553	0.37
180_A	253_L	0.552	0.37
127_L	167_E	0.550	0.37
93_S	132_N	0.548	0.37
132_N	171_E	0.548	0.37
121_G	171_E	0.546	0.37
109_G	145_G	0.545	0.37
166_K	191_D	0.544	0.36
182_M	192_A	0.542	0.36
139_E	143_D	0.540	0.36
216_G	225_G	0.540	0.36
162_V	175_L	0.539	0.36
46_E	66_N	0.539	0.36
46_E	144_S	0.539	0.36
76_G	131_A	0.538	0.36
131_A	170_M	0.537	0.36
73_S	269_E	0.536	0.36
169_E	187_E	0.536	0.36
41_L	242_G	0.535	0.36
97_S	105_A	0.534	0.35
90_T	176_L	0.533	0.35
51_G	248_V	0.533	0.35
267_E	273_P	0.533	0.35
114_R	152_Q	0.531	0.35
179_F	183_I	0.530	0.35
98_I	235_L	0.530	0.35
181_N	186_N	0.528	0.35
159_H	163_S	0.527	0.35
121_G	128_S	0.527	0.35
176_L	231_F	0.525	0.35
40_L	204_H	0.525	0.35
115_F	148_F	0.524	0.35
259_Y	263_A	0.522	0.34
126_V	150_I	0.521	0.34
67_M	251_Y	0.519	0.34
169_E	226_Q	0.518	0.34
46_E	236_T	0.518	0.34
80_R	83_N	0.518	0.34
181_N	205_I	0.516	0.34
258_D	266_F	0.516	0.34
158_S	162_V	0.515	0.34
248_V	252_G	0.515	0.34
158_S	195_T	0.510	0.33
103_A	238_L	0.507	0.33
200_I	240_C	0.506	0.33
169_E	189_P	0.506	0.33
261_A	268_D	0.504	0.33
77_D	142_Q	0.504	0.33
55_H	253_L	0.504	0.33
55_H	116_Y	0.501	0.32
42_D	86_I	0.500	0.32

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
4ovxA	1	0.7638	100	0.451	Contact Map
3u0hA	3	0.7791	100	0.465	Contact Map
2zdsA	5	0.7853	100	0.468	Contact Map
1i60A	1	0.7853	100	0.471	Contact Map
3tvaA	1	0.7822	100	0.471	Contact Map
3cnyA	1	0.7945	100	0.473	Contact Map
3cqjA	2	0.7761	100	0.476	Contact Map
3dx5A	2	0.7577	100	0.477	Contact Map
3p6lA	2	0.7669	100	0.478	Contact Map
3wqoA	2	0.7515	100	0.479	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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