SECF - ECOLI - GREMLIN Contacts

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SECF - Protein translocase subunit SecF

UniProt:	P0AG93	Sequences: MAQEYTVEQLNHGRKVYDFMRWDYWAFGISGLLLIAAIVIMGVRGFNWGLDFTGGTVIEITLEKPAEIDVMRDALQKAGFEEPMLQNFGSSHDIMVRMPPAEGETGGQVLGSQVLKVINESTNQNAAVKRIEFVGPSVGADLAQTGAMALMAALLSILVYVGFRFEWRLAAGVVIALAHDVIITLGILSLFHIEIDLTIVASLMSVIGYSLNDSIVVSDRIRENFRKIRRGTPYEIFNVSLTQTLHRTLITSGTTLMVILMLYLFGGPVLEGFSLTMLIGVSIGTASSIYVASALALKLGMKREHMLQQKVEKEGADQPSILP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10940
Length:	323 (288)
Sequences:	48943 (35088)
Seq/√Len:	2067.6

ECOLI - SECF MDTC ACRD MDTF ACRB MDTB ACRF CUSA
BACSU - SECDF YDFJ SWRC YDGH
HALSA - Q9HPT7 Q9HNQ9 Q9HNR0
SULSO - Q97ZV9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
232_T	235_E	4.363	1.00
17_Y	238_N	3.575	1.00
187_I	279_I	3.264	1.00
115_L	119_N	2.961	1.00
117_V	120_E	2.775	1.00
224_N	239_V	2.697	1.00
224_N	227_K	2.591	1.00
229_R	239_V	2.576	1.00
22_W	25_W	2.540	1.00
15_K	290_Y	2.507	1.00
224_N	229_R	2.431	1.00
111_G	115_L	2.429	1.00
234_Y	297_L	2.321	1.00
113_Q	116_K	2.277	1.00
169_L	222_R	2.265	1.00
222_R	226_R	2.255	1.00
21_R	234_Y	2.210	1.00
220_R	224_N	2.196	1.00
183_I	283_I	2.130	1.00
206_V	280_G	2.099	1.00
256_L	282_S	2.086	1.00
224_N	243_Q	2.066	1.00
252_S	285_T	2.063	1.00
213_D	252_S	2.052	1.00
72_R	76_Q	2.047	1.00
112_S	116_K	2.038	1.00
38_I	42_G	2.025	1.00
235_E	239_V	1.975	1.00
158_L	170_A	1.972	1.00
237_F	297_L	1.950	1.00
39_V	43_V	1.948	1.00
113_Q	117_V	1.911	1.00
256_L	278_L	1.899	1.00
39_V	42_G	1.893	1.00
67_E	70_V	1.871	1.00
27_F	298_K	1.865	1.00
60_I	63_E	1.862	1.00
151_M	155_L	1.857	1.00
229_R	232_T	1.829	1.00
234_Y	238_N	1.796	1.00
18_D	21_R	1.781	1.00
18_D	22_W	1.727	1.00
116_K	120_E	1.726	1.00
14_R	17_Y	1.718	1.00
74_A	78_A	1.694	1.00
23_D	297_L	1.692	1.00
147_A	151_M	1.688	1.00
220_R	223_E	1.672	1.00
69_D	73_D	1.667	1.00
66_A	71_M	1.636	1.00
239_V	242_T	1.617	1.00
210_S	284_G	1.586	1.00
112_S	115_L	1.584	1.00
43_V	189_S	1.580	1.00
220_R	243_Q	1.577	1.00
191_F	275_L	1.570	1.00
62_L	65_P	1.557	1.00
223_E	227_K	1.553	1.00
188_L	276_T	1.539	1.00
213_D	251_T	1.536	1.00
162_G	170_A	1.522	1.00
17_Y	21_R	1.514	1.00
19_F	26_A	1.507	1.00
69_D	72_R	1.496	1.00
148_M	152_A	1.489	1.00
263_Y	278_L	1.466	1.00
284_G	288_S	1.460	1.00
285_T	289_I	1.413	1.00
32_L	36_A	1.411	1.00
225_F	300_G	1.408	1.00
25_W	28_G	1.397	1.00
116_K	119_N	1.392	1.00
60_I	65_P	1.387	1.00
221_I	240_S	1.373	1.00
70_V	74_A	1.368	1.00
105_T	108_Q	1.366	1.00
59_E	62_L	1.365	1.00
144_Q	147_A	1.363	1.00
66_A	70_V	1.362	1.00
228_I	239_V	1.359	1.00
80_F	85_L	1.351	1.00
140_A	144_Q	1.340	1.00
144_Q	148_M	1.335	1.00
158_L	174_V	1.330	1.00
23_D	298_K	1.329	1.00
24_Y	298_K	1.329	1.00
221_I	296_A	1.328	1.00
70_V	73_D	1.313	1.00
225_F	233_P	1.313	1.00
228_I	236_I	1.312	1.00
73_D	76_Q	1.308	1.00
217_V	241_L	1.307	1.00
30_S	291_V	1.306	1.00
35_I	39_V	1.288	1.00
249_L	285_T	1.287	1.00
61_T	64_K	1.286	1.00
263_Y	275_L	1.277	1.00
58_I	61_T	1.269	1.00
224_N	228_I	1.268	1.00
68_I	71_M	1.264	1.00
24_Y	28_G	1.256	1.00
16_V	20_M	1.250	1.00
73_D	77_K	1.248	1.00
112_S	140_A	1.247	1.00
148_M	151_M	1.247	1.00
130_R	133_F	1.243	1.00
233_P	237_F	1.242	1.00
260_L	278_L	1.242	1.00
27_F	31_G	1.234	1.00
14_R	18_D	1.226	1.00
229_R	235_E	1.215	1.00
49_G	54_G	1.215	1.00
238_N	242_T	1.213	1.00
155_L	159_V	1.196	1.00
110_L	113_Q	1.185	1.00
74_A	77_K	1.183	1.00
71_M	78_A	1.183	1.00
71_M	74_A	1.182	1.00
196_D	199_I	1.179	1.00
225_F	296_A	1.176	1.00
59_E	63_E	1.163	1.00
239_V	243_Q	1.155	1.00
302_K	305_H	1.155	1.00
188_L	199_I	1.150	1.00
68_I	72_R	1.146	1.00
80_F	83_P	1.132	1.00
157_I	211_L	1.130	1.00
104_E	108_Q	1.129	1.00
101_A	105_T	1.123	1.00
101_A	104_E	1.120	1.00
104_E	107_G	1.117	1.00
193_I	275_L	1.097	1.00
20_M	297_L	1.055	1.00
221_I	237_F	1.055	1.00
294_A	297_L	1.037	1.00
188_L	193_I	1.035	1.00
268_P	271_E	1.035	1.00
21_R	24_Y	1.031	1.00
20_M	238_N	1.031	1.00
225_F	236_I	1.019	1.00
179_H	287_S	1.017	1.00
40_I	186_G	1.014	1.00
225_F	228_I	1.005	1.00
36_A	40_I	1.004	1.00
98_M	101_A	1.002	1.00
110_L	114_V	0.997	1.00
100_P	104_E	0.997	1.00
34_L	183_I	0.996	1.00
40_I	190_L	0.996	1.00
103_G	106_G	0.995	1.00
58_I	63_E	0.995	1.00
28_G	32_L	0.995	1.00
87_N	92_H	0.994	1.00
186_G	189_S	0.988	1.00
79_G	82_E	0.981	1.00
71_M	76_Q	0.981	1.00
31_G	35_I	0.980	1.00
170_A	173_V	0.978	1.00
235_E	238_N	0.976	1.00
85_L	89_G	0.972	1.00
40_I	189_S	0.972	1.00
59_E	64_K	0.961	1.00
86_Q	89_G	0.960	1.00
158_L	162_G	0.959	1.00
249_L	253_G	0.957	1.00
172_G	295_L	0.955	1.00
66_A	72_R	0.955	1.00
228_I	232_T	0.954	1.00
255_T	281_V	0.953	1.00
252_S	281_V	0.946	1.00
68_I	76_Q	0.943	1.00
34_L	38_I	0.942	1.00
108_Q	112_S	0.940	1.00
58_I	62_L	0.938	1.00
171_A	175_I	0.937	1.00
83_P	87_N	0.935	1.00
47_N	194_E	0.934	1.00
36_A	39_V	0.932	1.00
80_F	89_G	0.927	1.00
61_T	65_P	0.926	1.00
57_V	60_I	0.924	1.00
184_T	280_G	0.924	1.00
100_P	103_G	0.923	1.00
30_S	179_H	0.922	1.00
191_F	279_I	0.915	1.00
145_T	148_M	0.909	1.00
28_G	35_I	0.899	1.00
233_P	301_M	0.890	1.00
100_P	105_T	0.888	1.00
100_P	106_G	0.884	1.00
176_A	287_S	0.881	1.00
125_N	130_R	0.878	1.00
40_I	43_V	0.878	1.00
50_L	53_T	0.878	1.00
217_V	248_T	0.877	1.00
34_L	182_I	0.874	1.00
75_L	78_A	0.873	1.00
284_G	289_I	0.867	1.00
172_G	299_L	0.863	1.00
85_L	92_H	0.860	1.00
102_E	106_G	0.852	1.00
300_G	303_R	0.851	1.00
67_E	74_A	0.850	1.00
108_Q	113_Q	0.846	1.00
196_D	272_G	0.840	1.00
221_I	233_P	0.833	1.00
67_E	71_M	0.820	1.00
20_M	294_A	0.819	1.00
15_K	18_D	0.818	1.00
30_S	290_Y	0.816	1.00
100_P	107_G	0.812	1.00
172_G	292_A	0.808	1.00
153_A	157_I	0.807	1.00
168_R	302_K	0.805	1.00
68_I	75_L	0.801	1.00
214_S	292_A	0.798	1.00
209_Y	213_D	0.798	1.00
98_M	105_T	0.797	1.00
88_F	92_H	0.793	1.00
68_I	78_A	0.793	1.00
20_M	234_Y	0.788	1.00
72_R	75_L	0.787	1.00
29_I	36_A	0.782	1.00
278_L	282_S	0.782	1.00
18_D	26_A	0.779	1.00
212_N	254_T	0.776	1.00
232_T	236_I	0.776	1.00
26_A	29_I	0.775	1.00
166_E	169_L	0.770	1.00
294_A	298_K	0.769	1.00
275_L	279_I	0.769	1.00
88_F	93_D	0.763	1.00
122_T	126_A	0.761	1.00
57_V	61_T	0.761	1.00
59_E	65_P	0.759	1.00
29_I	33_L	0.757	1.00
86_Q	90_S	0.756	1.00
245_L	249_L	0.754	1.00
233_P	297_L	0.753	1.00
32_L	35_I	0.752	1.00
34_L	179_H	0.750	1.00
19_F	294_A	0.749	1.00
223_E	226_R	0.749	1.00
233_P	236_I	0.749	1.00
183_I	287_S	0.746	1.00
82_E	85_L	0.745	1.00
57_V	64_K	0.740	1.00
202_S	277_M	0.739	1.00
37_A	40_I	0.739	1.00
50_L	57_V	0.738	1.00
115_L	130_R	0.737	1.00
184_T	188_L	0.737	1.00
83_P	89_G	0.736	1.00
187_I	275_L	0.735	1.00
225_F	229_R	0.733	1.00
66_A	78_A	0.733	1.00
233_P	300_G	0.733	1.00
177_L	210_S	0.732	1.00
67_E	72_R	0.730	1.00
66_A	74_A	0.728	1.00
103_G	107_G	0.724	1.00
154_L	207_I	0.724	1.00
133_F	137_S	0.723	1.00
152_A	156_S	0.723	1.00
92_H	100_P	0.722	1.00
202_S	276_T	0.721	1.00
98_M	107_G	0.718	1.00
245_L	289_I	0.712	1.00
173_V	211_L	0.711	1.00
263_Y	271_E	0.711	1.00
26_A	30_S	0.706	1.00
118_I	128_V	0.706	1.00
271_E	275_L	0.705	1.00
98_M	104_E	0.703	1.00
49_G	53_T	0.699	1.00
24_Y	27_F	0.698	1.00
70_V	78_A	0.697	1.00
15_K	19_F	0.695	1.00
237_F	241_L	0.695	1.00
296_A	300_G	0.695	1.00
83_P	88_F	0.692	1.00
114_V	130_R	0.691	1.00
49_G	55_G	0.688	1.00
68_I	74_A	0.686	1.00
115_L	140_A	0.685	1.00
229_R	236_I	0.680	1.00
53_T	56_T	0.678	1.00
81_E	88_F	0.677	1.00
57_V	63_E	0.677	1.00
213_D	216_V	0.675	1.00
137_S	140_A	0.674	1.00
102_E	105_T	0.672	1.00
251_T	285_T	0.669	1.00
57_V	62_L	0.668	1.00
217_V	240_S	0.667	1.00
24_Y	35_I	0.667	1.00
222_R	225_F	0.667	1.00
179_H	291_V	0.665	1.00
21_R	25_W	0.664	1.00
122_T	128_V	0.662	1.00
115_L	133_F	0.661	1.00
259_I	277_M	0.658	1.00
172_G	214_S	0.658	1.00
208_G	212_N	0.653	1.00
71_M	77_K	0.652	1.00
98_M	102_E	0.651	1.00
25_W	29_I	0.647	1.00
72_R	78_A	0.647	1.00
301_M	305_H	0.643	1.00
212_N	255_T	0.643	1.00
187_I	283_I	0.642	1.00
91_S	95_M	0.641	1.00
41_M	46_F	0.639	1.00
217_V	288_S	0.639	1.00
38_I	182_I	0.639	1.00
209_Y	255_T	0.635	1.00
44_R	48_W	0.633	1.00
23_D	27_F	0.633	1.00
110_L	115_L	0.632	1.00
35_I	38_I	0.629	1.00
187_I	191_F	0.626	1.00
173_V	218_S	0.626	1.00
82_E	86_Q	0.626	1.00
176_A	214_S	0.623	1.00
100_P	110_L	0.622	1.00
52_F	55_G	0.621	1.00
72_R	77_K	0.620	1.00
193_I	272_G	0.619	1.00
197_L	200_V	0.618	1.00
97_R	100_P	0.618	1.00
92_H	98_M	0.617	1.00
83_P	86_Q	0.617	1.00
140_A	143_A	0.614	1.00
69_D	74_A	0.614	1.00
282_S	286_A	0.614	1.00
97_R	102_E	0.613	1.00
60_I	64_K	0.612	1.00
49_G	52_F	0.607	1.00
79_G	83_P	0.606	1.00
180_D	184_T	0.606	1.00
87_N	90_S	0.604	1.00
199_I	272_G	0.603	1.00
48_W	52_F	0.600	1.00
167_W	171_A	0.597	1.00
70_V	76_Q	0.597	1.00
16_V	241_L	0.597	1.00
198_T	269_V	0.596	1.00
80_F	87_N	0.595	1.00
128_V	133_F	0.593	1.00
68_I	77_K	0.593	1.00
34_L	37_A	0.593	1.00
18_D	25_W	0.591	1.00
251_T	255_T	0.591	1.00
98_M	110_L	0.590	1.00
92_H	95_M	0.590	1.00
37_A	186_G	0.590	1.00
121_S	124_Q	0.588	1.00
58_I	65_P	0.587	1.00
53_T	57_V	0.586	1.00
101_A	107_G	0.586	1.00
17_Y	235_E	0.585	1.00
67_E	76_Q	0.583	1.00
259_I	278_L	0.583	1.00
182_I	186_G	0.582	1.00
173_V	214_S	0.580	1.00
236_I	240_S	0.578	1.00
23_D	234_Y	0.576	1.00
291_V	295_L	0.576	1.00
216_V	247_R	0.574	1.00
186_G	190_L	0.572	1.00
286_A	290_Y	0.572	1.00
241_L	245_L	0.571	1.00
195_I	199_I	0.570	1.00
159_V	163_F	0.568	1.00
165_F	215_I	0.568	1.00
292_A	296_A	0.568	1.00
169_L	300_G	0.568	1.00
16_V	242_T	0.567	1.00
131_I	135_G	0.566	1.00
98_M	106_G	0.566	1.00
114_V	117_V	0.562	1.00
162_G	167_W	0.562	1.00
18_D	23_D	0.559	1.00
165_F	208_G	0.559	1.00
84_M	88_F	0.555	1.00
46_F	50_L	0.555	1.00
53_T	59_E	0.554	1.00
81_E	86_Q	0.553	1.00
252_S	256_L	0.552	1.00
191_F	194_E	0.551	1.00
213_D	284_G	0.549	1.00
149_A	153_A	0.548	1.00
167_W	170_A	0.546	1.00
111_G	118_I	0.545	1.00
84_M	87_N	0.544	1.00
80_F	88_F	0.544	1.00
176_A	292_A	0.544	1.00
225_F	232_T	0.542	1.00
152_A	155_L	0.541	1.00
69_D	76_Q	0.538	1.00
216_V	248_T	0.535	1.00
82_E	87_N	0.535	1.00
300_G	304_E	0.535	1.00
221_I	225_F	0.534	1.00
220_R	240_S	0.534	1.00
122_T	125_N	0.533	1.00
248_T	285_T	0.532	1.00
115_L	118_I	0.531	1.00
45_G	48_W	0.531	1.00
263_Y	274_S	0.530	1.00
124_Q	130_R	0.529	1.00
297_L	301_M	0.529	1.00
42_G	45_G	0.527	1.00
70_V	77_K	0.526	1.00
50_L	59_E	0.526	1.00
54_G	60_I	0.525	1.00
184_T	276_T	0.523	1.00
16_V	238_N	0.523	1.00
141_D	144_Q	0.521	1.00
244_T	247_R	0.520	1.00
67_E	75_L	0.512	1.00
212_N	216_V	0.512	1.00
260_L	264_L	0.511	1.00
206_V	277_M	0.510	1.00
47_N	50_L	0.508	1.00
193_I	271_E	0.504	1.00
48_W	55_G	0.504	1.00
79_G	89_G	0.502	1.00
142_L	197_L	0.501	1.00
234_Y	237_F	0.501	1.00
279_I	283_I	0.501	1.00
85_L	88_F	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
3aqpA	1	0.8947	100	0.363	Contact Map
3w9iA	3	0.9257	100	0.384	Contact Map
4dx5A	3	0.9536	100	0.389	Contact Map
4mt1A	3	0.904	100	0.39	Contact Map
4k0jA	3	0.8916	100	0.4	Contact Map
3ne5A	3	0.9102	100	0.401	Contact Map
4j72A	2	0.1238	48.9	0.929	Contact Map
4ea3A	2	0.7399	17.6	0.944	Contact Map
2kncA	1	0.1672	13.3	0.947	Contact Map
2m20A	2	0.1548	9.8	0.95	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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