GLCT - BACSU - GREMLIN Contacts

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GLCT - PtsGHI operon antiterminator

UniProt:	O31691	Sequences: MNGSFTVKKVLNNNVLIASHHKYSEVVLIGKGIGFGKKQDDVIEDKGYDKMFILKDEKEQKQFKKLLDYVDEKLVDISNDVIYHISNRTNHSLNEHIHIALTDHIAFAIKRQQQGFDMKNPFLMETQSLYPEEYQIAKEVIDMINEKAGLCLPEGEIGFIALHIHSALTNRPLSEVNQHSQLMAQLVEVIEDSFQMKVNKESVNYLRLIRHIRFTIERIKKEEPTKEPEKLMLLLKNEYPLCYNTAWKLIKILQQTLKKPVHEAEAVYLTLHLYRLTNKIS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	281 (266)
Sequences:	3607 (3125)
Seq/√Len:	191.6

ECOLI - BGLG FRVR CSIE
BACSU - GLCT LICT SACY SACT MANR MTLR LICR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
145_N	151_C	4.790	1.00
88_R	139_E	4.384	1.00
232_M	267_V	3.125	1.00
191_E	197_K	3.035	1.00
254_Q	260_P	3.032	1.00
236_K	243_Y	2.923	1.00
193_S	248_K	2.896	1.00
110_K	114_Q	2.883	1.00
80_D	147_K	2.824	1.00
236_K	263_E	2.756	1.00
242_C	274_Y	2.718	1.00
11_L	17_I	2.712	1.00
185_Q	256_T	2.576	1.00
246_A	270_T	2.490	1.00
18_A	26_V	2.336	1.00
190_I	208_L	2.306	1.00
81_V	140_V	2.303	1.00
47_G	51_M	2.251	1.00
138_K	157_I	2.250	1.00
227_E	230_K	2.242	1.00
45_D	51_M	2.214	1.00
218_R	265_E	2.087	1.00
104_H	163_H	2.076	1.00
222_E	259_K	2.067	1.00
189_V	252_I	2.039	1.00
31_K	35_F	2.006	1.00
246_A	266_A	1.993	1.00
84_H	143_M	1.960	1.00
190_I	273_L	1.942	1.00
242_C	246_A	1.873	1.00
32_G	35_F	1.843	1.00
11_L	15_V	1.806	1.00
84_H	139_E	1.798	1.00
11_L	14_N	1.753	1.00
250_I	266_A	1.747	1.00
247_W	263_E	1.730	1.00
123_L	158_G	1.724	1.00
85_I	140_V	1.685	1.00
135_Q	138_K	1.675	1.00
138_K	154_E	1.668	1.00
201_E	276_L	1.654	1.00
184_A	205_Y	1.639	1.00
112_Q	152_L	1.617	1.00
242_C	273_L	1.592	1.00
14_N	18_A	1.585	1.00
186_L	249_L	1.576	1.00
28_L	31_K	1.565	1.00
141_I	145_N	1.543	1.00
194_F	245_T	1.539	1.00
15_V	18_A	1.535	1.00
244_N	247_W	1.532	1.00
190_I	245_T	1.486	1.00
41_D	45_D	1.474	1.00
235_L	270_T	1.468	1.00
12_N	20_H	1.464	1.00
44_E	47_G	1.458	1.00
10_V	14_N	1.455	1.00
247_W	266_A	1.448	1.00
42_V	46_K	1.430	1.00
141_I	157_I	1.425	1.00
71_D	74_L	1.415	1.00
211_H	272_H	1.411	1.00
246_A	250_I	1.409	1.00
112_Q	153_P	1.400	1.00
234_L	238_E	1.393	1.00
188_E	192_D	1.388	1.00
227_E	267_V	1.373	1.00
15_V	20_H	1.368	1.00
82_I	102_T	1.363	1.00
187_V	205_Y	1.343	1.00
100_A	163_H	1.341	1.00
251_K	254_Q	1.336	1.00
153_P	156_E	1.325	1.00
204_N	276_L	1.322	1.00
232_M	263_E	1.311	1.00
137_A	157_I	1.290	1.00
198_V	273_L	1.282	1.00
10_V	38_K	1.253	1.00
133_E	161_A	1.253	1.00
226_K	264_A	1.250	1.00
216_I	220_K	1.246	1.00
96_H	100_A	1.243	1.00
225_T	268_Y	1.243	1.00
74_L	78_S	1.240	1.00
109_I	113_Q	1.231	1.00
215_T	219_I	1.227	1.00
100_A	104_H	1.208	1.00
230_K	264_A	1.207	1.00
77_I	147_K	1.207	1.00
12_N	15_V	1.206	1.00
250_I	269_L	1.205	1.00
85_I	136_I	1.193	1.00
14_N	17_I	1.190	1.00
215_T	262_H	1.184	1.00
22_K	26_V	1.174	1.00
81_V	85_I	1.166	1.00
227_E	264_A	1.150	1.00
134_Y	161_A	1.145	1.00
37_K	41_D	1.145	1.00
20_H	26_V	1.142	1.00
41_D	47_G	1.127	1.00
45_D	50_K	1.123	1.00
74_L	106_A	1.114	1.00
42_V	47_G	1.109	1.00
77_I	148_A	1.109	1.00
47_G	50_K	1.104	1.00
109_I	152_L	1.103	1.00
264_A	267_V	1.083	1.00
243_Y	263_E	1.082	1.00
25_E	32_G	1.075	1.00
190_I	246_A	1.072	1.00
16_L	28_L	1.066	1.00
12_N	18_A	1.061	1.00
12_N	19_S	1.059	1.00
183_M	209_I	1.057	1.00
22_K	28_L	1.055	1.00
227_E	231_L	1.054	1.00
98_H	102_T	1.053	1.00
247_W	251_K	1.044	1.00
11_L	18_A	1.042	1.00
86_S	93_L	1.042	1.00
15_V	19_S	1.040	1.00
42_V	45_D	1.036	1.00
77_I	143_M	1.031	1.00
105_I	144_I	1.030	1.00
134_Y	157_I	1.030	1.00
246_A	269_L	1.028	1.00
141_I	160_I	1.022	1.00
11_L	19_S	1.020	1.00
189_V	192_D	1.015	1.00
84_H	88_R	1.013	1.00
86_S	89_T	1.011	1.00
246_A	273_L	1.007	1.00
198_V	276_L	1.007	1.00
18_A	28_L	1.001	1.00
246_A	249_L	0.991	0.99
145_N	148_A	0.991	0.99
45_D	49_D	0.986	0.99
142_D	151_C	0.984	0.99
18_A	22_K	0.983	0.99
33_I	40_D	0.978	0.99
233_L	237_N	0.977	0.99
36_G	39_Q	0.971	0.99
249_L	252_I	0.965	0.99
243_Y	270_T	0.958	0.99
61_K	64_K	0.957	0.99
29_I	32_G	0.949	0.99
232_M	243_Y	0.947	0.99
26_V	31_K	0.946	0.99
139_E	142_D	0.945	0.99
76_D	79_N	0.942	0.99
28_L	35_F	0.935	0.99
78_S	82_I	0.931	0.99
216_I	257_L	0.927	0.99
30_G	36_G	0.921	0.99
19_S	26_V	0.921	0.99
243_Y	247_W	0.921	0.99
36_G	40_D	0.918	0.99
191_E	198_V	0.913	0.99
190_I	194_F	0.907	0.99
29_I	35_F	0.905	0.99
212_I	215_T	0.899	0.99
194_F	198_V	0.898	0.99
24_S	31_K	0.892	0.99
215_T	261_V	0.890	0.99
215_T	218_R	0.887	0.99
144_I	152_L	0.886	0.99
97_I	167_A	0.886	0.99
181_Q	256_T	0.885	0.99
179_H	216_I	0.885	0.99
13_N	20_H	0.885	0.99
207_R	275_R	0.884	0.99
22_K	32_G	0.876	0.99
189_V	193_S	0.873	0.99
29_I	36_G	0.872	0.99
89_T	139_E	0.869	0.99
183_M	186_L	0.867	0.99
250_I	261_V	0.865	0.99
138_K	142_D	0.860	0.99
10_V	18_A	0.858	0.98
87_N	90_N	0.857	0.98
183_M	212_I	0.857	0.98
235_L	267_V	0.850	0.98
164_I	168_L	0.850	0.98
28_L	32_G	0.850	0.98
11_L	28_L	0.848	0.98
267_V	270_T	0.847	0.98
25_E	33_I	0.846	0.98
46_K	49_D	0.843	0.98
205_Y	209_I	0.838	0.98
105_I	160_I	0.837	0.98
74_L	109_I	0.836	0.98
137_A	140_V	0.835	0.98
117_D	153_P	0.834	0.98
81_V	143_M	0.826	0.98
25_E	36_G	0.825	0.98
131_P	134_Y	0.825	0.98
161_A	165_H	0.824	0.98
191_E	201_E	0.823	0.98
29_I	37_K	0.821	0.98
24_S	35_F	0.812	0.98
204_N	208_L	0.811	0.98
185_Q	252_I	0.807	0.98
245_T	249_L	0.807	0.98
20_H	24_S	0.806	0.98
140_V	143_M	0.805	0.98
141_I	144_I	0.803	0.98
272_H	275_R	0.801	0.98
193_S	245_T	0.798	0.98
139_E	143_M	0.797	0.98
79_N	98_H	0.793	0.97
78_S	102_T	0.790	0.97
208_L	269_L	0.786	0.97
76_D	80_D	0.785	0.97
241_L	246_A	0.784	0.97
253_L	257_L	0.783	0.97
25_E	38_K	0.782	0.97
230_K	234_L	0.777	0.97
70_V	106_A	0.774	0.97
132_E	135_Q	0.770	0.97
210_R	214_F	0.769	0.97
25_E	39_Q	0.765	0.97
78_S	105_I	0.763	0.97
186_L	252_I	0.763	0.97
145_N	152_L	0.762	0.97
123_L	159_F	0.760	0.97
249_L	273_L	0.759	0.97
46_K	51_M	0.759	0.97
137_A	161_A	0.758	0.97
186_L	273_L	0.757	0.97
45_D	48_Y	0.755	0.97
242_C	270_T	0.754	0.97
243_Y	246_A	0.753	0.97
85_I	164_I	0.753	0.97
26_V	35_F	0.750	0.96
27_V	32_G	0.749	0.96
79_N	99_I	0.747	0.96
91_H	271_L	0.741	0.96
18_A	25_E	0.739	0.96
83_Y	98_H	0.738	0.96
10_V	15_V	0.735	0.96
11_L	20_H	0.735	0.96
185_Q	188_E	0.734	0.96
268_Y	272_H	0.733	0.96
22_K	27_V	0.732	0.96
106_A	110_K	0.731	0.96
41_D	51_M	0.731	0.96
167_A	215_T	0.731	0.96
25_E	31_K	0.730	0.96
121_P	162_L	0.730	0.96
241_L	244_N	0.730	0.96
32_G	37_K	0.725	0.96
77_I	81_V	0.723	0.96
22_K	35_F	0.720	0.96
47_G	111_R	0.715	0.95
252_I	256_T	0.715	0.95
31_K	39_Q	0.711	0.95
10_V	39_Q	0.710	0.95
14_N	19_S	0.708	0.95
140_V	164_I	0.707	0.95
74_L	77_I	0.706	0.95
19_S	23_Y	0.703	0.95
134_Y	138_K	0.702	0.95
10_V	13_N	0.701	0.95
213_R	217_E	0.695	0.95
15_V	29_I	0.693	0.95
16_L	34_G	0.690	0.94
189_V	249_L	0.689	0.94
219_I	259_K	0.688	0.94
25_E	30_G	0.685	0.94
182_L	212_I	0.684	0.94
120_N	126_T	0.681	0.94
35_F	39_Q	0.681	0.94
46_K	50_K	0.680	0.94
134_Y	158_G	0.680	0.94
31_K	40_D	0.678	0.94
108_A	112_Q	0.673	0.94
243_Y	266_A	0.672	0.94
25_E	28_L	0.671	0.94
30_G	34_G	0.669	0.93
33_I	38_K	0.668	0.93
173_L	176_V	0.665	0.93
22_K	25_E	0.664	0.93
32_G	36_G	0.663	0.93
214_F	217_E	0.661	0.93
85_I	143_M	0.660	0.93
35_F	38_K	0.658	0.93
207_R	272_H	0.658	0.93
180_S	209_I	0.658	0.93
155_G	158_G	0.658	0.93
118_M	156_E	0.655	0.93
218_R	225_T	0.654	0.93
16_L	43_I	0.653	0.93
156_E	268_Y	0.652	0.93
232_M	264_A	0.651	0.93
251_K	255_Q	0.651	0.93
18_A	31_K	0.650	0.93
31_K	36_G	0.649	0.92
25_E	40_D	0.647	0.92
216_I	259_K	0.646	0.92
31_K	45_D	0.645	0.92
24_S	28_L	0.645	0.92
32_G	38_K	0.644	0.92
73_K	147_K	0.641	0.92
182_L	257_L	0.638	0.92
10_V	40_D	0.636	0.92
91_H	168_L	0.635	0.92
27_V	31_K	0.635	0.92
120_N	158_G	0.631	0.91
256_T	259_K	0.629	0.91
93_L	164_I	0.628	0.91
124_M	128_S	0.625	0.91
104_H	108_A	0.624	0.91
180_S	205_Y	0.623	0.91
79_N	83_Y	0.622	0.91
83_Y	86_S	0.622	0.91
15_V	31_K	0.613	0.90
233_L	236_K	0.613	0.90
207_R	276_L	0.611	0.90
247_W	250_I	0.609	0.90
26_V	36_G	0.608	0.90
84_H	136_I	0.605	0.90
230_K	267_V	0.602	0.89
244_N	248_K	0.601	0.89
112_Q	117_D	0.599	0.89
20_H	25_E	0.595	0.89
160_I	163_H	0.593	0.89
16_L	24_S	0.589	0.88
18_A	40_D	0.589	0.88
22_K	33_I	0.588	0.88
32_G	39_Q	0.587	0.88
234_L	237_N	0.587	0.88
89_T	93_L	0.582	0.88
110_K	113_Q	0.581	0.88
43_I	47_G	0.581	0.88
93_L	97_I	0.578	0.87
129_L	154_E	0.578	0.87
113_Q	142_D	0.574	0.87
12_N	17_I	0.573	0.87
187_V	190_I	0.572	0.87
104_H	156_E	0.565	0.86
253_L	259_K	0.565	0.86
16_L	20_H	0.565	0.86
211_H	268_Y	0.564	0.86
96_H	167_A	0.564	0.86
14_N	22_K	0.562	0.86
126_T	158_G	0.560	0.86
182_L	186_L	0.559	0.86
176_V	180_S	0.558	0.86
14_N	33_I	0.555	0.85
230_K	238_E	0.554	0.85
239_Y	274_Y	0.553	0.85
13_N	18_A	0.553	0.85
14_N	40_D	0.552	0.85
14_N	41_D	0.552	0.85
183_M	187_V	0.549	0.85
120_N	155_G	0.549	0.85
15_V	34_G	0.549	0.85
125_E	158_G	0.548	0.84
78_S	81_V	0.548	0.84
223_E	227_E	0.547	0.84
74_L	113_Q	0.547	0.84
253_L	261_V	0.546	0.84
133_E	165_H	0.546	0.84
31_K	37_K	0.546	0.84
14_N	32_G	0.540	0.84
232_M	236_K	0.538	0.83
137_A	160_I	0.537	0.83
26_V	32_G	0.535	0.83
111_R	159_F	0.534	0.83
181_Q	185_Q	0.531	0.83
188_E	199_N	0.531	0.83
16_L	30_G	0.530	0.82
210_R	264_A	0.530	0.82
19_S	22_K	0.530	0.82
242_C	277_T	0.526	0.82
189_V	248_K	0.525	0.82
175_E	178_Q	0.524	0.82
14_N	20_H	0.524	0.82
82_I	97_I	0.520	0.81
113_Q	149_G	0.520	0.81
138_K	151_C	0.519	0.81
85_I	89_T	0.519	0.81
144_I	148_A	0.518	0.81
15_V	159_F	0.518	0.81
94_N	168_L	0.516	0.81
18_A	27_V	0.515	0.81
109_I	144_I	0.513	0.80
106_A	274_Y	0.512	0.80
178_Q	181_Q	0.511	0.80
38_K	41_D	0.509	0.80
28_L	37_K	0.508	0.80
262_H	265_E	0.506	0.80
89_T	136_I	0.505	0.79
97_I	101_L	0.505	0.79
188_E	191_E	0.504	0.79
97_I	215_T	0.502	0.79
56_D	59_E	0.500	0.79
80_D	83_Y	0.500	0.79

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
1h99A	2	0.7794	100	0.334	Contact Map
4r6iA	2	0.968	100	0.336	Contact Map
3sqnA	2	0.9324	100	0.458	Contact Map
3rioA	1	0.5907	99.9	0.586	Contact Map
3ufeA	2	0.3808	99.8	0.652	Contact Map
3nufA	2	0.4093	96.6	0.874	Contact Map
1l1cA	2	0.1957	94.7	0.891	Contact Map
1auuA	2	0.1957	94.4	0.892	Contact Map
2y1nA	1	0.2669	12.9	0.95	Contact Map
3d5pA	2	0.1779	12.1	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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