YEAC - BACSU - GREMLIN Contacts

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YEAC - Uncharacterized protein YeaC

UniProt:	P94474	Sequences: MAYQEDLHPLLGKAVEHINRVMVGKRDIAILSLAALLAKGHVLLEDVPGVGKTMMVRALAKSIGADFKRIQFTPDLLPSDVTGVSIYNAKTMEFEYRPGPIMGNIVLADEINRTSPKTQSALLEAMEEGSVTVDGHTMQLADPFFVMATQNPVEYEGTYPLPEAQLDRFLFKLRMGYPSFNEELDVLSLQEKSHPIETLEPVIAKEDFIFLQREVQNVRADDSIKEYIVEIVQKTRQHPSVQLGVSPRGSIALMKAAQAYALLHHRDYVIPDDIQYLAPFTLPHRMMLHPEAKFEGIQAEAIVREIMSAVKVPVQRSAVR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	320 (276)
Sequences:	21733 (12322)
Seq/√Len:	741.7

ECOLI - RAVA YEHL RUVB RARA
BACSU - YEAC RUVB YRVN YOJN YPLP
HALSA - Q9HSH7 GVPN2 RFCS RFCL GVPN1 Q9HPM3 Q9HPV0
SULSO - Q97W74 RFCS RFCL Q97V06

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
266_R	273_D	3.905	1.00
204_A	207_D	3.694	1.00
179_S	182_E	3.653	1.00
103_G	106_V	2.973	1.00
266_R	270_I	2.749	1.00
19_N	26_R	2.685	1.00
111_I	148_A	2.498	1.00
188_S	225_K	2.402	1.00
130_S	139_Q	2.363	1.00
245_V	249_G	2.341	1.00
28_I	55_M	2.321	1.00
17_H	20_R	2.285	1.00
88_N	95_E	2.282	1.00
185_D	189_L	2.156	1.00
185_D	188_S	2.120	1.00
32_S	59_L	2.076	1.00
107_L	149_T	2.008	1.00
15_V	30_I	2.005	1.00
224_I	228_I	1.996	1.00
210_F	213_R	1.988	1.00
56_V	147_M	1.955	1.00
77_L	80_D	1.953	1.00
218_V	221_D	1.923	1.00
34_A	260_Y	1.899	1.00
209_I	213_R	1.898	1.00
207_D	210_F	1.861	1.00
235_T	238_H	1.854	1.00
278_A	282_L	1.844	1.00
210_F	214_E	1.842	1.00
260_Y	264_H	1.841	1.00
229_V	232_V	1.806	1.00
31_L	280_F	1.806	1.00
88_N	91_T	1.805	1.00
129_G	143_P	1.776	1.00
54_M	58_A	1.729	1.00
209_I	212_Q	1.726	1.00
205_K	209_I	1.724	1.00
228_I	232_V	1.709	1.00
184_L	188_S	1.680	1.00
232_V	235_T	1.668	1.00
218_V	222_D	1.623	1.00
260_Y	276_Y	1.622	1.00
219_R	222_D	1.620	1.00
233_Q	237_Q	1.617	1.00
180_F	184_L	1.610	1.00
125_A	140_L	1.601	1.00
206_E	210_F	1.597	1.00
184_L	226_E	1.590	1.00
180_F	230_E	1.563	1.00
225_K	229_V	1.548	1.00
35_A	42_V	1.545	1.00
231_I	234_K	1.541	1.00
67_F	71_Q	1.541	1.00
96_Y	133_V	1.539	1.00
229_V	233_Q	1.520	1.00
226_E	230_E	1.516	1.00
231_I	235_T	1.510	1.00
68_K	71_Q	1.492	1.00
254_M	258_Q	1.473	1.00
26_R	182_E	1.465	1.00
148_A	169_F	1.460	1.00
281_T	288_L	1.446	1.00
188_S	222_D	1.443	1.00
236_R	239_P	1.429	1.00
270_I	273_D	1.428	1.00
241_V	247_P	1.413	1.00
30_I	276_Y	1.412	1.00
21_V	58_A	1.407	1.00
57_R	128_E	1.401	1.00
190_Q	194_H	1.392	1.00
214_E	217_N	1.388	1.00
220_A	223_S	1.387	1.00
284_H	288_L	1.385	1.00
235_T	239_P	1.377	1.00
32_S	42_V	1.373	1.00
220_A	254_M	1.370	1.00
207_D	211_L	1.351	1.00
213_R	216_Q	1.346	1.00
90_K	93_E	1.345	1.00
287_M	291_E	1.345	1.00
271_P	275_Q	1.329	1.00
269_V	273_D	1.301	1.00
28_I	175_M	1.299	1.00
222_D	225_K	1.295	1.00
289_H	292_A	1.283	1.00
112_N	150_Q	1.283	1.00
251_I	255_K	1.282	1.00
276_Y	279_P	1.280	1.00
264_H	273_D	1.280	1.00
232_V	236_R	1.278	1.00
30_I	260_Y	1.272	1.00
255_K	259_A	1.270	1.00
190_Q	195_P	1.269	1.00
212_Q	215_V	1.268	1.00
276_Y	280_F	1.264	1.00
124_E	128_E	1.263	1.00
203_I	207_D	1.254	1.00
25_K	28_I	1.250	1.00
257_A	269_V	1.242	1.00
183_E	212_Q	1.238	1.00
208_F	212_Q	1.231	1.00
45_E	172_K	1.229	1.00
193_S	196_I	1.205	1.00
254_M	257_A	1.203	1.00
69_R	72_F	1.183	1.00
279_P	283_P	1.174	1.00
31_L	173_L	1.174	1.00
232_V	250_S	1.166	1.00
69_R	100_P	1.166	1.00
101_I	131_V	1.157	1.00
273_D	276_Y	1.153	1.00
213_R	217_N	1.152	1.00
214_E	262_L	1.150	1.00
202_V	206_E	1.135	1.00
202_V	205_K	1.131	1.00
72_F	108_A	1.130	1.00
220_A	224_I	1.127	1.00
17_H	62_S	1.124	1.00
43_L	111_I	1.122	1.00
274_I	277_L	1.119	1.00
203_I	236_R	1.119	1.00
234_K	237_Q	1.102	1.00
206_E	209_I	1.100	1.00
82_T	121_A	1.098	1.00
32_S	55_M	1.093	1.00
115_S	118_T	1.088	1.00
208_F	211_L	1.082	1.00
170_L	252_A	1.080	1.00
226_E	229_V	1.077	1.00
225_K	228_I	1.073	1.00
89_A	93_E	1.071	1.00
286_M	289_H	1.071	1.00
22_M	58_A	1.060	1.00
222_D	226_E	1.057	1.00
212_Q	216_Q	1.055	1.00
211_L	214_E	1.053	1.00
200_E	207_D	1.051	1.00
281_T	284_H	1.047	1.00
288_L	292_A	1.045	1.00
132_T	139_Q	1.043	1.00
282_L	286_M	1.039	1.00
88_N	92_M	1.038	1.00
277_L	280_F	1.034	1.00
108_A	146_V	1.029	1.00
207_D	213_R	1.027	1.00
277_L	285_R	1.025	1.00
13_K	18_I	1.024	1.00
233_Q	236_R	1.021	1.00
71_Q	74_P	1.020	1.00
278_A	281_T	1.018	1.00
14_A	62_S	1.013	1.00
274_I	281_T	1.013	1.00
267_D	271_P	1.011	1.00
31_L	34_A	1.008	1.00
252_A	256_A	1.006	1.00
285_R	292_A	0.999	1.00
269_V	274_I	0.999	1.00
257_A	261_A	0.999	1.00
224_I	227_Y	0.996	1.00
219_R	223_S	0.993	1.00
98_P	101_I	0.989	1.00
225_K	232_V	0.988	1.00
67_F	107_L	0.983	1.00
278_A	284_H	0.983	1.00
36_L	63_I	0.974	1.00
170_L	256_A	0.972	1.00
228_I	231_I	0.972	1.00
14_A	33_L	0.971	1.00
184_L	229_V	0.966	1.00
230_E	233_Q	0.965	1.00
13_K	16_E	0.964	1.00
201_P	204_A	0.964	1.00
211_L	215_V	0.963	1.00
192_K	195_P	0.959	1.00
277_L	281_T	0.958	1.00
98_P	102_M	0.956	1.00
245_V	282_L	0.954	1.00
221_D	225_K	0.945	1.00
75_D	80_D	0.942	1.00
244_G	247_P	0.936	1.00
286_M	290_P	0.935	1.00
37_L	263_L	0.930	1.00
187_L	190_Q	0.921	1.00
85_S	134_D	0.915	1.00
200_E	204_A	0.915	1.00
178_P	182_E	0.913	1.00
34_A	256_A	0.912	1.00
104_N	143_P	0.911	1.00
99_G	103_G	0.911	1.00
190_Q	193_S	0.910	1.00
64_G	67_F	0.909	1.00
211_L	216_Q	0.908	1.00
259_A	263_L	0.904	1.00
221_D	224_I	0.896	1.00
230_E	234_K	0.895	1.00
199_L	202_V	0.894	1.00
285_R	289_H	0.894	1.00
258_Q	262_L	0.893	1.00
247_P	250_S	0.893	1.00
30_I	264_H	0.891	1.00
255_K	258_Q	0.881	1.00
96_Y	99_G	0.876	1.00
249_G	256_A	0.875	1.00
98_P	138_M	0.870	1.00
180_F	233_Q	0.869	1.00
277_L	284_H	0.868	1.00
89_A	92_M	0.863	1.00
228_I	235_T	0.858	1.00
204_A	208_F	0.856	1.00
76_L	80_D	0.854	1.00
129_G	142_D	0.852	1.00
226_E	232_V	0.852	1.00
224_I	232_V	0.852	1.00
27_D	31_L	0.846	1.00
274_I	278_A	0.844	1.00
285_R	291_E	0.836	1.00
281_T	285_R	0.833	1.00
15_V	19_N	0.832	1.00
272_D	275_Q	0.827	1.00
182_E	185_D	0.826	1.00
227_Y	231_I	0.821	1.00
273_D	277_L	0.818	1.00
219_R	224_I	0.816	1.00
246_S	249_G	0.815	1.00
96_Y	100_P	0.813	1.00
77_L	82_T	0.811	1.00
218_V	223_S	0.810	1.00
285_R	288_L	0.804	1.00
206_E	215_V	0.803	1.00
42_V	147_M	0.800	1.00
257_A	263_L	0.788	1.00
228_I	254_M	0.783	1.00
283_P	287_M	0.780	1.00
156_E	159_Y	0.778	1.00
223_S	226_E	0.777	1.00
36_L	59_L	0.774	1.00
120_S	123_L	0.774	1.00
65_A	72_F	0.773	1.00
202_V	209_I	0.772	1.00
66_D	103_G	0.767	1.00
231_I	236_R	0.767	1.00
139_Q	142_D	0.767	1.00
200_E	203_I	0.760	1.00
201_P	205_K	0.759	1.00
207_D	214_E	0.758	1.00
229_V	236_R	0.755	1.00
75_D	79_S	0.755	1.00
267_D	270_I	0.754	1.00
204_A	211_L	0.751	1.00
204_A	210_F	0.750	1.00
195_P	198_T	0.749	1.00
227_Y	232_V	0.748	1.00
283_P	286_M	0.748	1.00
202_V	207_D	0.743	1.00
93_E	97_R	0.743	1.00
111_I	165_Q	0.734	1.00
227_Y	230_E	0.732	1.00
218_V	225_K	0.726	1.00
183_E	187_L	0.719	1.00
210_F	217_N	0.718	1.00
76_L	82_T	0.718	1.00
218_V	224_I	0.716	1.00
274_I	288_L	0.712	1.00
208_F	215_V	0.710	1.00
211_L	262_L	0.705	1.00
257_A	274_I	0.703	1.00
280_F	283_P	0.702	1.00
245_V	248_R	0.700	1.00
28_I	44_L	0.698	1.00
181_N	185_D	0.698	1.00
189_L	195_P	0.695	1.00
221_D	229_V	0.692	1.00
74_P	121_A	0.687	1.00
59_L	147_M	0.687	1.00
93_E	99_G	0.686	1.00
261_A	265_H	0.684	1.00
259_A	262_L	0.682	1.00
207_D	212_Q	0.681	1.00
28_I	173_L	0.681	1.00
272_D	276_Y	0.680	1.00
22_M	55_M	0.680	1.00
94_F	99_G	0.679	1.00
36_L	39_K	0.675	1.00
256_A	259_A	0.675	1.00
232_V	239_P	0.671	1.00
101_I	125_A	0.670	1.00
260_Y	277_L	0.669	1.00
46_D	176_G	0.669	1.00
274_I	292_A	0.664	1.00
110_E	151_N	0.663	1.00
23_V	189_L	0.659	1.00
44_L	175_M	0.656	1.00
91_T	95_E	0.655	1.00
200_E	210_F	0.654	1.00
166_L	172_K	0.651	1.00
205_K	212_Q	0.650	1.00
232_V	238_H	0.648	1.00
96_Y	138_M	0.646	1.00
58_A	62_S	0.642	1.00
234_K	238_H	0.639	1.00
198_T	201_P	0.636	1.00
15_V	26_R	0.635	1.00
244_G	248_R	0.635	1.00
204_A	212_Q	0.634	1.00
180_F	216_Q	0.633	1.00
180_F	212_Q	0.630	1.00
45_E	174_R	0.630	1.00
66_D	71_Q	0.629	1.00
19_N	61_K	0.629	1.00
225_K	236_R	0.625	1.00
47_V	50_V	0.624	1.00
221_D	232_V	0.624	1.00
284_H	292_A	0.623	1.00
14_A	203_I	0.622	1.00
43_L	150_Q	0.621	1.00
31_L	38_A	0.621	1.00
258_Q	261_A	0.619	1.00
194_H	199_L	0.618	1.00
260_Y	263_L	0.618	1.00
282_L	285_R	0.617	1.00
288_L	291_E	0.616	1.00
279_P	282_L	0.614	1.00
264_H	272_D	0.614	1.00
229_V	234_K	0.614	1.00
191_E	195_P	0.613	1.00
100_P	103_G	0.613	1.00
178_P	183_E	0.612	1.00
224_I	235_T	0.612	1.00
243_L	246_S	0.611	1.00
92_M	99_G	0.611	1.00
249_G	252_A	0.610	1.00
228_I	233_Q	0.609	1.00
97_R	101_I	0.607	1.00
274_I	284_H	0.607	1.00
31_L	39_K	0.606	1.00
200_E	208_F	0.605	1.00
206_E	213_R	0.605	1.00
277_L	282_L	0.604	1.00
28_I	31_L	0.603	1.00
280_F	291_E	0.600	1.00
203_I	206_E	0.600	1.00
99_G	102_M	0.599	1.00
37_L	215_V	0.597	1.00
116_P	119_Q	0.596	1.00
206_E	212_Q	0.593	1.00
26_R	29_A	0.592	1.00
192_K	196_I	0.591	1.00
208_F	214_E	0.590	1.00
23_V	185_D	0.589	1.00
29_A	33_L	0.586	1.00
251_I	254_M	0.586	1.00
220_A	228_I	0.580	1.00
43_L	148_A	0.580	1.00
189_L	192_K	0.579	1.00
105_I	145_F	0.578	1.00
270_I	277_L	0.578	1.00
261_A	264_H	0.576	1.00
221_D	226_E	0.573	1.00
33_L	37_L	0.573	1.00
269_V	272_D	0.572	1.00
46_D	51_G	0.571	1.00
26_R	30_I	0.571	1.00
15_V	18_I	0.569	1.00
268_Y	272_D	0.567	1.00
284_H	291_E	0.566	1.00
50_V	175_M	0.559	1.00
227_Y	234_K	0.559	1.00
261_A	273_D	0.557	1.00
277_L	291_E	0.556	1.00
184_L	225_K	0.554	1.00
57_R	61_K	0.554	1.00
67_F	70_I	0.551	1.00
13_K	17_H	0.550	1.00
34_A	277_L	0.549	1.00
46_D	174_R	0.547	1.00
199_L	203_I	0.547	1.00
229_V	239_P	0.545	1.00
220_A	229_V	0.544	1.00
96_Y	140_L	0.544	1.00
123_L	126_M	0.543	1.00
31_L	36_L	0.542	1.00
218_V	229_V	0.540	1.00
201_P	208_F	0.538	1.00
34_A	38_A	0.535	1.00
228_I	234_K	0.535	1.00
287_M	290_P	0.534	1.00
121_A	124_E	0.533	1.00
134_D	138_M	0.533	1.00
220_A	225_K	0.532	1.00
203_I	211_L	0.530	1.00
183_E	186_V	0.530	1.00
226_E	235_T	0.528	1.00
31_L	37_L	0.526	1.00
119_Q	165_Q	0.525	1.00
280_F	284_H	0.525	1.00
255_K	262_L	0.522	1.00
120_S	162_P	0.521	1.00
27_D	176_G	0.518	1.00
275_Q	279_P	0.517	1.00
101_I	106_V	0.516	1.00
196_I	199_L	0.515	1.00
191_E	196_I	0.515	1.00
226_E	236_R	0.513	1.00
39_K	142_D	0.513	1.00
60_A	105_I	0.509	1.00
248_R	251_I	0.509	1.00
169_F	172_K	0.507	1.00
257_A	260_Y	0.506	1.00
262_L	265_H	0.504	1.00
118_T	121_A	0.503	1.00
236_R	240_S	0.502	1.00
274_I	282_L	0.500	1.00
116_P	120_S	0.500	1.00
200_E	216_Q	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
3vkgA	2	0.9781	100	0.367	Contact Map
4rh7A	1	0.9531	100	0.371	Contact Map
2r44A	1	0.9812	100	0.447	Contact Map
3ja83	1	0.8656	100	0.472	Contact Map
4akgA	2	0.8438	100	0.48	Contact Map
4r7yA	3	0.8844	100	0.484	Contact Map
3ja82	1	0.9344	100	0.5	Contact Map
3ja87	1	0.8938	100	0.51	Contact Map
3ja86	1	0.9	100	0.515	Contact Map
3ja84	1	0.8781	100	0.519	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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