RHTB - ECOLI - GREMLIN Contacts

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RHTB - Homoserine/homoserine lactone efflux protein

UniProt:	P0AG34	Sequences: MTLEWWFAYLLTSIILSLSPGSGAINTMTTSLNHGYRGAVASIAGLQTGLAIHIVLVGVGLGTLFSRSVIAFEVLKWAGAAYLIWLGIQQWRAAGAIDLKSLASTQSRRHLFQRAVFVNLTNPKSIVFLAALFPQFIMPQQPQLMQYIVLGVTTIVVDIIVMIGYATLAQRIALWIKGPKQMKALNKIFGSLFMLVGALLASARHA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11469
Length:	206 (199)
Sequences:	12776 (9178)
Seq/√Len:	650.6

ECOLI - RHTB LEUE YAHN RHTC EAMB ARGO
BACSU - YRHP YISU YCGF
SULSO - Q97ZW7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
48_T	112_F	5.265	1.00
87_G	194_M	3.604	1.00
88_I	92_R	3.479	1.00
6_W	153_T	3.119	1.00
184_A	187_K	2.945	1.00
73_E	76_K	2.779	1.00
84_I	197_G	2.657	1.00
109_R	113_Q	2.491	1.00
183_K	187_K	2.363	1.00
41_A	108_R	2.338	1.00
52_I	116_V	2.247	1.00
77_W	81_A	2.215	1.00
85_W	89_Q	2.208	1.00
91_W	187_K	2.132	1.00
91_W	190_G	2.073	1.00
31_S	39_A	2.038	1.00
80_A	201_A	1.999	1.00
26_N	42_S	1.973	1.00
191_S	195_L	1.961	1.00
12_T	132_L	1.889	1.00
89_Q	92_R	1.854	1.00
49_G	120_L	1.834	1.00
10_L	157_V	1.831	1.00
87_G	190_G	1.806	1.00
70_I	73_E	1.788	1.00
39_A	166_A	1.748	1.00
84_I	194_M	1.739	1.00
80_A	197_G	1.722	1.00
23_G	46_L	1.718	1.00
24_A	165_Y	1.701	1.00
38_G	111_L	1.683	1.00
30_T	34_H	1.624	1.00
72_F	76_K	1.622	1.00
173_A	177_K	1.606	1.00
94_A	187_K	1.586	1.00
17_S	157_V	1.577	1.00
113_Q	117_F	1.560	1.00
18_L	161_V	1.541	1.00
73_E	77_W	1.538	1.00
51_A	155_I	1.505	1.00
84_I	88_I	1.462	1.00
10_L	153_T	1.459	1.00
44_A	112_F	1.425	1.00
30_T	42_S	1.419	1.00
63_T	67_R	1.412	1.00
43_I	166_A	1.409	1.00
184_A	188_I	1.396	1.00
54_I	151_G	1.390	1.00
112_F	116_V	1.380	1.00
39_A	43_I	1.375	1.00
28_M	169_A	1.375	1.00
31_S	166_A	1.370	1.00
95_G	187_K	1.359	1.00
70_I	74_V	1.350	1.00
42_S	115_A	1.335	1.00
74_V	78_A	1.319	1.00
107_S	110_H	1.312	1.00
181_Q	184_A	1.303	1.00
40_V	167_T	1.302	1.00
116_V	120_L	1.293	1.00
180_K	184_A	1.256	1.00
77_W	80_A	1.256	1.00
129_L	154_T	1.252	1.00
82_Y	86_L	1.245	1.00
158_D	162_M	1.242	1.00
36_Y	167_T	1.234	1.00
110_H	113_Q	1.228	1.00
178_G	181_Q	1.228	1.00
9_Y	150_L	1.226	1.00
171_R	174_L	1.209	1.00
55_V	59_V	1.189	1.00
5_W	8_A	1.168	1.00
36_Y	170_Q	1.150	1.00
194_M	198_A	1.147	1.00
77_W	201_A	1.145	1.00
37_R	41_A	1.144	1.00
7_F	11_L	1.140	1.00
47_Q	159_I	1.139	1.00
8_A	11_L	1.133	1.00
30_T	114_R	1.122	1.00
34_H	38_G	1.120	1.00
26_N	118_V	1.115	1.00
26_N	30_T	1.114	1.00
171_R	175_W	1.110	1.00
164_G	168_L	1.107	1.00
9_Y	13_S	1.105	1.00
87_G	197_G	1.096	1.00
47_Q	155_I	1.095	1.00
23_G	119_N	1.085	1.00
40_V	163_I	1.081	1.00
138_M	146_Q	1.075	1.00
190_G	194_M	1.075	1.00
17_S	158_D	1.070	1.00
13_S	154_T	1.068	1.00
161_V	165_Y	1.058	1.00
45_G	112_F	1.058	1.00
187_K	191_S	1.054	1.00
93_A	186_N	1.051	1.00
52_I	120_L	1.049	1.00
8_A	12_T	1.038	1.00
33_N	37_R	1.034	1.00
23_G	118_V	1.031	1.00
138_M	141_Q	1.028	1.00
195_L	199_L	1.027	1.00
92_R	95_G	1.023	1.00
27_T	162_M	1.021	1.00
49_G	116_V	1.018	1.00
82_Y	85_W	1.011	1.00
27_T	31_S	1.010	1.00
29_T	33_N	1.009	1.00
95_G	98_D	1.003	1.00
23_G	158_D	1.000	1.00
110_H	114_R	0.993	1.00
32_L	169_A	0.992	1.00
24_A	162_M	0.989	1.00
60_G	65_F	0.982	1.00
141_Q	146_Q	0.972	1.00
50_L	119_N	0.969	1.00
106_Q	110_H	0.963	1.00
50_L	125_S	0.958	1.00
188_I	191_S	0.946	1.00
36_Y	163_I	0.936	1.00
14_I	157_V	0.919	1.00
117_F	121_T	0.918	1.00
180_K	183_K	0.911	1.00
36_Y	166_A	0.909	1.00
144_L	147_Y	0.901	1.00
10_L	14_I	0.898	1.00
177_K	181_Q	0.893	1.00
53_H	126_I	0.883	1.00
142_P	145_M	0.877	1.00
23_G	50_L	0.865	1.00
105_T	109_R	0.863	1.00
37_R	108_R	0.860	1.00
25_I	189_F	0.859	1.00
48_T	116_V	0.846	1.00
12_T	15_I	0.846	1.00
27_T	166_A	0.844	1.00
163_I	167_T	0.838	1.00
6_W	156_V	0.837	1.00
53_H	120_L	0.834	1.00
65_F	68_S	0.834	1.00
54_I	129_L	0.834	1.00
50_L	53_H	0.829	1.00
159_I	163_I	0.829	1.00
60_G	67_R	0.828	1.00
78_A	81_A	0.823	1.00
194_M	197_G	0.819	1.00
131_A	135_Q	0.818	1.00
25_I	29_T	0.818	1.00
182_M	186_N	0.817	1.00
144_L	148_I	0.814	1.00
40_V	166_A	0.805	1.00
45_G	116_V	0.795	1.00
175_W	181_Q	0.794	1.00
81_A	84_I	0.794	1.00
90_Q	190_G	0.786	1.00
13_S	17_S	0.784	1.00
89_Q	93_A	0.778	1.00
85_W	88_I	0.775	1.00
11_L	15_I	0.774	1.00
24_A	28_M	0.772	1.00
38_G	41_A	0.770	1.00
68_S	71_A	0.768	1.00
145_M	148_I	0.764	1.00
43_I	163_I	0.761	1.00
71_A	74_V	0.758	1.00
168_L	171_R	0.751	1.00
59_V	63_T	0.751	1.00
68_S	72_F	0.749	1.00
53_H	125_S	0.747	1.00
7_F	10_L	0.746	1.00
111_L	114_R	0.745	1.00
91_W	194_M	0.740	1.00
24_A	161_V	0.740	1.00
97_I	100_K	0.739	1.00
88_I	194_M	0.737	1.00
47_Q	158_D	0.734	1.00
80_A	84_I	0.733	1.00
62_G	66_S	0.729	1.00
23_G	162_M	0.728	1.00
185_L	189_F	0.727	1.00
92_R	96_A	0.722	1.00
121_T	130_A	0.717	1.00
46_L	50_L	0.716	1.00
142_P	146_Q	0.716	1.00
48_T	52_I	0.711	1.00
188_I	192_L	0.698	1.00
31_S	169_A	0.698	1.00
54_I	162_M	0.693	1.00
15_I	19_S	0.692	1.00
50_L	155_I	0.688	1.00
69_V	73_E	0.687	1.00
27_T	46_L	0.684	1.00
17_S	24_A	0.683	1.00
17_S	161_V	0.680	1.00
28_M	165_Y	0.679	1.00
27_T	42_S	0.678	1.00
53_H	57_V	0.676	1.00
6_W	10_L	0.675	1.00
41_A	111_L	0.674	1.00
94_A	97_I	0.673	1.00
169_A	172_I	0.672	1.00
40_V	43_I	0.672	1.00
53_H	119_N	0.672	1.00
50_L	158_D	0.664	1.00
43_I	47_Q	0.663	1.00
167_T	171_R	0.658	1.00
46_L	119_N	0.656	1.00
198_A	202_S	0.653	1.00
162_M	165_Y	0.651	1.00
17_S	162_M	0.649	1.00
53_H	130_A	0.644	1.00
34_H	111_L	0.643	1.00
95_G	183_K	0.643	1.00
175_W	178_G	0.643	1.00
78_A	121_T	0.641	1.00
63_T	66_S	0.633	1.00
24_A	118_V	0.631	1.00
42_S	111_L	0.630	1.00
30_T	33_N	0.629	1.00
143_Q	146_Q	0.628	1.00
12_T	16_L	0.628	1.00
74_V	77_W	0.625	1.00
173_A	176_I	0.622	1.00
38_G	108_R	0.622	1.00
156_V	160_I	0.621	1.00
49_G	119_N	0.621	1.00
57_V	62_G	0.619	1.00
81_A	85_W	0.619	1.00
101_S	104_S	0.617	1.00
52_I	55_V	0.613	1.00
4_E	7_F	0.608	1.00
119_N	125_S	0.607	1.00
4_E	8_A	0.605	1.00
160_I	164_G	0.602	1.00
50_L	129_L	0.602	1.00
181_Q	185_L	0.602	1.00
19_S	24_A	0.601	1.00
108_R	112_F	0.595	1.00
58_G	151_G	0.594	1.00
54_I	155_I	0.592	1.00
174_L	178_G	0.591	1.00
119_N	162_M	0.588	1.00
155_I	159_I	0.586	1.00
87_G	91_W	0.579	1.00
44_A	47_Q	0.572	1.00
57_V	126_I	0.571	1.00
55_V	151_G	0.569	1.00
20_P	124_K	0.569	1.00
109_R	112_F	0.569	1.00
27_T	43_I	0.569	1.00
149_V	153_T	0.569	1.00
50_L	154_T	0.567	1.00
79_G	127_V	0.564	1.00
84_I	201_A	0.563	1.00
199_L	202_S	0.563	1.00
22_S	90_Q	0.559	1.00
57_V	129_L	0.556	1.00
42_S	118_V	0.556	1.00
14_I	18_L	0.555	1.00
129_L	158_D	0.554	1.00
29_T	186_N	0.554	1.00
195_L	198_A	0.553	1.00
114_R	118_V	0.552	1.00
17_S	50_L	0.549	1.00
23_G	125_S	0.548	1.00
13_S	153_T	0.547	1.00
168_L	172_I	0.541	1.00
126_I	130_A	0.538	1.00
176_I	179_P	0.535	1.00
94_A	183_K	0.533	0.99
35_G	38_G	0.532	0.99
19_S	186_N	0.531	0.99
105_T	108_R	0.530	0.99
22_S	122_N	0.530	0.99
89_Q	114_R	0.529	0.99
53_H	62_G	0.528	0.99
161_V	164_G	0.528	0.99
175_W	179_P	0.527	0.99
125_S	162_M	0.526	0.99
38_G	107_S	0.525	0.99
141_Q	144_L	0.525	0.99
36_Y	171_R	0.524	0.99
40_V	44_A	0.523	0.99
57_V	137_I	0.523	0.99
132_L	154_T	0.521	0.99
75_L	79_G	0.520	0.99
162_M	166_A	0.518	0.99
47_Q	162_M	0.518	0.99
68_S	73_E	0.517	0.99
160_I	163_I	0.514	0.99
67_R	70_I	0.511	0.99
39_A	42_S	0.511	0.99
102_L	105_T	0.508	0.99
16_L	132_L	0.502	0.99
101_S	105_T	0.501	0.99
65_F	75_L	0.500	0.99

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
2cfqA	1	0.9078	24	0.927	Contact Map
4m64A	1	0.9417	15.4	0.933	Contact Map
3o7qA	1	0.9175	13	0.935	Contact Map
4x5mA	2	0.4515	8.9	0.94	Contact Map
3j1zP	8	0.8447	8.2	0.941	Contact Map
4w6vA	1	0.5	7.3	0.942	Contact Map
3wdoA	1	0.4709	7.2	0.942	Contact Map
4xnjA	1	0.466	6.7	0.943	Contact Map
2gfpA	2	0.9126	5.9	0.945	Contact Map
4ikvA	1	0.5146	5.5	0.946	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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