DPPC - ECOLI - GREMLIN Contacts

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DPPC - Dipeptide transport system permease protein DppC

UniProt:	P0AEG1	Sequences: MSQVTENKVISAPVPMTPLQEFWHYFKRNKGAVVGLVYVVIVLFIAIFANWIAPYNPAEQFRDALLAPPAWQEGGSMAHLLGTDDVGRDVLSRLMYGARLSLLVGCLVVVLSLIMGVILGLIAGYFGGLVDNIIMRVVDIMLALPSLLLALVLVAIFGPSIGNAALALTFVALPHYVRLTRAAVLVEVNRDYVTASRVAGAGAMRQMFINIFPNCLAPLIVQASLGFSNAILDMAALGFLGMGAQPPTPEWGTMLSDVLQFAQSAWWVVTFPGLAILLTVLAFNLMGDGLRDALDPKLKQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12626
Length:	300 (253)
Sequences:	28838 (18016)
Seq/√Len:	1132.7

ECOLI - DPPC DDPC SAPC OPPC GSID YEJE NIKC YEJB DDPB DPPB NIKB GSIC SAPB OPPB
BACSU - DPPC APPC OPPC OPPB APPB DPPB
HALSA - Q9HMW2 Q9HMI1 Q9HMX1 Q9HMI2 Q9HMX0 Q9HMW3
SULSO - Q97UH2 Q97YP2 Q97UG3 Q97VK7 Q97YP9 Q97VF6 Q97VK6 Q97VF8 Q97UH1 Q97YQ0 Q97YP1 Q97UG4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
184_V	211_I	2.749	1.00
51_W	78_A	2.617	1.00
131_D	181_R	2.586	1.00
201_A	205_R	2.436	1.00
187_E	192_Y	2.401	1.00
205_R	209_I	2.369	1.00
197_R	203_A	2.367	1.00
107_L	165_A	2.360	1.00
119_L	134_I	2.339	1.00
111_L	169_T	2.303	1.00
100_L	239_F	2.270	1.00
187_E	190_R	2.261	1.00
202_G	205_R	2.240	1.00
76_S	80_L	2.196	1.00
204_M	208_F	2.194	1.00
61_F	64_A	2.102	1.00
253_T	257_D	2.078	1.00
77_M	80_L	2.063	1.00
191_D	194_T	2.050	1.00
193_V	206_Q	2.013	1.00
193_V	211_I	1.977	1.00
43_L	79_H	1.955	1.00
121_L	184_V	1.942	1.00
122_I	126_F	1.919	1.00
93_R	254_M	1.905	1.00
126_F	130_V	1.902	1.00
224_S	287_G	1.880	1.00
89_D	92_S	1.878	1.00
126_F	203_A	1.878	1.00
114_I	118_I	1.824	1.00
176_Y	226_G	1.769	1.00
129_L	133_I	1.729	1.00
192_Y	214_N	1.723	1.00
125_Y	203_A	1.704	1.00
56_N	59_E	1.699	1.00
187_E	215_C	1.698	1.00
124_G	184_V	1.690	1.00
46_A	98_A	1.688	1.00
84_D	88_R	1.667	1.00
86_V	93_R	1.661	1.00
91_L	95_M	1.632	1.00
115_M	173_L	1.621	1.00
122_I	130_V	1.614	1.00
112_S	172_A	1.604	1.00
81_L	271_F	1.601	1.00
115_M	118_I	1.589	1.00
188_V	211_I	1.587	1.00
103_L	107_L	1.583	1.00
130_V	134_I	1.569	1.00
90_V	271_F	1.545	1.00
183_A	186_V	1.540	1.00
125_Y	207_M	1.507	1.00
134_I	177_V	1.505	1.00
138_V	177_V	1.504	1.00
96_Y	99_R	1.504	1.00
113_L	223_A	1.499	1.00
165_A	169_T	1.495	1.00
79_H	89_D	1.490	1.00
88_R	92_S	1.485	1.00
44_F	79_H	1.482	1.00
85_D	257_D	1.477	1.00
258_V	268_V	1.468	1.00
32_A	289_G	1.442	1.00
116_G	176_Y	1.434	1.00
186_V	190_R	1.427	1.00
48_F	51_W	1.422	1.00
120_G	124_G	1.418	1.00
255_L	272_P	1.415	1.00
40_V	44_F	1.410	1.00
109_V	223_A	1.393	1.00
260_Q	263_Q	1.375	1.00
35_G	282_A	1.341	1.00
64_A	67_A	1.338	1.00
195_A	199_A	1.330	1.00
129_L	132_N	1.328	1.00
136_R	139_D	1.320	1.00
148_L	152_V	1.306	1.00
119_L	177_V	1.300	1.00
120_G	180_T	1.297	1.00
181_R	185_L	1.290	1.00
94_L	275_A	1.290	1.00
116_G	180_T	1.286	1.00
221_V	291_R	1.283	1.00
33_V	37_V	1.280	1.00
228_S	280_V	1.274	1.00
100_L	103_L	1.263	1.00
162_G	166_L	1.261	1.00
124_G	188_V	1.257	1.00
187_E	193_V	1.255	1.00
81_L	91_L	1.253	1.00
123_A	134_I	1.251	1.00
153_L	167_A	1.246	1.00
42_V	277_L	1.245	1.00
290_L	293_A	1.244	1.00
121_L	207_M	1.232	1.00
30_K	33_V	1.227	1.00
291_R	295_D	1.217	1.00
266_W	270_T	1.217	1.00
179_L	222_Q	1.216	1.00
169_T	173_L	1.205	1.00
187_E	211_I	1.199	1.00
44_F	48_F	1.187	1.00
196_S	210_N	1.181	1.00
220_I	294_L	1.160	1.00
196_S	206_Q	1.159	1.00
196_S	201_A	1.155	1.00
104_V	234_M	1.154	1.00
88_R	93_R	1.152	1.00
184_V	215_C	1.117	1.00
127_G	188_V	1.114	1.00
141_M	174_P	1.113	1.00
39_V	278_L	1.103	1.00
194_T	197_R	1.103	1.00
88_R	96_Y	1.100	1.00
289_G	293_A	1.097	1.00
121_L	212_F	1.090	1.00
132_N	136_R	1.077	1.00
117_V	180_T	1.074	1.00
81_L	94_L	1.069	1.00
118_I	121_L	1.068	1.00
180_T	184_V	1.063	1.00
272_P	276_I	1.060	1.00
160_S	163_N	1.054	1.00
144_L	149_L	1.052	1.00
137_V	141_M	1.051	1.00
205_R	208_F	1.048	1.00
173_L	177_V	1.043	1.00
183_A	187_E	1.043	1.00
180_T	219_L	1.043	1.00
83_T	89_D	1.043	1.00
90_V	268_V	1.032	1.00
99_R	103_L	1.027	1.00
167_A	171_V	1.022	1.00
162_G	165_A	1.020	1.00
254_M	268_V	1.013	1.00
37_V	41_I	1.013	1.00
258_V	269_V	1.010	1.00
150_A	167_A	1.009	1.00
131_D	135_M	1.007	1.00
49_A	96_Y	0.994	1.00
199_A	210_N	0.990	1.00
35_G	289_G	0.984	1.00
108_V	169_T	0.981	1.00
127_G	189_N	0.978	1.00
55_Y	78_A	0.978	1.00
103_L	161_I	0.977	1.00
39_V	282_A	0.975	1.00
34_V	37_V	0.974	1.00
42_V	279_T	0.974	1.00
135_M	177_V	0.965	1.00
35_G	281_L	0.963	1.00
197_R	206_Q	0.960	1.00
41_I	45_I	0.959	1.00
90_V	254_M	0.957	1.00
53_A	92_S	0.955	1.00
267_W	271_F	0.950	1.00
196_S	199_A	0.948	1.00
271_F	274_L	0.948	1.00
97_G	254_M	0.947	1.00
38_Y	282_A	0.943	1.00
93_R	268_V	0.936	1.00
180_T	215_C	0.933	1.00
94_L	271_F	0.933	1.00
146_S	233_D	0.932	1.00
130_V	133_I	0.931	1.00
103_L	106_C	0.928	1.00
227_F	283_F	0.925	1.00
133_I	137_V	0.923	1.00
108_V	112_S	0.923	1.00
201_A	206_Q	0.922	1.00
131_D	185_L	0.915	1.00
217_A	291_R	0.914	1.00
40_V	79_H	0.911	1.00
92_S	96_Y	0.906	1.00
128_G	131_D	0.905	1.00
37_V	40_V	0.903	1.00
38_Y	278_L	0.900	1.00
108_V	168_L	0.897	1.00
65_L	69_P	0.894	1.00
35_G	285_L	0.888	1.00
132_N	135_M	0.884	1.00
83_T	87_G	0.882	1.00
120_G	184_V	0.882	1.00
157_F	163_N	0.881	1.00
36_L	40_V	0.880	1.00
203_A	206_Q	0.878	1.00
117_V	219_L	0.875	1.00
36_L	286_M	0.865	1.00
128_G	132_N	0.861	1.00
282_A	286_M	0.856	1.00
93_R	96_Y	0.853	1.00
138_V	174_P	0.852	1.00
168_L	233_D	0.851	1.00
113_L	117_V	0.845	1.00
61_F	65_L	0.844	1.00
63_D	67_A	0.840	1.00
95_M	99_R	0.839	1.00
114_I	117_V	0.837	1.00
222_Q	226_G	0.835	1.00
45_I	95_M	0.828	1.00
220_I	287_G	0.828	1.00
283_F	287_G	0.823	1.00
54_P	92_S	0.822	1.00
166_L	169_T	0.822	1.00
161_I	165_A	0.820	1.00
215_C	218_P	0.819	1.00
55_Y	92_S	0.818	1.00
55_Y	79_H	0.816	1.00
182_A	185_L	0.816	1.00
208_F	211_I	0.815	1.00
66_L	69_P	0.809	1.00
92_S	95_M	0.805	1.00
184_V	188_V	0.804	1.00
113_L	118_I	0.804	1.00
270_T	274_L	0.800	1.00
48_F	52_I	0.799	1.00
159_P	163_N	0.799	1.00
98_A	279_T	0.793	1.00
203_A	207_M	0.792	1.00
108_V	230_A	0.792	1.00
190_R	194_T	0.789	1.00
146_S	150_A	0.788	1.00
119_L	173_L	0.785	1.00
118_I	122_I	0.783	1.00
187_E	214_N	0.783	1.00
254_M	272_P	0.777	1.00
163_N	166_L	0.773	1.00
256_S	259_L	0.772	1.00
153_L	163_N	0.766	1.00
67_A	76_S	0.763	1.00
124_G	185_L	0.753	1.00
106_C	110_V	0.753	1.00
32_A	285_L	0.752	1.00
107_L	110_V	0.750	1.00
31_G	35_G	0.747	1.00
194_T	198_V	0.746	1.00
111_L	165_A	0.745	1.00
257_D	260_Q	0.743	1.00
158_G	163_N	0.739	1.00
201_A	210_N	0.737	1.00
113_L	176_Y	0.736	1.00
142_L	174_P	0.734	1.00
292_D	298_L	0.734	1.00
32_A	36_L	0.734	1.00
107_L	239_F	0.733	1.00
123_A	131_D	0.731	1.00
45_I	98_A	0.730	1.00
183_A	218_P	0.729	1.00
101_S	105_G	0.725	1.00
276_I	280_V	0.717	1.00
206_Q	211_I	0.709	1.00
180_T	183_A	0.708	1.00
84_D	265_A	0.706	1.00
271_F	275_A	0.706	1.00
76_S	79_H	0.699	1.00
278_L	282_A	0.698	1.00
291_R	298_L	0.697	1.00
95_M	98_A	0.697	1.00
58_A	62_R	0.695	1.00
44_F	76_S	0.690	1.00
232_L	235_A	0.690	1.00
34_V	38_Y	0.689	1.00
204_M	207_M	0.687	1.00
62_R	65_L	0.686	1.00
183_A	215_C	0.685	1.00
115_M	169_T	0.685	1.00
228_S	283_F	0.684	1.00
172_A	175_H	0.684	1.00
43_L	274_L	0.678	1.00
116_G	120_G	0.677	1.00
112_S	169_T	0.670	1.00
42_V	278_L	0.669	1.00
30_K	34_V	0.668	1.00
50_N	99_R	0.664	1.00
270_T	273_G	0.663	1.00
54_P	91_L	0.660	1.00
159_P	162_G	0.659	1.00
79_H	83_T	0.659	1.00
171_V	174_P	0.657	1.00
63_D	66_L	0.654	1.00
286_M	290_L	0.646	1.00
47_I	51_W	0.645	1.00
39_V	283_F	0.643	1.00
224_S	283_F	0.643	1.00
164_A	234_M	0.639	1.00
234_M	238_G	0.639	1.00
35_G	38_Y	0.639	1.00
133_I	136_R	0.638	1.00
51_W	266_W	0.637	1.00
232_L	236_A	0.635	1.00
146_S	149_L	0.633	1.00
280_V	284_N	0.632	1.00
65_L	68_P	0.629	1.00
185_L	188_V	0.627	1.00
123_A	135_M	0.625	1.00
109_V	226_G	0.624	1.00
115_M	119_L	0.624	1.00
125_Y	188_V	0.615	1.00
127_G	131_D	0.613	1.00
269_V	273_G	0.612	1.00
135_M	138_V	0.611	1.00
110_V	114_I	0.611	1.00
33_V	36_L	0.610	1.00
221_V	224_S	0.610	1.00
134_I	138_V	0.608	1.00
94_L	272_P	0.606	1.00
105_G	230_A	0.605	1.00
233_D	236_A	0.604	1.00
201_A	204_M	0.603	1.00
61_F	79_H	0.603	1.00
235_A	253_T	0.602	1.00
254_M	257_D	0.598	1.00
98_A	102_L	0.598	1.00
49_A	52_I	0.597	1.00
138_V	173_L	0.597	1.00
102_L	106_C	0.594	1.00
53_A	96_Y	0.593	1.00
261_F	264_S	0.592	1.00
46_A	273_G	0.591	1.00
175_H	226_G	0.589	1.00
126_F	207_M	0.588	1.00
170_F	173_L	0.588	1.00
176_Y	180_T	0.585	1.00
85_D	261_F	0.584	1.00
127_G	185_L	0.584	1.00
107_L	162_G	0.583	1.00
256_S	260_Q	0.582	1.00
176_Y	222_Q	0.582	1.00
149_L	171_V	0.582	1.00
109_V	227_F	0.580	1.00
125_Y	208_F	0.579	1.00
231_I	235_A	0.577	1.00
136_R	140_I	0.575	1.00
152_V	156_I	0.573	1.00
141_M	173_L	0.572	1.00
38_Y	42_V	0.572	1.00
67_A	83_T	0.569	1.00
230_A	233_D	0.563	1.00
255_L	276_I	0.562	1.00
45_I	49_A	0.560	1.00
146_S	170_F	0.559	1.00
163_N	167_A	0.555	1.00
208_F	213_P	0.555	1.00
59_E	63_D	0.552	1.00
62_R	66_L	0.550	1.00
55_Y	264_S	0.548	1.00
99_R	102_L	0.548	1.00
285_L	289_G	0.544	1.00
254_M	258_V	0.544	1.00
119_L	122_I	0.543	1.00
235_A	257_D	0.543	1.00
139_D	142_L	0.542	1.00
93_R	97_G	0.540	1.00
235_A	256_S	0.536	1.00
31_G	285_L	0.536	1.00
64_A	79_H	0.535	1.00
166_L	170_F	0.532	1.00
193_V	197_R	0.531	1.00
109_V	113_L	0.531	1.00
50_N	96_Y	0.529	1.00
169_T	172_A	0.527	1.00
226_G	230_A	0.526	1.00
124_G	131_D	0.523	1.00
123_A	181_R	0.523	1.00
39_V	286_M	0.522	1.00
113_L	219_L	0.522	1.00
104_V	164_A	0.521	1.00
116_G	177_V	0.520	1.00
172_A	226_G	0.513	1.00
105_G	227_F	0.511	1.00
288_D	291_R	0.510	1.00
216_L	220_I	0.505	1.00
267_W	270_T	0.505	1.00
202_G	206_Q	0.505	1.00
42_V	46_A	0.504	1.00
148_L	151_L	0.504	1.00
175_H	222_Q	0.504	1.00
35_G	39_V	0.503	1.00
261_F	268_V	0.501	1.00
179_L	183_A	0.500	1.00

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
4tquM	1	0.8433	99.9	0.62	Contact Map
3d31C	2	0.7667	99.9	0.635	Contact Map
3tuiA	2	0.6767	99.9	0.643	Contact Map
2onkC	2	0.79	99.9	0.651	Contact Map
3rlfF	1	0.9067	99.9	0.663	Contact Map
4tquN	1	0.87	99.9	0.676	Contact Map
4ymuD	2	0.6967	99.9	0.676	Contact Map
3rlfG	1	0.85	99.8	0.679	Contact Map
3j9pD	4	0.7533	75.1	0.934	Contact Map
2kogA	1	0.1767	21	0.954	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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