RHTC - ECOLI - GREMLIN Contacts

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RHTC - Threonine efflux protein

UniProt:	P0AG38	Sequences: MLMLFLTVAMVHIVALMSPGPDFFFVSQTAVSRSRKEAMMGVLGITCGVMVWAGIALLGLHLIIEKMAWLHTLIMVGGGLYLCWMGYQMLRGALKKEAVSAPAPQVELAKSGRSFLKGLLTNLANPKAIIYFGSVFSLFVGDNVGTTARWGIFALIIVETLAWFTVVASLFALPQMRRGYQRLAKWIDGFAGALFAGFGIHLIISR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11468
Length:	206 (197)
Sequences:	12850 (9141)
Seq/√Len:	651.2

ECOLI - RHTC YAHN ARGO RHTB LEUE EAMB
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
47_C	115_F	5.236	1.00
86_G	196_A	3.591	1.00
87_Y	91_R	3.445	1.00
186_W	189_G	2.920	1.00
72_T	75_M	2.764	1.00
83_C	199_G	2.627	1.00
112_G	116_L	2.535	1.00
40_M	111_S	2.389	1.00
185_K	189_G	2.344	1.00
51_V	119_L	2.292	1.00
76_V	80_L	2.224	1.00
84_W	88_Q	2.181	1.00
90_L	189_G	2.144	1.00
90_L	192_G	2.061	1.00
30_A	38_A	2.051	1.00
25_F	41_G	2.022	1.00
193_A	197_G	1.960	1.00
79_G	203_I	1.958	1.00
88_Q	91_R	1.894	1.00
11_V	135_V	1.884	1.00
9_A	159_E	1.830	1.00
48_G	123_L	1.830	1.00
86_G	192_G	1.818	1.00
29_T	33_R	1.745	1.00
93_A	189_G	1.739	1.00
79_G	199_G	1.735	1.00
37_E	114_S	1.728	1.00
69_W	72_T	1.724	1.00
23_F	167_V	1.707	1.00
22_D	45_I	1.705	1.00
83_C	196_A	1.705	1.00
71_H	75_M	1.645	1.00
38_A	168_A	1.644	1.00
16_L	159_E	1.576	1.00
116_L	120_L	1.574	1.00
149_R	153_F	1.552	1.00
72_T	76_V	1.543	1.00
17_M	163_W	1.518	1.00
50_M	157_I	1.477	1.00
94_L	189_G	1.471	1.00
83_C	87_Y	1.459	1.00
62_L	66_K	1.453	1.00
43_L	115_F	1.449	1.00
29_T	41_G	1.427	1.00
30_A	168_A	1.402	1.00
160_T	164_F	1.402	1.00
186_W	190_F	1.399	1.00
42_V	168_A	1.386	1.00
38_A	42_V	1.375	1.00
115_F	119_L	1.362	1.00
41_G	118_G	1.361	1.00
27_S	171_F	1.361	1.00
69_W	73_L	1.357	1.00
132_F	156_I	1.317	1.00
39_M	169_S	1.314	1.00
119_L	123_L	1.301	1.00
173_L	176_M	1.298	1.00
175_Q	179_G	1.289	1.00
73_L	77_G	1.277	1.00
110_K	113_R	1.272	1.00
76_V	79_G	1.251	1.00
146_T	149_R	1.230	1.00
35_R	169_S	1.230	1.00
81_Y	85_M	1.203	1.00
182_R	186_W	1.199	1.00
180_Y	183_L	1.198	1.00
6_L	10_M	1.197	1.00
183_L	186_W	1.179	1.00
54_G	58_L	1.179	1.00
113_R	116_L	1.178	1.00
33_R	37_E	1.172	1.00
196_A	200_I	1.163	1.00
192_G	196_A	1.159	1.00
29_T	117_K	1.154	1.00
163_W	167_V	1.143	1.00
76_V	203_I	1.132	1.00
22_D	122_N	1.131	1.00
25_F	29_T	1.131	1.00
35_R	172_A	1.128	1.00
4_L	7_T	1.127	1.00
36_K	40_M	1.125	1.00
25_F	121_T	1.124	1.00
46_T	161_L	1.100	1.00
46_T	157_I	1.094	1.00
8_V	12_H	1.093	1.00
7_T	10_M	1.088	1.00
92_G	188_D	1.082	1.00
51_V	123_L	1.081	1.00
166_V	170_L	1.080	1.00
91_R	94_L	1.077	1.00
86_G	199_G	1.066	1.00
147_T	150_W	1.066	1.00
12_H	156_I	1.061	1.00
22_D	121_T	1.056	1.00
39_M	165_T	1.050	1.00
16_L	160_T	1.050	1.00
26_V	164_F	1.047	1.00
113_R	117_K	1.047	1.00
44_G	115_F	1.044	1.00
141_G	149_R	1.037	1.00
7_T	11_V	1.032	1.00
189_G	193_A	1.029	1.00
32_S	36_K	1.029	1.00
26_V	30_A	1.017	1.00
141_G	144_V	1.016	1.00
31_V	171_F	1.014	1.00
197_G	201_H	1.011	1.00
175_Q	178_R	1.011	1.00
28_Q	32_S	1.011	1.00
59_G	64_I	1.009	1.00
173_L	177_R	1.008	1.00
49_V	128_A	0.999	1.00
48_G	119_L	0.999	1.00
81_Y	84_W	0.991	1.00
149_R	152_I	0.989	1.00
22_D	160_T	0.983	1.00
23_F	164_F	0.965	1.00
145_G	148_A	0.961	1.00
49_V	122_N	0.947	1.00
182_R	185_K	0.945	1.00
9_A	13_I	0.927	1.00
13_I	159_E	0.922	1.00
190_F	193_A	0.920	1.00
26_V	168_A	0.911	1.00
150_W	153_F	0.908	1.00
109_A	113_R	0.907	1.00
120_L	124_A	0.906	1.00
52_W	129_I	0.898	1.00
35_R	165_T	0.895	1.00
52_W	123_L	0.891	1.00
36_K	111_S	0.879	1.00
22_D	49_V	0.872	1.00
49_V	52_W	0.856	1.00
47_C	119_L	0.852	1.00
59_G	66_K	0.847	1.00
24_F	191_A	0.844	1.00
11_V	14_V	0.843	1.00
88_Q	92_G	0.837	1.00
44_G	119_L	0.834	1.00
146_T	150_W	0.831	1.00
94_L	97_E	0.829	1.00
64_I	67_M	0.829	1.00
5_F	9_A	0.829	1.00
5_F	158_V	0.825	1.00
165_T	169_S	0.822	1.00
10_M	14_V	0.822	1.00
179_G	183_L	0.820	1.00
161_L	165_T	0.817	1.00
177_R	183_L	0.808	1.00
80_L	83_C	0.802	1.00
108_L	112_G	0.802	1.00
134_S	138_L	0.801	1.00
24_F	28_Q	0.798	1.00
35_R	168_A	0.796	1.00
196_A	199_G	0.789	1.00
77_G	80_L	0.789	1.00
184_A	188_D	0.783	1.00
53_A	132_F	0.781	1.00
114_S	117_K	0.780	1.00
91_R	95_K	0.777	1.00
84_W	87_Y	0.773	1.00
90_L	196_A	0.773	1.00
61_H	65_E	0.772	1.00
23_F	27_S	0.767	1.00
39_M	168_A	0.767	1.00
52_W	128_A	0.764	1.00
170_L	173_L	0.759	1.00
12_H	16_L	0.756	1.00
89_M	192_G	0.753	1.00
124_A	133_G	0.749	1.00
6_L	9_A	0.747	1.00
46_T	160_T	0.746	1.00
23_F	163_W	0.744	1.00
58_L	62_L	0.743	1.00
22_D	164_F	0.743	1.00
37_E	40_M	0.742	1.00
42_V	165_T	0.740	1.00
87_Y	196_A	0.739	1.00
47_C	51_V	0.737	1.00
52_W	56_A	0.730	1.00
67_M	70_L	0.730	1.00
70_L	73_L	0.726	1.00
144_V	148_A	0.726	1.00
67_M	71_H	0.723	1.00
40_M	114_S	0.720	1.00
14_V	18_S	0.718	1.00
187_I	191_A	0.716	1.00
42_V	46_T	0.714	1.00
16_L	23_F	0.714	1.00
16_L	163_W	0.712	1.00
190_F	194_L	0.708	1.00
79_G	83_C	0.708	1.00
151_G	154_A	0.708	1.00
94_L	185_K	0.705	1.00
164_F	167_V	0.703	1.00
53_A	164_F	0.703	1.00
57_L	154_A	0.702	1.00
26_V	41_G	0.698	1.00
26_V	45_I	0.696	1.00
52_W	122_N	0.696	1.00
45_I	49_V	0.694	1.00
33_R	114_S	0.693	1.00
147_T	151_G	0.692	1.00
144_V	149_R	0.687	1.00
27_S	167_V	0.685	1.00
176_M	179_G	0.685	1.00
52_W	133_G	0.683	1.00
171_F	174_P	0.682	1.00
68_A	72_T	0.681	1.00
62_L	65_E	0.678	1.00
151_G	155_L	0.676	1.00
177_R	180_Y	0.675	1.00
178_R	183_L	0.675	1.00
49_V	160_T	0.672	1.00
48_G	122_N	0.671	1.00
30_A	171_F	0.669	1.00
77_G	124_A	0.668	1.00
169_S	173_L	0.666	1.00
49_V	157_I	0.662	1.00
39_M	42_V	0.658	1.00
80_L	84_W	0.657	1.00
78_G	130_I	0.657	1.00
200_I	204_I	0.656	1.00
45_I	122_N	0.653	1.00
11_V	15_A	0.645	1.00
183_L	187_I	0.638	1.00
23_F	121_T	0.637	1.00
73_L	76_V	0.636	1.00
41_G	114_S	0.636	1.00
51_V	54_G	0.635	1.00
49_V	132_F	0.635	1.00
37_E	111_S	0.633	1.00
16_L	164_F	0.633	1.00
162_A	166_V	0.630	1.00
34_S	37_E	0.630	1.00
93_A	96_K	0.629	1.00
56_A	129_I	0.613	1.00
49_V	156_I	0.607	1.00
157_I	161_L	0.607	1.00
19_P	127_K	0.606	1.00
13_I	17_M	0.606	1.00
177_R	181_Q	0.603	1.00
29_T	32_S	0.603	1.00
33_R	109_A	0.601	1.00
111_S	115_F	0.599	1.00
56_A	61_H	0.599	1.00
102_P	105_Q	0.598	1.00
112_G	115_F	0.595	1.00
144_V	147_T	0.593	1.00
74_I	78_G	0.590	1.00
122_N	128_A	0.587	1.00
86_G	90_L	0.585	1.00
18_S	23_F	0.583	1.00
28_Q	188_D	0.581	1.00
56_A	132_F	0.578	1.00
16_L	49_V	0.573	1.00
170_L	174_P	0.573	1.00
83_C	203_I	0.571	1.00
53_A	154_A	0.568	1.00
201_H	204_I	0.567	1.00
129_I	133_G	0.562	1.00
176_M	180_Y	0.561	1.00
37_E	110_K	0.561	1.00
26_V	42_V	0.561	1.00
128_A	160_T	0.551	1.00
67_M	72_T	0.551	1.00
132_F	160_T	0.550	1.00
52_W	61_H	0.550	1.00
43_L	46_T	0.548	1.00
122_N	164_F	0.548	1.00
66_K	69_W	0.546	1.00
163_W	166_V	0.541	1.00
197_G	200_I	0.539	1.00
21_P	125_N	0.536	1.00
158_V	162_A	0.533	0.99
117_K	121_T	0.533	0.99
88_Q	117_K	0.532	0.99
164_F	168_A	0.531	0.99
22_D	128_A	0.530	0.99
21_P	89_M	0.524	0.99
90_L	193_A	0.523	0.99
128_A	164_F	0.521	0.99
41_G	121_T	0.521	0.99
9_A	12_H	0.520	0.99
42_V	161_L	0.520	0.99
46_T	164_F	0.517	0.99
39_M	43_L	0.516	0.99
148_A	152_I	0.516	0.99
131_Y	135_V	0.514	0.99
38_A	41_G	0.514	0.99
16_L	128_A	0.511	0.99
15_A	135_V	0.509	0.99
18_S	188_D	0.509	0.99
193_A	196_A	0.506	0.99
42_V	164_F	0.503	0.99
135_V	156_I	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
3o7qA	1	0.932	17	0.933	Contact Map
4ikvA	1	0.5437	11.9	0.937	Contact Map
1pw4A	1	0.8981	11.3	0.938	Contact Map
2cfqA	1	0.8883	11.1	0.938	Contact Map
4c7rA	3	0.3204	9.1	0.94	Contact Map
4w6vA	1	0.5049	8.2	0.942	Contact Map
2gfpA	2	0.9272	8	0.942	Contact Map
3giaA	1	0.466	6.8	0.943	Contact Map
4m64A	1	0.9126	6.1	0.945	Contact Map
3wdoA	1	0.8835	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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