RSSB - ECOLI - GREMLIN Contacts

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RSSB - Regulator of RpoS

UniProt:	P0AEV1	Sequences: MTQPLVGKQILIVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPDLMICDIAMPRMNGLKLLEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLYPSMFNSRVEEEERLFRDWDAMVDNPAAAAKLLQELQPPVQQVISHCRVNYRQLVAADKPGLVLDIAALSENDLAFYCLDVTRAGHNGVLAALLLRALFNGLLQEQLAHQNQRLPELGALLKQVNHLLRQANLPGQFPLLVGYYHRELKNLILVSAGLNATLNTGEHQVQISNGVPLGTLGNAYLNQLSQRCDAWQCQIWGTGGRLRLMLSAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12121
Length:	337 (272)
Sequences:	3111 (2413)
Seq/√Len:	146.3

ECOLI - RSSB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
20_R	36_L	4.494	1.00
57_C	69_L	3.839	1.00
39_D	63_R	3.355	1.00
41_V	63_R	3.329	1.00
35_V	52_P	3.271	1.00
13_V	43_A	3.259	1.00
40_G	64_M	3.027	1.00
9_Q	33_T	3.010	1.00
65_N	68_K	2.853	1.00
37_A	46_L	2.834	1.00
133_V	136_E	2.775	1.00
38_A	42_D	2.698	1.00
70_L	82_V	2.442	1.00
48_G	76_R	2.419	1.00
20_R	38_A	2.418	1.00
14_E	61_M	2.358	1.00
57_C	82_V	2.277	1.00
74_R	103_E	2.274	1.00
227_L	230_Q	2.241	1.00
9_Q	35_V	2.203	1.00
59_I	84_V	2.162	1.00
54_L	124_L	2.144	1.00
60_A	88_T	2.064	1.00
16_E	19_F	2.054	1.00
35_V	46_L	2.026	1.00
39_D	42_D	1.930	1.00
127_S	131_S	1.876	1.00
84_V	102_V	1.865	1.00
15_D	58_D	1.843	1.00
149_N	153_A	1.843	1.00
15_D	61_M	1.833	1.00
249_N	253_R	1.814	1.00
47_L	52_P	1.783	1.00
137_E	140_F	1.758	1.00
24_D	36_L	1.739	1.00
14_E	20_R	1.735	1.00
44_L	69_L	1.720	1.00
55_M	80_T	1.714	1.00
40_G	69_L	1.699	1.00
59_I	97_A	1.693	1.00
43_A	69_L	1.690	1.00
68_K	72_H	1.649	1.00
104_D	119_M	1.644	1.00
11_L	37_A	1.636	1.00
94_I	115_R	1.626	1.00
43_A	47_L	1.597	1.00
70_L	84_V	1.589	1.00
240_E	243_A	1.586	1.00
137_E	141_R	1.570	1.00
147_V	150_P	1.552	1.00
150_P	153_A	1.537	1.00
245_L	278_V	1.535	1.00
37_A	43_A	1.534	1.00
160_L	163_P	1.517	1.00
30_L	117_R	1.517	1.00
204_D	208_A	1.516	1.00
143_W	147_V	1.516	1.00
35_V	50_F	1.513	1.00
41_V	45_E	1.492	1.00
37_A	40_G	1.473	1.00
26_W	113_L	1.467	1.00
247_Q	250_H	1.458	1.00
84_V	97_A	1.446	1.00
74_R	82_V	1.425	1.00
226_L	230_Q	1.418	1.00
53_D	81_P	1.417	1.00
45_E	49_G	1.410	1.00
64_M	68_K	1.402	1.00
55_M	73_I	1.397	1.00
40_G	61_M	1.393	1.00
47_L	73_I	1.380	1.00
39_D	61_M	1.366	1.00
57_C	70_L	1.363	1.00
91_M	95_A	1.363	1.00
90_N	93_D	1.357	1.00
103_E	123_C	1.355	1.00
255_A	258_P	1.354	1.00
9_Q	52_P	1.352	1.00
166_Q	170_H	1.333	1.00
226_L	229_E	1.332	1.00
279_S	283_N	1.327	1.00
163_P	166_Q	1.327	1.00
194_S	197_D	1.324	1.00
153_A	160_L	1.314	1.00
61_M	64_M	1.271	1.00
85_I	110_V	1.264	1.00
57_C	84_V	1.264	1.00
103_E	122_A	1.263	1.00
9_Q	50_F	1.257	1.00
53_D	127_S	1.257	1.00
144_D	148_D	1.253	1.00
98_L	119_M	1.253	1.00
42_D	45_E	1.238	1.00
158_Q	162_P	1.202	1.00
98_L	102_V	1.199	1.00
44_L	64_M	1.194	1.00
136_E	140_F	1.186	1.00
19_F	87_A	1.181	1.00
70_L	102_V	1.180	1.00
72_H	75_N	1.174	1.00
8_K	124_L	1.172	1.00
59_I	67_L	1.158	1.00
97_A	102_V	1.158	1.00
46_L	52_P	1.151	1.00
259_G	262_P	1.145	1.00
71_E	100_L	1.141	0.99
204_D	207_R	1.138	0.99
243_A	246_K	1.137	0.99
119_M	123_C	1.134	0.99
153_A	162_P	1.123	0.99
176_R	179_V	1.121	0.99
154_A	158_Q	1.116	0.99
200_F	266_G	1.111	0.99
244_L	247_Q	1.106	0.99
14_E	19_F	1.105	0.99
24_D	28_S	1.102	0.99
58_D	108_K	1.099	0.99
154_A	157_L	1.098	0.99
279_S	285_T	1.095	0.99
158_Q	161_Q	1.093	0.99
134_E	137_E	1.092	0.99
19_F	22_L	1.087	0.99
140_F	143_W	1.082	0.99
225_G	230_Q	1.081	0.99
88_T	93_D	1.079	0.99
150_P	154_A	1.074	0.99
58_D	61_M	1.070	0.99
157_L	161_Q	1.065	0.99
14_E	108_K	1.065	0.99
54_L	120_V	1.060	0.99
154_A	160_L	1.052	0.99
140_F	144_D	1.049	0.99
155_K	159_E	1.046	0.99
159_E	163_P	1.045	0.99
15_D	87_A	1.044	0.99
269_H	272_L	1.032	0.99
208_A	212_G	1.029	0.99
68_K	71_E	1.027	0.99
44_L	72_H	1.004	0.99
212_G	215_A	1.000	0.99
64_M	69_L	0.997	0.99
97_A	103_E	0.989	0.99
163_P	171_C	0.986	0.99
279_S	284_A	0.984	0.98
275_L	279_S	0.982	0.98
196_N	271_E	0.980	0.98
161_Q	164_V	0.968	0.98
115_R	119_M	0.964	0.98
12_I	23_L	0.959	0.98
249_N	256_N	0.947	0.98
60_A	87_A	0.940	0.98
23_L	85_I	0.939	0.98
247_Q	251_L	0.929	0.98
70_L	98_L	0.924	0.98
32_A	121_F	0.922	0.98
17_Q	20_R	0.920	0.98
179_V	186_L	0.918	0.98
10_I	32_A	0.917	0.98
143_W	146_M	0.911	0.98
47_L	55_M	0.911	0.98
148_D	152_A	0.910	0.97
58_D	87_A	0.908	0.97
122_A	125_Y	0.908	0.97
89_E	94_I	0.905	0.97
31_G	34_T	0.905	0.97
113_L	117_R	0.902	0.97
251_L	254_Q	0.900	0.97
144_D	147_V	0.898	0.97
146_M	149_N	0.894	0.97
262_P	282_L	0.893	0.97
84_V	104_D	0.892	0.97
139_L	142_D	0.889	0.97
118_E	122_A	0.889	0.97
70_L	119_M	0.882	0.97
12_I	34_T	0.882	0.97
157_L	162_P	0.881	0.97
15_D	86_S	0.873	0.97
175_Y	188_L	0.870	0.97
40_G	44_L	0.869	0.97
122_A	126_P	0.867	0.97
145_A	149_N	0.865	0.97
45_E	48_G	0.862	0.97
110_V	116_L	0.861	0.96
244_L	258_P	0.860	0.96
61_M	66_G	0.847	0.96
146_M	154_A	0.834	0.96
73_I	80_T	0.833	0.96
184_P	207_R	0.833	0.96
158_Q	163_P	0.830	0.96
98_L	115_R	0.829	0.96
83_L	120_V	0.826	0.96
240_E	244_L	0.823	0.95
97_A	122_A	0.821	0.95
197_D	269_H	0.821	0.95
103_E	126_P	0.820	0.95
67_L	93_D	0.816	0.95
73_I	82_V	0.812	0.95
261_F	264_L	0.808	0.95
67_L	96_K	0.808	0.95
9_Q	51_T	0.808	0.95
126_P	130_N	0.806	0.95
86_S	108_K	0.806	0.95
139_L	143_W	0.804	0.95
145_A	148_D	0.804	0.95
70_L	100_L	0.804	0.95
209_G	213_V	0.800	0.95
46_L	50_F	0.795	0.95
135_E	138_R	0.795	0.95
93_D	97_A	0.795	0.95
128_M	131_S	0.794	0.95
119_M	126_P	0.791	0.94
248_V	251_L	0.790	0.94
13_V	39_D	0.789	0.94
127_S	130_N	0.786	0.94
94_I	112_D	0.782	0.94
133_V	137_E	0.781	0.94
83_L	123_C	0.781	0.94
19_F	61_M	0.779	0.94
96_K	100_L	0.776	0.94
157_L	160_L	0.774	0.94
69_L	73_I	0.773	0.94
163_P	170_H	0.764	0.93
208_A	215_A	0.763	0.93
103_E	125_Y	0.762	0.93
147_V	151_A	0.758	0.93
19_F	109_P	0.756	0.93
70_L	73_I	0.756	0.93
95_A	99_R	0.756	0.93
146_M	150_P	0.754	0.93
185_G	209_G	0.753	0.93
70_L	74_R	0.751	0.93
264_L	268_Y	0.749	0.93
147_V	153_A	0.749	0.93
148_D	151_A	0.748	0.93
162_P	165_Q	0.747	0.93
57_C	122_A	0.743	0.92
246_K	250_H	0.742	0.92
13_V	40_G	0.742	0.92
282_L	285_T	0.742	0.92
241_L	244_L	0.740	0.92
237_R	252_L	0.740	0.92
249_N	252_L	0.738	0.92
59_I	70_L	0.729	0.92
58_D	66_G	0.728	0.92
8_K	32_A	0.727	0.91
84_V	103_E	0.722	0.91
153_A	163_P	0.721	0.91
62_P	66_G	0.721	0.91
14_E	22_L	0.720	0.91
136_E	139_L	0.718	0.91
162_P	166_Q	0.715	0.91
276_I	279_S	0.714	0.91
104_D	108_K	0.714	0.91
16_E	87_A	0.713	0.91
55_M	69_L	0.713	0.91
13_V	55_M	0.711	0.91
81_P	124_L	0.710	0.91
244_L	255_A	0.710	0.91
82_V	103_E	0.709	0.90
244_L	250_H	0.708	0.90
40_G	63_R	0.707	0.90
15_D	66_G	0.705	0.90
65_N	71_E	0.702	0.90
40_G	65_N	0.698	0.90
94_I	123_C	0.697	0.90
62_P	102_V	0.693	0.89
245_L	249_N	0.692	0.89
88_T	97_A	0.689	0.89
269_H	274_N	0.689	0.89
66_G	108_K	0.687	0.89
259_G	263_L	0.685	0.89
251_L	255_A	0.685	0.89
84_V	123_C	0.681	0.89
138_R	142_D	0.678	0.88
20_R	84_V	0.677	0.88
158_Q	166_Q	0.677	0.88
42_D	46_L	0.676	0.88
59_I	88_T	0.674	0.88
262_P	266_G	0.669	0.88
71_E	75_N	0.669	0.88
262_P	265_V	0.665	0.87
71_E	96_K	0.665	0.87
210_H	214_L	0.663	0.87
119_M	122_A	0.660	0.87
129_F	133_V	0.660	0.87
19_F	110_V	0.659	0.87
66_G	87_A	0.655	0.87
72_H	76_R	0.649	0.86
206_T	212_G	0.649	0.86
250_H	254_Q	0.648	0.86
69_L	88_T	0.647	0.86
244_L	265_V	0.646	0.86
84_V	94_I	0.646	0.86
251_L	256_N	0.645	0.86
57_C	73_I	0.644	0.86
217_L	220_R	0.642	0.86
10_I	54_L	0.635	0.85
21_S	25_S	0.634	0.85
99_R	121_F	0.628	0.84
261_F	265_V	0.626	0.84
15_D	108_K	0.620	0.84
275_L	278_V	0.619	0.83
46_L	49_G	0.619	0.83
153_A	164_V	0.619	0.83
153_A	158_Q	0.618	0.83
14_E	60_A	0.616	0.83
60_A	119_M	0.616	0.83
57_C	102_V	0.614	0.83
126_P	129_F	0.612	0.83
248_V	252_L	0.611	0.83
87_A	108_K	0.610	0.83
237_R	247_Q	0.609	0.82
153_A	159_E	0.609	0.82
105_V	116_L	0.607	0.82
172_R	176_R	0.607	0.82
13_V	61_M	0.606	0.82
85_I	106_L	0.606	0.82
252_L	256_N	0.605	0.82
28_S	41_V	0.604	0.82
237_R	251_L	0.604	0.82
157_L	183_K	0.603	0.82
244_L	251_L	0.602	0.82
205_V	215_A	0.598	0.81
41_V	64_M	0.597	0.81
206_T	209_G	0.597	0.81
174_N	177_Q	0.597	0.81
62_P	101_G	0.595	0.81
173_V	177_Q	0.595	0.81
165_Q	170_H	0.594	0.81
215_A	219_L	0.590	0.80
250_H	255_A	0.588	0.80
125_Y	128_M	0.587	0.80
174_N	178_L	0.581	0.79
203_L	212_G	0.580	0.79
89_E	93_D	0.578	0.79
254_Q	258_P	0.577	0.79
185_G	207_R	0.577	0.79
59_I	82_V	0.576	0.79
27_F	120_V	0.575	0.79
32_A	117_R	0.574	0.79
194_S	208_A	0.574	0.79
64_M	72_H	0.573	0.78
13_V	37_A	0.573	0.78
217_L	221_A	0.572	0.78
155_K	160_L	0.570	0.78
162_P	171_C	0.566	0.78
92_A	96_K	0.564	0.77
95_A	98_L	0.564	0.77
21_S	24_D	0.563	0.77
166_Q	169_S	0.563	0.77
98_L	126_P	0.563	0.77
172_R	175_Y	0.562	0.77
261_F	266_G	0.562	0.77
115_R	118_E	0.559	0.77
101_G	104_D	0.559	0.77
81_P	104_D	0.558	0.77
40_G	62_P	0.557	0.77
166_Q	171_C	0.556	0.76
13_V	69_L	0.554	0.76
160_L	167_V	0.554	0.76
167_V	171_C	0.553	0.76
47_L	51_T	0.552	0.76
26_W	117_R	0.550	0.76
56_I	120_V	0.549	0.75
183_K	186_L	0.544	0.75
199_A	203_L	0.542	0.75
186_L	204_D	0.542	0.75
152_A	155_K	0.542	0.75
56_I	104_D	0.540	0.74
143_W	149_N	0.540	0.74
103_E	116_L	0.538	0.74
264_L	285_T	0.538	0.74
255_A	260_Q	0.537	0.74
215_A	218_L	0.537	0.74
66_G	86_S	0.537	0.74
56_I	116_L	0.536	0.74
59_I	93_D	0.536	0.74
268_Y	272_L	0.536	0.74
185_G	208_A	0.535	0.74
84_V	122_A	0.525	0.72
86_S	90_N	0.525	0.72
264_L	277_L	0.523	0.72
158_Q	165_Q	0.521	0.72
98_L	122_A	0.520	0.72
96_K	99_R	0.520	0.72
207_R	219_L	0.518	0.71
37_A	42_D	0.518	0.71
207_R	211_N	0.517	0.71
91_M	94_I	0.517	0.71
54_L	81_P	0.515	0.71
94_I	99_R	0.513	0.71
56_I	85_I	0.512	0.70
125_Y	129_F	0.511	0.70
12_I	20_R	0.510	0.70
98_L	104_D	0.509	0.70
203_L	261_F	0.508	0.70
225_G	228_Q	0.508	0.70
27_F	34_T	0.506	0.69
98_L	103_E	0.505	0.69
125_Y	130_N	0.504	0.69
150_P	158_Q	0.504	0.69
99_R	112_D	0.504	0.69
97_A	105_V	0.501	0.69
109_P	115_R	0.501	0.69
70_L	106_L	0.501	0.69
154_A	162_P	0.501	0.69
210_H	215_A	0.500	0.69
120_V	124_L	0.500	0.69

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
3eq2A	2	0.9763	100	0.209	Contact Map
3breA	4	0.9139	100	0.546	Contact Map
1w25A	2	0.8576	100	0.562	Contact Map
3n0rA	1	0.3739	100	0.586	Contact Map
4g97A	1	0.3976	100	0.586	Contact Map
2ayxA	1	0.3917	100	0.602	Contact Map
4l4uA	2	0.9733	100	0.603	Contact Map
3dzdA	2	0.9258	100	0.604	Contact Map
1s8nA	1	0.549	100	0.606	Contact Map
3lufA	2	0.3828	100	0.614	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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