YHBE - BACSU - GREMLIN Contacts

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YHBE - Uncharacterized protein YhbE

UniProt:	P39132	Sequences: MDVVEKLVINGSGSSKGGTFQSVEINGSGTVAGDVECDTFSFNGNGKADGSVKAKAVTISGSGKIHGDVEAESIRMNGTGFIQGEVSAKQLKIAGSSTFGGTVKADGIDISGKAVMEADCETETFQSEGKCKISGLLNADQVIIKLSAGESYAREIGCRHLQVTCRKGMLTLLRLMPQPVLTAELIEGDVIELTNTKAKTVRGNKVIIGPDCQIETVEYSGDYTCDPSASVETSTKL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	237 (230)
Sequences:	293 (249)
Seq/√Len:	16.4

BACSU - YHBE YHBF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
43_N	60_S	4.823	1.00
199_K	215_E	4.272	1.00
131_C	153_A	4.123	1.00
158_C	161_L	4.015	1.00
193_L	201_V	3.869	1.00
163_V	181_L	3.819	1.00
26_N	43_N	3.210	0.99
136_L	157_G	3.057	0.99
45_N	62_S	2.838	0.98
26_N	77_N	2.722	0.97
43_N	77_N	2.681	0.97
157_G	189_D	2.662	0.97
184_E	199_K	2.594	0.96
140_D	159_R	2.557	0.96
10_N	26_N	2.517	0.95
28_S	62_S	2.437	0.94
54_A	57_V	2.381	0.94
123_E	138_N	2.357	0.93
6_K	21_Q	2.354	0.93
77_N	94_A	2.291	0.92
133_I	137_L	2.226	0.91
60_S	77_N	2.164	0.90
105_A	122_T	2.154	0.90
45_N	79_T	2.103	0.88
216_T	235_T	2.079	0.88
12_S	28_S	2.065	0.87
205_K	221_G	2.048	0.87
26_N	60_S	2.023	0.86
37_C	40_F	2.011	0.86
208_I	214_I	1.890	0.82
204_N	220_S	1.887	0.82
208_I	217_V	1.878	0.82
223_Y	234_S	1.868	0.81
193_L	212_C	1.864	0.81
32_A	49_D	1.831	0.80
146_L	211_D	1.820	0.80
202_R	218_E	1.802	0.79
72_E	102_T	1.664	0.73
62_S	79_T	1.662	0.73
60_S	94_A	1.643	0.72
135_G	202_R	1.604	0.70
183_A	186_I	1.576	0.69
13_G	149_G	1.567	0.68
186_I	214_I	1.551	0.68
138_N	157_G	1.514	0.66
163_V	206_V	1.504	0.65
9_I	34_D	1.491	0.64
7_L	146_L	1.461	0.63
137_L	158_C	1.458	0.63
119_D	135_G	1.423	0.61
110_I	114_A	1.392	0.59
15_S	20_F	1.391	0.59
8_V	216_T	1.379	0.58
85_E	101_G	1.371	0.58
59_I	76_M	1.358	0.57
157_G	202_R	1.345	0.56
187_E	202_R	1.330	0.55
82_I	110_I	1.326	0.55
120_C	133_I	1.319	0.55
133_I	158_C	1.317	0.55
51_S	67_G	1.306	0.54
16_K	20_F	1.294	0.53
197_K	213_Q	1.285	0.53
125_F	144_I	1.283	0.53
36_E	53_K	1.282	0.53
137_L	218_E	1.264	0.51
42_F	46_G	1.256	0.51
163_V	185_L	1.241	0.50
13_G	29_G	1.227	0.49
12_S	31_V	1.219	0.49
41_S	75_R	1.214	0.49
155_E	189_D	1.207	0.48
210_P	226_D	1.204	0.48
108_I	122_T	1.197	0.48
50_G	101_G	1.196	0.47
76_M	176_M	1.169	0.46
125_F	131_C	1.153	0.45
27_G	78_G	1.141	0.44
190_V	205_K	1.128	0.44
183_A	215_E	1.125	0.43
125_F	142_V	1.125	0.43
206_V	217_V	1.118	0.43
120_C	137_L	1.105	0.42
119_D	153_A	1.104	0.42
19_T	36_E	1.097	0.42
214_I	229_A	1.093	0.42
154_R	184_E	1.092	0.41
9_I	29_G	1.088	0.41
73_S	206_V	1.085	0.41
138_N	189_D	1.073	0.40
125_F	139_A	1.069	0.40
188_G	202_R	1.063	0.40
34_D	51_S	1.059	0.40
158_C	188_G	1.056	0.39
146_L	181_L	1.056	0.39
10_N	30_T	1.052	0.39
210_P	228_S	1.046	0.39
223_Y	226_D	1.045	0.39
223_Y	231_V	1.035	0.38
192_E	229_A	1.028	0.38
78_G	112_G	1.027	0.38
208_I	213_Q	1.022	0.38
195_N	214_I	1.020	0.37
128_E	206_V	1.017	0.37
217_V	223_Y	1.012	0.37
50_G	144_I	1.006	0.37
10_N	43_N	1.005	0.37
59_I	97_S	1.004	0.37
43_N	94_A	1.003	0.36
154_R	231_V	0.993	0.36
40_F	48_A	0.987	0.36
17_G	23_V	0.986	0.36
161_L	188_G	0.984	0.35
155_E	187_E	0.982	0.35
57_V	235_T	0.977	0.35
193_L	198_A	0.969	0.35
119_D	136_L	0.966	0.35
191_I	206_V	0.964	0.34
215_E	236_K	0.963	0.34
90_Q	206_V	0.960	0.34
187_E	191_I	0.949	0.34
33_G	215_E	0.949	0.34
142_V	190_V	0.944	0.33
156_I	181_L	0.940	0.33
28_S	45_N	0.936	0.33
17_G	20_F	0.934	0.33
71_A	82_I	0.923	0.32
54_A	206_V	0.920	0.32
11_G	18_G	0.915	0.32
21_Q	38_D	0.911	0.32
157_G	187_E	0.908	0.31
121_E	157_G	0.908	0.31
217_V	229_A	0.908	0.31
209_G	212_C	0.906	0.31
131_C	151_S	0.905	0.31
127_S	165_C	0.898	0.31
139_A	142_V	0.887	0.30
47_K	179_P	0.883	0.30
93_I	110_I	0.871	0.30
189_D	202_R	0.867	0.29
74_I	232_E	0.864	0.29
133_I	161_L	0.860	0.29
10_N	13_G	0.857	0.29
226_D	229_A	0.857	0.29
77_N	151_S	0.852	0.29
137_L	157_G	0.850	0.29
153_A	183_A	0.849	0.29
119_D	140_D	0.849	0.29
40_F	57_V	0.848	0.29
6_K	151_S	0.846	0.28
207_I	224_T	0.836	0.28
221_G	236_K	0.834	0.28
186_I	212_C	0.822	0.27
137_L	161_L	0.819	0.27
136_L	189_D	0.815	0.27
32_A	35_V	0.812	0.27
27_G	33_G	0.810	0.27
142_V	220_S	0.806	0.27
50_G	202_R	0.799	0.26
137_L	202_R	0.798	0.26
138_N	187_E	0.798	0.26
127_S	140_D	0.791	0.26
102_T	118_A	0.789	0.26
22_S	25_I	0.789	0.26
55_K	222_D	0.786	0.26
200_T	216_T	0.776	0.25
116_M	191_I	0.775	0.25
12_S	45_N	0.774	0.25
138_N	200_T	0.774	0.25
30_T	166_R	0.774	0.25
12_S	16_K	0.773	0.25
103_V	108_I	0.771	0.25
55_K	72_E	0.771	0.25
99_F	207_I	0.768	0.25
196_T	201_V	0.767	0.25
77_N	111_S	0.766	0.25
35_V	65_I	0.765	0.25
173_L	236_K	0.765	0.25
7_L	15_S	0.764	0.25
195_N	210_P	0.764	0.25
10_N	77_N	0.761	0.25
193_L	196_T	0.760	0.25
139_A	196_T	0.760	0.25
112_G	129_G	0.758	0.24
51_S	68_D	0.756	0.24
146_L	151_S	0.754	0.24
213_Q	232_E	0.749	0.24
69_V	86_V	0.746	0.24
34_D	146_L	0.741	0.24
62_S	116_M	0.740	0.24
28_S	43_N	0.732	0.23
124_T	182_T	0.732	0.23
211_D	228_S	0.730	0.23
75_R	88_A	0.729	0.23
116_M	154_R	0.729	0.23
152_Y	229_A	0.726	0.23
69_V	82_I	0.723	0.23
72_E	134_S	0.720	0.23
28_S	79_T	0.714	0.23
57_V	132_K	0.711	0.22
138_N	202_R	0.710	0.22
9_I	13_G	0.702	0.22
40_F	46_G	0.699	0.22
207_I	226_D	0.695	0.22
114_A	182_T	0.695	0.22
91_L	97_S	0.694	0.22
57_V	71_A	0.692	0.22
17_G	37_C	0.691	0.22
125_F	133_I	0.687	0.21
108_I	171_T	0.687	0.21
21_Q	41_S	0.685	0.21
76_M	114_A	0.684	0.21
36_E	65_I	0.681	0.21
76_M	93_I	0.680	0.21
52_V	72_E	0.671	0.21
198_A	209_G	0.669	0.21
61_G	95_G	0.669	0.21
141_Q	173_L	0.665	0.21
50_G	194_T	0.664	0.21
84_G	95_G	0.662	0.20
50_G	188_G	0.661	0.20
97_S	120_C	0.660	0.20
18_G	201_V	0.656	0.20
82_I	114_A	0.654	0.20
51_S	174_R	0.653	0.20
59_I	80_G	0.653	0.20
24_E	163_V	0.652	0.20
122_T	185_L	0.652	0.20
73_S	229_A	0.651	0.20
131_C	183_A	0.650	0.20
120_C	127_S	0.649	0.20
69_V	169_M	0.648	0.20
120_C	183_A	0.645	0.20
215_E	232_E	0.645	0.20
12_S	26_N	0.644	0.20
225_C	234_S	0.644	0.20
31_V	35_V	0.643	0.20
35_V	232_E	0.633	0.19
124_T	221_G	0.633	0.19
223_Y	230_S	0.633	0.19
26_N	94_A	0.631	0.19
9_I	14_S	0.629	0.19
121_E	202_R	0.626	0.19
119_D	172_L	0.624	0.19
110_I	144_I	0.623	0.19
110_I	127_S	0.620	0.19
23_V	196_T	0.618	0.19
106_D	224_T	0.618	0.19
152_Y	232_E	0.615	0.19
15_S	32_A	0.615	0.19
160_H	190_V	0.615	0.19
29_G	40_F	0.615	0.19
67_G	82_I	0.610	0.19
18_G	37_C	0.610	0.19
65_I	186_I	0.609	0.19
40_F	236_K	0.605	0.18
33_G	129_G	0.603	0.18
70_E	162_Q	0.601	0.18
12_S	62_S	0.599	0.18
6_K	71_A	0.596	0.18
170_L	176_M	0.596	0.18
155_E	218_E	0.596	0.18
137_L	164_T	0.595	0.18
165_C	191_I	0.593	0.18
98_T	153_A	0.592	0.18
198_A	223_Y	0.588	0.18
65_I	74_I	0.585	0.18
95_G	212_C	0.584	0.18
25_I	156_I	0.582	0.18
121_E	139_A	0.581	0.18
203_G	209_G	0.581	0.18
79_T	236_K	0.581	0.18
194_T	218_E	0.580	0.18
173_L	182_T	0.578	0.17
128_E	184_E	0.578	0.17
21_Q	97_S	0.578	0.17
222_D	229_A	0.575	0.17
18_G	23_V	0.573	0.17
20_F	33_G	0.572	0.17
10_N	60_S	0.572	0.17
76_M	97_S	0.569	0.17
23_V	37_C	0.569	0.17
79_T	140_D	0.568	0.17
15_S	213_Q	0.568	0.17
26_N	45_N	0.566	0.17
192_E	210_P	0.563	0.17
35_V	221_G	0.562	0.17
132_K	145_K	0.562	0.17
120_C	198_A	0.561	0.17
78_G	129_G	0.560	0.17
123_E	191_I	0.559	0.17
177_P	180_V	0.559	0.17
50_G	187_E	0.556	0.17
91_L	175_L	0.554	0.17
137_L	188_G	0.553	0.17
28_S	60_S	0.553	0.17
30_T	98_T	0.550	0.17
26_N	31_V	0.548	0.16
94_A	111_S	0.548	0.16
55_K	165_C	0.547	0.16
165_C	195_N	0.545	0.16
213_Q	224_T	0.545	0.16
35_V	57_V	0.544	0.16
163_V	193_L	0.540	0.16
155_E	184_E	0.534	0.16
17_G	67_G	0.534	0.16
110_I	125_F	0.533	0.16
124_T	141_Q	0.533	0.16
22_S	28_S	0.530	0.16
52_V	185_L	0.529	0.16
73_S	205_K	0.528	0.16
183_A	198_A	0.527	0.16
203_G	208_I	0.527	0.16
138_N	161_L	0.527	0.16
197_K	208_I	0.525	0.16
31_V	220_S	0.523	0.16
53_K	70_E	0.523	0.16
191_I	203_G	0.523	0.16
45_N	111_S	0.522	0.16
114_A	173_L	0.520	0.16
6_K	121_E	0.520	0.16
65_I	72_E	0.520	0.16
68_D	84_G	0.519	0.16
130_K	217_V	0.518	0.16
135_G	204_N	0.518	0.16
105_A	156_I	0.516	0.15
88_A	92_K	0.514	0.15
183_A	193_L	0.514	0.15
85_E	116_M	0.513	0.15
108_I	117_E	0.512	0.15
10_N	14_S	0.512	0.15
216_T	233_T	0.512	0.15
24_E	114_A	0.511	0.15
195_N	211_D	0.510	0.15
16_K	74_I	0.510	0.15
123_E	202_R	0.509	0.15
34_D	37_C	0.509	0.15
181_L	196_T	0.505	0.15
123_E	218_E	0.504	0.15
43_N	205_K	0.503	0.15
85_E	118_A	0.501	0.15
153_A	222_D	0.501	0.15
138_N	218_E	0.501	0.15
181_L	209_G	0.500	0.15
120_C	161_L	0.500	0.15

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
3lycA	2	0.6835	94.4	0.908	Contact Map
3jx8A	4	0.6498	94.1	0.909	Contact Map
4opwA	1	0.6667	92.7	0.914	Contact Map
3petA	2	0.5654	90.8	0.918	Contact Map
4yguA	3	0.443	87.3	0.923	Contact Map
2pigA	1	0.8945	54.7	0.941	Contact Map
1xatA	3	0.2996	41.4	0.946	Contact Map
4eqyA	3	0.2954	37.5	0.947	Contact Map
4mfgA	3	0.4135	26.5	0.951	Contact Map
3tv0A	3	0.4008	25	0.951	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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