HSCB - ECOLI - GREMLIN Contacts

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HSCB - Co-chaperone protein HscB

UniProt:	P0A6L9	Sequences: MDYFTLFGLPARYQLDTQALSLRFQDLQRQYHPDKFASGSQAEQLAAVQQSATINQAWQTLRHPLMRAEYLLSLHGFDLASEQHTVRDTAFLMEQLELREELDEIEQAKDEARLESFIKRVKKMFDTRHQLMVEQLDNETWDAAADTVRKLRFLDKLRSSAEQLEEKLLDF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12131
Length:	171 (161)
Sequences:	1089 (758)
Seq/√Len:	59.7

ECOLI - HSCB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
2_D	11_A	3.684	1.00
14_Q	133_V	3.667	1.00
135_Q	147_T	3.543	1.00
140_T	143_A	3.523	1.00
2_D	5_T	3.143	1.00
40_S	43_E	3.139	1.00
99_R	160_S	2.957	1.00
101_E	120_R	2.791	1.00
114_L	161_A	2.779	1.00
31_Y	54_I	2.674	1.00
63_H	155_D	2.402	1.00
26_D	29_R	2.381	1.00
3_Y	53_T	2.312	1.00
68_A	148_V	2.289	1.00
3_Y	70_Y	2.228	1.00
63_H	66_M	2.184	1.00
60_T	70_Y	2.143	1.00
94_E	124_M	2.141	1.00
39_G	43_E	2.134	1.00
25_Q	29_R	2.061	1.00
27_L	54_I	2.026	1.00
28_Q	151_L	1.949	1.00
134_E	138_N	1.943	1.00
132_M	136_L	1.884	1.00
95_Q	153_F	1.850	1.00
105_I	117_F	1.808	1.00
59_Q	66_M	1.744	0.99
75_H	139_E	1.701	0.99
71_L	136_L	1.678	0.99
48_V	52_A	1.656	0.99
8_G	23_R	1.654	0.99
19_A	23_R	1.649	0.99
93_M	100_E	1.572	0.99
75_H	141_W	1.560	0.99
50_Q	53_T	1.559	0.99
11_A	74_L	1.514	0.98
53_T	56_Q	1.393	0.97
41_Q	44_Q	1.390	0.97
23_R	27_L	1.386	0.97
95_Q	98_L	1.380	0.97
98_L	124_M	1.377	0.97
149_R	153_F	1.375	0.97
68_A	151_L	1.353	0.96
69_E	152_R	1.353	0.96
51_S	58_W	1.318	0.96
153_F	156_K	1.316	0.96
16_D	19_A	1.313	0.96
99_R	156_K	1.299	0.95
73_S	78_D	1.292	0.95
133_V	137_D	1.266	0.95
126_D	130_Q	1.266	0.95
122_K	158_R	1.245	0.94
118_I	161_A	1.233	0.94
156_K	160_S	1.226	0.94
136_L	141_W	1.223	0.94
158_R	162_E	1.223	0.94
121_V	157_L	1.191	0.93
132_M	151_L	1.147	0.91
69_E	81_S	1.143	0.91
131_L	147_T	1.140	0.91
11_A	75_H	1.130	0.91
88_D	150_K	1.121	0.90
102_L	157_L	1.119	0.90
125_F	158_R	1.117	0.90
2_D	74_L	1.113	0.90
24_F	60_T	1.087	0.89
31_Y	50_Q	1.083	0.89
104_E	107_Q	1.070	0.88
25_Q	152_R	1.053	0.87
72_L	152_R	1.046	0.87
101_E	113_R	1.040	0.87
36_F	43_E	1.026	0.86
11_A	71_L	1.015	0.85
23_R	26_D	1.004	0.85
7_F	20_L	0.990	0.84
101_E	104_E	0.985	0.83
27_L	47_A	0.982	0.83
68_A	144_A	0.979	0.83
121_V	124_M	0.978	0.83
98_L	153_F	0.978	0.83
131_L	134_E	0.969	0.82
57_A	67_R	0.969	0.82
135_Q	143_A	0.968	0.82
12_R	137_D	0.965	0.82
125_F	151_L	0.940	0.80
36_F	47_A	0.940	0.80
159_S	163_Q	0.935	0.80
31_Y	47_A	0.934	0.80
42_A	46_A	0.932	0.80
135_Q	140_T	0.921	0.79
72_L	157_L	0.919	0.79
69_E	151_L	0.917	0.79
89_T	93_M	0.912	0.78
14_Q	17_T	0.903	0.78
125_F	154_L	0.900	0.77
131_L	135_Q	0.886	0.76
50_Q	56_Q	0.872	0.75
94_E	120_R	0.859	0.74
68_A	99_R	0.844	0.73
90_A	119_K	0.825	0.71
53_T	73_S	0.824	0.71
6_L	52_A	0.823	0.71
128_R	147_T	0.819	0.70
84_H	87_R	0.812	0.70
102_L	114_L	0.811	0.70
122_K	126_D	0.806	0.69
69_E	79_L	0.805	0.69
24_F	28_Q	0.805	0.69
150_K	165_E	0.801	0.69
124_M	154_L	0.797	0.68
7_F	23_R	0.796	0.68
93_M	96_L	0.796	0.68
107_Q	112_A	0.795	0.68
68_A	136_L	0.790	0.68
116_S	120_R	0.781	0.67
105_I	114_L	0.781	0.67
72_L	150_K	0.775	0.66
31_Y	157_L	0.764	0.65
57_A	70_Y	0.758	0.64
117_F	161_A	0.757	0.64
33_P	55_N	0.755	0.64
111_E	115_E	0.754	0.64
85_T	149_R	0.749	0.64
39_G	44_Q	0.743	0.63
4_F	11_A	0.734	0.62
118_I	158_R	0.729	0.61
146_D	158_R	0.726	0.61
14_Q	116_S	0.724	0.61
162_E	165_E	0.716	0.60
79_L	114_L	0.712	0.60
84_H	145_A	0.710	0.59
42_A	45_L	0.709	0.59
121_V	161_A	0.705	0.59
127_T	131_L	0.703	0.59
24_F	54_I	0.702	0.59
29_R	102_L	0.699	0.58
91_F	99_R	0.692	0.57
70_Y	73_S	0.692	0.57
95_Q	99_R	0.690	0.57
16_D	143_A	0.689	0.57
90_A	165_E	0.688	0.57
51_S	113_R	0.687	0.57
4_F	10_P	0.680	0.56
4_F	12_R	0.678	0.56
13_Y	67_R	0.678	0.56
49_Q	95_Q	0.677	0.56
103_D	163_Q	0.676	0.56
51_S	54_I	0.675	0.56
123_K	126_D	0.672	0.55
77_F	132_M	0.663	0.54
106_E	127_T	0.659	0.54
58_W	70_Y	0.657	0.54
13_Y	71_L	0.657	0.54
15_L	113_R	0.657	0.54
111_E	165_E	0.656	0.53
50_Q	161_A	0.653	0.53
31_Y	46_A	0.652	0.53
102_L	165_E	0.646	0.52
41_Q	124_M	0.645	0.52
58_W	65_L	0.644	0.52
123_K	131_L	0.643	0.52
25_Q	48_V	0.639	0.52
44_Q	51_S	0.638	0.51
88_D	165_E	0.635	0.51
121_V	158_R	0.632	0.51
112_A	116_S	0.631	0.51
90_A	126_D	0.627	0.50
12_R	24_F	0.622	0.50
135_Q	144_A	0.620	0.49
77_F	80_A	0.619	0.49
32_H	55_N	0.618	0.49
94_E	150_K	0.618	0.49
91_F	95_Q	0.618	0.49
118_I	122_K	0.617	0.49
160_S	163_Q	0.616	0.49
119_K	131_L	0.616	0.49
113_R	125_F	0.616	0.49
145_A	149_R	0.615	0.49
24_F	72_L	0.615	0.49
107_Q	113_R	0.602	0.47
117_F	164_L	0.598	0.47
13_Y	136_L	0.592	0.46
15_L	20_L	0.591	0.46
28_Q	51_S	0.591	0.46
145_A	152_R	0.590	0.46
116_S	138_N	0.589	0.46
28_Q	49_Q	0.588	0.46
53_T	148_V	0.588	0.46
15_L	115_E	0.586	0.46
54_I	158_R	0.586	0.46
131_L	150_K	0.584	0.45
154_L	160_S	0.581	0.45
142_D	146_D	0.580	0.45
115_E	119_K	0.580	0.45
150_K	162_E	0.577	0.45
65_L	132_M	0.577	0.45
104_E	140_T	0.574	0.44
14_Q	130_Q	0.572	0.44
18_Q	138_N	0.570	0.44
69_E	80_A	0.568	0.44
95_Q	121_V	0.567	0.44
45_L	49_Q	0.564	0.43
98_L	120_R	0.563	0.43
65_L	69_E	0.560	0.43
129_H	151_L	0.559	0.43
19_A	26_D	0.559	0.43
97_E	138_N	0.559	0.43
72_L	136_L	0.558	0.43
28_Q	32_H	0.554	0.42
148_V	151_L	0.553	0.42
19_A	22_L	0.552	0.42
131_L	139_E	0.551	0.42
98_L	117_F	0.547	0.41
71_L	74_L	0.545	0.41
127_T	138_N	0.545	0.41
94_E	98_L	0.544	0.41
103_D	149_R	0.543	0.41
47_A	99_R	0.537	0.40
69_E	78_D	0.535	0.40
35_K	153_F	0.533	0.40
130_Q	138_N	0.532	0.40
4_F	156_K	0.532	0.40
28_Q	33_P	0.529	0.39
15_L	63_H	0.526	0.39
127_T	130_Q	0.524	0.39
7_F	151_L	0.522	0.39
116_S	139_E	0.522	0.39
128_R	153_F	0.521	0.39
45_L	48_V	0.521	0.39
21_S	165_E	0.517	0.38
28_Q	54_I	0.517	0.38
6_L	54_I	0.513	0.38
96_L	152_R	0.511	0.38
137_D	140_T	0.511	0.38
77_F	145_A	0.510	0.37
93_M	111_E	0.510	0.37
121_V	135_Q	0.503	0.37
160_S	164_L	0.503	0.37
2_D	21_S	0.502	0.37
27_L	31_Y	0.501	0.36
21_S	60_T	0.501	0.36
133_V	138_N	0.500	0.36

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
1fpoA	3	1	100	0.232	Contact Map
4it5A	4	0.9883	100	0.234	Contact Map
3bvoA	1	0.9649	100	0.258	Contact Map
3uo3A	1	0.9357	100	0.323	Contact Map
2l6lA	1	0.8187	99.8	0.621	Contact Map
1wjzA	1	0.4561	99.4	0.712	Contact Map
1n4cA	1	0.386	99.3	0.725	Contact Map
1fafA	1	0.4035	99.3	0.728	Contact Map
2cugA	1	0.4211	99.3	0.734	Contact Map
2yuaA	1	0.4854	99.2	0.737	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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