SMF - BACSU - GREMLIN Contacts

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SMF - Protein smf

UniProt:	P39813	Sequences: MDQAAVCLTICRINQLLSPSLLLKWWKADPSMSLTSPVLQTVTRDQIKAAALKNEIEQFYPKLPRVLAAYREQGINTIPISSKQYPFWLKSIYDPPAVLFAKGDMTLLSKGRKIGIVGTRNPTAYGKQVVNHLTKEICRKGWVIVSGLASGIDGMSHAASIKAKGRTIGVIAGGFQHIYPRENLQLADHMAKHHILLSEHPPETKPQKWHFPMRNRIISGLSEGVIVVQGKEKSGSLITAYQALEQGREVFAVPGSLFDPYAGGPIKLIQQGAKAIWSAEDIFEELPERNVQYTEPF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	297 (277)
Sequences:	4265 (3385)
Seq/√Len:	203.4

ECOLI - SMF
BACSU - SMF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
154_G	183_N	4.185	1.00
219_S	246_Q	3.854	1.00
176_Q	203_E	3.413	1.00
150_S	182_E	3.354	1.00
274_K	285_E	2.745	1.00
148_L	187_A	2.727	1.00
113_K	145_V	2.598	1.00
256_S	259_D	2.539	1.00
169_G	190_M	2.449	1.00
167_T	190_M	2.435	1.00
101_A	195_I	2.371	1.00
251_F	285_E	2.230	1.00
129_V	253_V	2.206	1.00
267_K	271_Q	2.199	1.00
115_G	225_V	2.188	1.00
232_E	263_G	2.112	1.00
138_C	165_G	2.096	1.00
129_V	257_L	2.087	1.00
130_V	134_T	2.057	1.00
158_A	189_H	2.056	1.00
119_T	122_P	2.019	1.00
76_N	84_Q	2.010	1.00
101_A	197_L	1.961	1.00
122_P	152_I	1.939	1.00
130_V	228_V	1.892	1.00
116_I	156_S	1.890	1.00
131_N	162_K	1.865	1.00
178_I	187_A	1.857	1.00
181_R	184_L	1.835	1.00
154_G	186_L	1.832	1.00
77_T	98_V	1.828	1.00
116_I	134_T	1.817	1.00
155_M	159_A	1.809	1.00
88_W	223_E	1.796	1.00
232_E	267_K	1.795	1.00
130_V	159_A	1.783	1.00
230_G	234_S	1.782	1.00
212_P	238_I	1.782	1.00
79_P	82_S	1.768	1.00
187_A	196_L	1.766	1.00
76_N	101_A	1.735	1.00
115_G	222_S	1.721	1.00
70_Y	75_I	1.703	1.00
189_H	193_H	1.686	1.00
136_E	279_A	1.681	1.00
100_F	201_P	1.681	1.00
170_V	221_L	1.677	1.00
122_P	127_K	1.635	1.00
270_Q	277_W	1.633	1.00
123_T	229_Q	1.594	1.00
219_S	239_T	1.582	1.00
184_L	188_D	1.581	1.00
200_H	213_M	1.576	1.00
134_T	159_A	1.569	1.00
102_K	191_A	1.532	1.00
92_I	246_Q	1.531	1.00
134_T	138_C	1.500	1.00
127_K	155_M	1.499	1.00
252_A	265_P	1.497	1.00
224_G	251_F	1.494	1.00
225_V	243_A	1.478	1.00
25_W	34_L	1.472	1.00
18_S	97_A	1.451	1.00
123_T	261_Y	1.451	1.00
114_I	226_I	1.411	1.00
64_P	68_A	1.399	1.00
107_L	195_I	1.375	1.00
104_D	166_R	1.374	1.00
159_A	163_A	1.357	1.00
263_G	277_W	1.349	1.00
75_I	102_K	1.343	1.00
69_A	73_Q	1.343	1.00
189_H	192_K	1.336	1.00
222_S	225_V	1.332	1.00
175_F	198_S	1.330	1.00
157_H	167_T	1.316	1.00
170_V	217_I	1.314	1.00
185_Q	189_H	1.312	1.00
199_E	216_R	1.297	1.00
226_I	276_I	1.284	1.00
243_A	250_V	1.283	1.00
185_Q	188_D	1.283	1.00
255_G	262_A	1.279	1.00
190_M	194_H	1.278	1.00
270_Q	281_D	1.275	1.00
101_A	105_M	1.273	1.00
171_I	196_L	1.272	1.00
13_I	17_L	1.266	1.00
207_Q	210_H	1.262	1.00
143_V	166_R	1.259	1.00
81_S	90_K	1.253	1.00
29_D	33_S	1.242	1.00
200_H	210_H	1.242	1.00
226_I	253_V	1.239	1.00
220_G	246_Q	1.234	1.00
252_A	269_I	1.225	1.00
267_K	270_Q	1.225	1.00
135_K	162_K	1.223	1.00
78_I	101_A	1.219	1.00
168_I	195_I	1.215	1.00
114_I	144_I	1.207	1.00
269_I	275_A	1.203	1.00
104_D	108_L	1.202	1.00
162_K	189_H	1.199	1.00
117_V	240_A	1.199	1.00
14_N	17_L	1.198	1.00
138_C	163_A	1.197	1.00
19_P	23_L	1.197	1.00
87_F	90_K	1.196	1.00
266_I	277_W	1.192	1.00
131_N	158_A	1.188	1.00
173_G	178_I	1.182	1.00
144_I	156_S	1.168	1.00
110_K	143_V	1.166	1.00
114_I	137_I	1.166	1.00
249_E	286_L	1.166	1.00
68_A	71_R	1.162	1.00
148_L	196_L	1.162	1.00
148_L	169_G	1.160	1.00
65_R	68_A	1.148	1.00
276_I	282_I	1.144	1.00
226_I	282_I	1.142	1.00
133_L	226_I	1.139	1.00
143_V	168_I	1.137	1.00
224_G	276_I	1.135	1.00
228_V	253_V	1.127	1.00
115_G	218_I	1.108	1.00
35_T	38_V	1.103	1.00
238_I	242_Q	1.091	1.00
172_A	210_H	1.083	1.00
152_I	228_V	1.077	1.00
125_Y	257_L	1.076	1.00
113_K	143_V	1.076	1.00
154_G	158_A	1.071	1.00
27_K	30_P	1.068	1.00
92_I	220_G	1.065	1.00
142_W	283_F	1.054	1.00
69_A	75_I	1.047	1.00
274_K	284_E	1.046	1.00
280_E	284_E	1.041	1.00
70_Y	77_T	1.034	1.00
125_Y	129_V	1.033	1.00
240_A	268_L	1.032	1.00
80_I	95_P	1.030	1.00
68_A	72_E	1.029	1.00
67_L	71_R	1.019	1.00
91_S	248_R	1.014	1.00
51_A	54_N	1.011	1.00
75_I	202_P	1.007	1.00
174_G	206_P	1.007	1.00
241_Y	245_E	1.006	1.00
175_F	196_L	1.005	1.00
144_I	160_S	1.001	1.00
78_I	84_Q	1.001	1.00
277_W	281_D	1.001	1.00
259_D	262_A	0.999	1.00
129_V	258_F	0.999	1.00
116_I	226_I	0.995	1.00
89_L	217_I	0.992	1.00
84_Q	105_M	0.991	1.00
122_P	155_M	0.991	1.00
188_D	192_K	0.991	1.00
171_I	175_F	0.991	1.00
94_D	242_Q	0.987	1.00
87_F	91_S	0.987	1.00
133_L	279_A	0.982	1.00
237_L	240_A	0.975	1.00
148_L	190_M	0.968	1.00
177_H	205_K	0.966	0.99
266_I	275_A	0.957	0.99
262_A	265_P	0.953	0.99
135_K	139_R	0.950	0.99
30_P	33_S	0.950	0.99
88_W	91_S	0.938	0.99
251_F	282_I	0.936	0.99
60_Y	63_L	0.934	0.99
92_I	95_P	0.931	0.99
173_G	200_H	0.930	0.99
204_T	210_H	0.929	0.99
172_A	212_P	0.925	0.99
9_T	66_V	0.924	0.99
148_L	171_I	0.917	0.99
137_I	282_I	0.915	0.99
77_T	100_F	0.915	0.99
131_N	155_M	0.914	0.99
62_K	65_R	0.911	0.99
230_G	237_L	0.910	0.99
66_V	202_P	0.900	0.99
75_I	175_F	0.899	0.99
35_T	39_L	0.898	0.99
124_A	128_Q	0.879	0.99
11_C	14_N	0.873	0.99
127_K	131_N	0.871	0.99
173_G	177_H	0.864	0.99
132_H	136_E	0.864	0.99
140_K	283_F	0.857	0.99
119_T	236_S	0.857	0.99
92_I	219_S	0.849	0.99
135_K	163_A	0.848	0.99
88_W	113_K	0.846	0.99
251_F	276_I	0.845	0.99
80_I	90_K	0.845	0.99
138_C	159_A	0.843	0.99
128_Q	258_F	0.842	0.99
94_D	246_Q	0.840	0.99
145_V	222_S	0.834	0.99
22_L	28_A	0.833	0.99
133_L	253_V	0.831	0.98
266_I	269_I	0.830	0.98
124_A	127_K	0.827	0.98
240_A	250_V	0.819	0.98
69_A	72_E	0.819	0.98
88_W	248_R	0.818	0.98
133_L	276_I	0.816	0.98
76_N	105_M	0.816	0.98
134_T	144_I	0.813	0.98
79_P	98_V	0.810	0.98
87_F	109_S	0.806	0.98
110_K	166_R	0.804	0.98
128_Q	132_H	0.804	0.98
131_N	159_A	0.803	0.98
231_K	236_S	0.803	0.98
70_Y	100_F	0.802	0.98
210_H	213_M	0.794	0.98
8_L	100_F	0.793	0.98
249_E	274_K	0.789	0.98
278_S	281_D	0.787	0.98
127_K	158_A	0.784	0.98
161_I	194_H	0.784	0.98
121_N	231_K	0.783	0.98
119_T	231_K	0.783	0.98
270_Q	274_K	0.781	0.98
66_V	70_Y	0.781	0.98
106_T	109_S	0.779	0.98
158_A	162_K	0.778	0.98
17_L	20_S	0.771	0.98
59_F	62_K	0.769	0.97
136_E	139_R	0.768	0.97
128_Q	131_N	0.767	0.97
244_L	247_G	0.766	0.97
230_G	265_P	0.757	0.97
201_P	204_T	0.753	0.97
112_R	223_E	0.751	0.97
117_V	236_S	0.749	0.97
66_V	69_A	0.747	0.97
26_W	30_P	0.747	0.97
106_T	195_I	0.746	0.97
267_K	277_W	0.743	0.97
113_K	222_S	0.742	0.97
260_P	263_G	0.738	0.97
179_Y	211_F	0.737	0.97
77_T	101_A	0.734	0.97
218_I	239_T	0.733	0.97
146_S	157_H	0.731	0.97
171_I	187_A	0.730	0.97
140_K	280_E	0.729	0.97
65_R	69_A	0.729	0.97
139_R	163_A	0.728	0.97
70_Y	202_P	0.726	0.96
175_F	187_A	0.726	0.96
78_I	82_S	0.722	0.96
145_V	218_I	0.719	0.96
173_G	206_P	0.716	0.96
125_Y	262_A	0.716	0.96
126_G	152_I	0.714	0.96
236_S	240_A	0.704	0.96
21_L	31_S	0.703	0.96
164_K	193_H	0.700	0.96
13_I	18_S	0.699	0.96
119_T	261_Y	0.699	0.96
138_C	160_S	0.698	0.96
102_K	188_D	0.697	0.96
177_H	203_E	0.697	0.96
125_Y	258_F	0.696	0.96
39_L	43_T	0.695	0.95
25_W	42_V	0.692	0.95
179_Y	206_P	0.690	0.95
126_G	130_V	0.688	0.95
130_V	155_M	0.683	0.95
114_I	224_G	0.681	0.95
168_I	197_L	0.679	0.95
80_I	85_Y	0.678	0.95
104_D	107_L	0.676	0.95
224_G	249_E	0.676	0.95
251_F	274_K	0.676	0.95
105_M	108_L	0.675	0.95
242_Q	245_E	0.673	0.95
215_N	235_G	0.673	0.95
177_H	187_A	0.669	0.94
19_P	80_I	0.667	0.94
241_Y	271_Q	0.660	0.94
31_S	39_L	0.658	0.94
253_V	257_L	0.656	0.94
125_Y	256_S	0.654	0.94
112_R	142_W	0.654	0.94
59_F	63_L	0.653	0.94
42_V	45_D	0.652	0.94
10_I	55_E	0.650	0.94
107_L	166_R	0.649	0.94
89_L	92_I	0.647	0.93
15_Q	97_A	0.645	0.93
121_N	150_S	0.642	0.93
176_Q	204_T	0.642	0.93
14_N	209_W	0.641	0.93
121_N	261_Y	0.639	0.93
227_V	240_A	0.639	0.93
258_F	263_G	0.635	0.93
180_P	183_N	0.633	0.93
252_A	273_A	0.627	0.92
34_L	38_V	0.625	0.92
39_L	42_V	0.623	0.92
89_L	220_G	0.622	0.92
153_D	215_N	0.620	0.92
30_P	34_L	0.618	0.92
16_L	20_S	0.618	0.92
155_M	158_A	0.618	0.92
39_L	44_R	0.617	0.92
265_P	269_I	0.616	0.92
215_N	218_I	0.615	0.92
149_A	235_G	0.613	0.91
27_K	31_S	0.613	0.91
85_Y	100_F	0.610	0.91
19_P	95_P	0.609	0.91
191_A	196_L	0.608	0.91
160_S	165_G	0.608	0.91
126_G	228_V	0.606	0.91
229_Q	262_A	0.606	0.91
61_P	64_P	0.605	0.91
102_K	175_F	0.602	0.91
254_P	266_I	0.601	0.91
130_V	152_I	0.601	0.91
84_Q	106_T	0.600	0.91
8_L	18_S	0.600	0.91
281_D	284_E	0.597	0.90
122_P	261_Y	0.597	0.90
146_S	153_D	0.596	0.90
145_V	168_I	0.595	0.90
149_A	153_D	0.595	0.90
58_Q	63_L	0.594	0.90
26_W	31_S	0.594	0.90
211_F	215_N	0.589	0.90
206_P	210_H	0.586	0.90
200_H	217_I	0.585	0.89
15_Q	213_M	0.585	0.89
16_L	19_P	0.583	0.89
126_G	229_Q	0.581	0.89
117_V	146_S	0.580	0.89
36_S	40_Q	0.580	0.89
18_S	32_M	0.580	0.89
175_F	202_P	0.578	0.89
237_L	268_L	0.576	0.89
252_A	255_G	0.575	0.89
78_I	108_L	0.574	0.89
252_A	266_I	0.573	0.88
25_W	31_S	0.570	0.88
134_T	165_G	0.568	0.88
85_Y	217_I	0.567	0.88
85_Y	98_V	0.566	0.88
130_V	138_C	0.565	0.88
270_Q	275_A	0.564	0.88
211_F	234_S	0.562	0.88
55_E	59_F	0.562	0.88
85_Y	90_K	0.562	0.88
91_S	247_G	0.557	0.87
28_A	32_M	0.556	0.87
27_K	34_L	0.556	0.87
28_A	31_S	0.553	0.87
125_Y	259_D	0.551	0.86
149_A	215_N	0.551	0.86
134_T	141_G	0.547	0.86
112_R	141_G	0.545	0.86
131_N	135_K	0.545	0.86
187_A	191_A	0.544	0.86
107_L	143_V	0.543	0.86
212_P	230_G	0.543	0.86
224_G	274_K	0.543	0.86
146_S	167_T	0.542	0.86
178_I	196_L	0.539	0.85
157_H	169_G	0.539	0.85
274_K	281_D	0.538	0.85
49_A	54_N	0.538	0.85
61_P	68_A	0.537	0.85
123_T	259_D	0.536	0.85
171_I	198_S	0.536	0.85
224_G	282_I	0.535	0.85
14_N	18_S	0.534	0.85
117_V	215_N	0.534	0.85
262_A	266_I	0.533	0.85
134_T	163_A	0.532	0.85
225_V	228_V	0.532	0.85
255_G	266_I	0.530	0.84
172_A	200_H	0.527	0.84
41_T	44_R	0.527	0.84
123_T	126_G	0.526	0.84
186_L	190_M	0.523	0.84
40_Q	43_T	0.520	0.83
173_G	187_A	0.519	0.83
249_E	285_E	0.517	0.83
219_S	225_V	0.517	0.83
25_W	30_P	0.516	0.83
178_I	184_L	0.516	0.83
244_L	249_E	0.515	0.83
199_E	217_I	0.515	0.83
136_E	282_I	0.515	0.83
108_L	168_I	0.514	0.83
223_E	286_L	0.513	0.82
229_Q	259_D	0.513	0.82
183_N	186_L	0.511	0.82
50_A	54_N	0.510	0.82
108_L	195_I	0.506	0.82
225_V	250_V	0.505	0.81
257_L	266_I	0.504	0.81
213_M	242_Q	0.504	0.81
120_R	149_A	0.503	0.81
136_E	280_E	0.502	0.81
177_H	181_R	0.500	0.81

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
3majA	2	0.9461	100	0.137	Contact Map
3uqzA	2	0.9428	100	0.19	Contact Map
4ljrA	2	0.7138	100	0.3	Contact Map
3quaA	2	0.5354	100	0.579	Contact Map
1rcuA	3	0.5219	100	0.64	Contact Map
2iz6A	4	0.5118	100	0.645	Contact Map
1wekA	5	0.6599	100	0.657	Contact Map
1wehA	1	0.5118	100	0.659	Contact Map
3sbxA	2	0.5354	100	0.674	Contact Map
1t35A	5	0.5488	100	0.681	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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