TAS - ECOLI - GREMLIN Contacts

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TAS - Protein tas

UniProt:	P0A9T4	Sequences: MQYHRIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPETQGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRLQTDYLDLYQVHWPQRPTNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSNETAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFGTLTGKYLNGAKPAGARNTLFSRFTRYSGEQTQKAVAAYVDIARRHGLDPAQMALAFVRRQPFVASTLLGATTMDQLKTNIESLHLELSEDVLAEIEAVHQVYTYPAP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13093
Length:	346 (287)
Sequences:	26863 (16658)
Seq/√Len:	983.3

ECOLI - TAS YAJO YDJG YDHF GPR YEAE YDBC DKGA DKGB
BACSU - GS69 YRPG IOLS YCCK YCSN YQKF YTBE GR
HALSA - Q9HPH9 Q9HQU7 Q9HNN3 Q9HSE6 Q9HS02 Q9HQT1
SULSO - Q97UG6 Q97ZZ1 Q97UJ7 Q97UV9 Q97V56 Q97U17

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
38_Y	316_K	3.585	1.00
29_E	71_N	3.154	1.00
115_H	172_K	3.041	1.00
74_A	122_Q	3.041	1.00
284_H	330_V	2.922	1.00
327_S	330_V	2.552	1.00
111_R	170_A	2.510	1.00
38_Y	42_Q	2.505	1.00
114_L	167_Y	2.500	1.00
283_R	333_E	2.474	1.00
111_R	166_E	2.360	1.00
5_R	12_E	2.297	1.00
165_A	169_R	2.296	1.00
278_V	282_R	2.162	1.00
125_Y	174_R	2.131	1.00
64_L	67_T	2.083	1.00
328_E	332_A	2.035	1.00
298_R	331_L	2.032	1.00
78_S	81_K	2.001	1.00
17_G	46_L	1.940	1.00
4_H	15_T	1.932	1.00
283_R	330_V	1.913	1.00
42_Q	316_K	1.898	1.00
276_A	279_D	1.861	1.00
107_R	166_E	1.858	1.00
130_Q	203_T	1.855	1.00
86_S	126_L	1.855	1.00
279_D	333_E	1.848	1.00
286_L	324_L	1.847	1.00
166_E	169_R	1.832	1.00
166_E	170_A	1.820	1.00
312_M	316_K	1.803	1.00
28_S	31_D	1.802	1.00
38_Y	312_M	1.781	1.00
332_A	336_A	1.767	1.00
222_V	226_E	1.752	1.00
33_H	71_N	1.738	1.00
88_V	110_I	1.719	1.00
163_A	166_E	1.711	1.00
39_A	44_I	1.707	1.00
187_M	191_H	1.707	1.00
320_E	323_H	1.702	1.00
42_Q	319_I	1.688	1.00
116_D	120_R	1.672	1.00
107_R	111_R	1.670	1.00
67_T	120_R	1.665	1.00
33_H	72_W	1.662	1.00
287_D	317_T	1.656	1.00
223_S	230_L	1.652	1.00
88_V	129_Y	1.647	1.00
114_L	129_Y	1.640	1.00
20_T	47_I	1.637	1.00
84_I	123_T	1.624	1.00
111_R	115_H	1.615	1.00
130_Q	231_L	1.605	1.00
165_A	199_P	1.604	1.00
112_E	116_D	1.593	1.00
294_A	324_L	1.590	1.00
86_S	117_S	1.587	1.00
85_A	130_Q	1.575	1.00
29_E	33_H	1.573	1.00
31_D	34_A	1.555	1.00
286_L	290_Q	1.510	1.00
51_E	113_A	1.508	1.00
33_H	37_D	1.499	1.00
299_Q	335_E	1.497	1.00
38_Y	41_A	1.496	1.00
218_G	221_E	1.493	1.00
36_L	72_W	1.478	1.00
224_Q	300_P	1.472	1.00
182_T	185_G	1.470	1.00
229_E	304_S	1.461	1.00
11_L	175_Y	1.455	1.00
114_L	126_L	1.445	1.00
187_M	222_V	1.444	1.00
40_V	82_L	1.421	1.00
276_A	333_E	1.378	1.00
173_I	176_I	1.376	1.00
11_L	83_I	1.366	1.00
111_R	163_A	1.365	1.00
190_L	226_E	1.365	1.00
286_L	291_M	1.349	1.00
126_L	173_I	1.348	1.00
183_A	222_V	1.347	1.00
333_E	336_A	1.343	1.00
116_D	119_K	1.338	1.00
70_G	122_Q	1.329	1.00
37_D	41_A	1.313	1.00
167_Y	173_I	1.299	1.00
221_E	225_Y	1.297	1.00
187_M	225_Y	1.291	1.00
71_N	122_Q	1.290	1.00
107_R	162_D	1.285	1.00
279_D	283_R	1.282	1.00
67_T	71_N	1.269	1.00
316_K	320_E	1.266	1.00
175_Y	202_V	1.261	1.00
287_D	290_Q	1.260	1.00
47_I	69_V	1.260	1.00
134_P	185_G	1.260	1.00
115_H	119_K	1.260	1.00
206_N	230_L	1.259	1.00
190_L	222_V	1.257	1.00
313_D	316_K	1.245	1.00
224_Q	301_F	1.231	1.00
207_P	212_N	1.230	1.00
131_V	164_L	1.223	1.00
168_Q	199_P	1.216	1.00
45_N	83_I	1.210	1.00
34_A	312_M	1.207	1.00
280_I	291_M	1.205	1.00
5_R	10_S	1.205	1.00
294_A	298_R	1.201	1.00
35_Q	315_L	1.199	1.00
128_L	203_T	1.198	1.00
278_V	288_P	1.194	1.00
30_A	34_A	1.192	1.00
210_L	334_I	1.187	1.00
275_A	278_V	1.184	1.00
34_A	38_Y	1.180	1.00
46_L	85_A	1.177	1.00
79_R	123_T	1.176	1.00
309_A	315_L	1.174	1.00
66_E	117_S	1.170	1.00
158_L	192_L	1.163	1.00
83_I	128_L	1.162	1.00
121_L	126_L	1.147	1.00
164_L	176_I	1.127	1.00
275_A	279_D	1.109	1.00
296_V	305_T	1.104	1.00
290_Q	320_E	1.103	1.00
20_T	69_V	1.099	1.00
79_R	125_Y	1.095	1.00
15_T	297_R	1.095	1.00
279_D	282_R	1.094	1.00
159_D	162_D	1.084	1.00
194_D	200_R	1.081	1.00
37_D	72_W	1.077	1.00
107_R	159_D	1.077	1.00
73_L	82_L	1.076	1.00
115_H	170_A	1.074	1.00
109_N	112_E	1.072	1.00
46_L	231_L	1.072	1.00
162_D	166_E	1.069	1.00
67_T	119_K	1.067	1.00
246_L	278_V	1.063	1.00
107_R	163_A	1.048	1.00
309_A	314_Q	1.047	1.00
290_Q	317_T	1.045	1.00
15_T	322_L	1.045	1.00
178_V	201_I	1.043	1.00
14_S	45_N	1.040	1.00
187_M	226_E	1.040	1.00
91_P	104_A	1.039	1.00
14_S	44_I	1.030	1.00
108_K	112_E	1.025	1.00
36_L	47_I	1.024	1.00
220_A	224_Q	1.015	1.00
186_V	228_V	1.014	1.00
168_Q	202_V	1.011	1.00
158_L	188_R	1.008	1.00
167_Y	172_K	1.007	1.00
277_Y	288_P	1.005	1.00
208_Y	299_Q	1.005	1.00
176_I	201_I	1.002	1.00
74_A	77_G	0.999	1.00
315_L	319_I	0.999	1.00
111_R	114_L	0.999	1.00
165_A	168_Q	0.995	1.00
169_R	194_D	0.986	1.00
163_A	167_Y	0.972	1.00
297_R	321_S	0.964	1.00
9_S	202_V	0.960	1.00
42_Q	320_E	0.960	1.00
40_V	78_S	0.956	1.00
51_E	109_N	0.954	1.00
329_D	332_A	0.954	1.00
215_F	230_L	0.954	1.00
188_R	191_H	0.947	1.00
111_R	167_Y	0.946	1.00
210_L	292_A	0.941	1.00
332_A	335_E	0.936	1.00
224_Q	302_V	0.931	1.00
299_Q	331_L	0.926	1.00
127_D	174_R	0.925	1.00
317_T	320_E	0.923	1.00
268_E	272_K	0.922	1.00
167_Y	170_A	0.919	1.00
203_T	231_L	0.915	1.00
188_R	192_L	0.915	1.00
162_D	165_A	0.915	1.00
34_A	37_D	0.913	1.00
9_S	175_Y	0.913	1.00
178_V	186_V	0.908	1.00
183_A	187_M	0.904	1.00
85_A	128_L	0.898	1.00
217_V	221_E	0.894	1.00
313_D	317_T	0.888	1.00
280_I	284_H	0.886	1.00
246_L	275_A	0.881	1.00
231_L	304_S	0.878	1.00
180_N	233_Y	0.876	1.00
31_D	312_M	0.871	1.00
106_D	109_N	0.868	1.00
329_D	333_E	0.867	1.00
220_A	230_L	0.862	1.00
44_I	319_I	0.860	1.00
18_L	39_A	0.855	1.00
298_R	328_E	0.854	1.00
221_E	224_Q	0.854	1.00
298_R	325_E	0.851	1.00
20_T	65_T	0.848	1.00
247_N	275_A	0.847	1.00
51_E	120_R	0.846	1.00
29_E	68_Y	0.846	1.00
229_E	303_A	0.843	1.00
276_A	337_V	0.842	1.00
29_E	64_L	0.839	1.00
113_A	116_D	0.835	1.00
110_I	167_Y	0.834	1.00
311_T	314_Q	0.833	1.00
161_L	189_Y	0.833	1.00
66_E	120_R	0.826	1.00
112_E	115_H	0.826	1.00
204_I	223_S	0.822	1.00
18_L	23_F	0.818	1.00
310_T	314_Q	0.814	1.00
232_A	305_T	0.812	1.00
133_W	180_N	0.810	1.00
282_R	285_G	0.791	1.00
272_K	275_A	0.788	1.00
16_L	297_R	0.785	1.00
178_V	181_E	0.781	1.00
326_L	331_L	0.781	1.00
37_D	78_S	0.777	1.00
271_Q	275_A	0.776	1.00
78_S	82_L	0.776	1.00
161_L	201_I	0.776	1.00
284_H	327_S	0.776	1.00
213_R	216_E	0.774	1.00
30_A	33_H	0.771	1.00
23_F	35_Q	0.771	1.00
36_L	69_V	0.769	1.00
222_V	225_Y	0.768	1.00
36_L	40_V	0.767	1.00
17_G	307_L	0.761	1.00
17_G	304_S	0.759	1.00
49_V	69_V	0.756	1.00
35_Q	312_M	0.756	1.00
37_D	77_G	0.752	1.00
161_L	176_I	0.751	1.00
213_R	335_E	0.751	1.00
157_L	192_L	0.750	1.00
235_C	307_L	0.747	1.00
265_Y	268_E	0.745	1.00
110_I	160_T	0.738	1.00
80_E	125_Y	0.738	1.00
280_I	330_V	0.736	1.00
85_A	231_L	0.736	1.00
32_A	68_Y	0.732	1.00
8_H	227_G	0.729	1.00
118_L	172_K	0.726	1.00
164_L	168_Q	0.725	1.00
289_A	317_T	0.725	1.00
105_L	131_V	0.720	1.00
232_A	235_C	0.717	1.00
223_S	228_V	0.714	1.00
40_V	47_I	0.714	1.00
272_K	276_A	0.711	1.00
160_T	163_A	0.710	1.00
294_A	321_S	0.709	1.00
208_Y	296_V	0.708	1.00
183_A	218_G	0.707	1.00
51_E	116_D	0.704	1.00
64_L	68_Y	0.703	1.00
213_R	338_H	0.702	1.00
291_M	326_L	0.700	1.00
211_L	274_V	0.695	1.00
277_Y	334_I	0.692	1.00
118_L	123_T	0.689	1.00
40_V	81_K	0.688	1.00
295_F	335_E	0.684	1.00
283_R	327_S	0.682	1.00
215_F	220_A	0.680	1.00
8_H	202_V	0.680	1.00
157_L	160_T	0.676	1.00
117_S	129_Y	0.676	1.00
274_V	278_V	0.673	1.00
6_I	229_E	0.670	1.00
280_I	337_V	0.669	1.00
178_V	204_I	0.669	1.00
293_L	321_S	0.669	1.00
211_L	240_T	0.664	1.00
156_S	159_D	0.663	1.00
326_L	330_V	0.662	1.00
23_F	32_A	0.661	1.00
45_N	81_K	0.661	1.00
13_V	46_L	0.659	1.00
187_M	190_L	0.658	1.00
247_N	268_E	0.657	1.00
40_V	45_N	0.657	1.00
286_L	320_E	0.655	1.00
284_H	291_M	0.655	1.00
130_Q	177_G	0.653	1.00
190_L	200_R	0.650	1.00
291_M	324_L	0.647	1.00
49_V	65_T	0.646	1.00
208_Y	220_A	0.646	1.00
88_V	105_L	0.644	1.00
280_I	333_E	0.642	1.00
134_P	181_E	0.641	1.00
135_Q	154_A	0.639	1.00
235_C	296_V	0.638	1.00
114_L	163_A	0.636	1.00
219_L	223_S	0.635	1.00
111_R	172_K	0.634	1.00
240_T	274_V	0.630	1.00
190_L	228_V	0.628	1.00
291_M	330_V	0.627	1.00
210_L	338_H	0.626	1.00
73_L	78_S	0.626	1.00
178_V	189_Y	0.626	1.00
330_V	333_E	0.624	1.00
291_M	334_I	0.622	1.00
277_Y	292_A	0.621	1.00
208_Y	213_R	0.619	1.00
296_V	303_A	0.619	1.00
168_Q	173_I	0.617	1.00
104_A	109_N	0.616	1.00
185_G	188_R	0.616	1.00
292_A	296_V	0.615	1.00
17_G	306_L	0.614	1.00
281_A	291_M	0.612	1.00
314_Q	317_T	0.611	1.00
110_I	163_A	0.610	1.00
69_V	72_W	0.609	1.00
165_A	176_I	0.609	1.00
286_L	294_A	0.608	1.00
42_Q	315_L	0.607	1.00
290_Q	324_L	0.607	1.00
271_Q	274_V	0.606	1.00
232_A	302_V	0.605	1.00
156_S	188_R	0.604	1.00
86_S	129_Y	0.604	1.00
297_R	305_T	0.603	1.00
131_V	160_T	0.602	1.00
11_L	174_R	0.602	1.00
21_M	234_S	0.602	1.00
168_Q	176_I	0.602	1.00
47_I	73_L	0.601	1.00
126_L	129_Y	0.596	1.00
135_Q	155_V	0.596	1.00
35_Q	309_A	0.595	1.00
40_V	72_W	0.594	1.00
87_K	132_H	0.590	1.00
294_A	325_E	0.589	1.00
51_E	92_S	0.588	1.00
88_V	113_A	0.588	1.00
63_G	120_R	0.587	1.00
183_A	219_L	0.586	1.00
177_G	203_T	0.584	1.00
48_D	205_Q	0.582	1.00
33_H	68_Y	0.580	1.00
176_I	199_P	0.580	1.00
293_L	318_N	0.577	1.00
13_V	304_S	0.576	1.00
129_Y	173_I	0.575	1.00
168_Q	200_R	0.574	1.00
168_Q	175_Y	0.573	1.00
208_Y	216_E	0.572	1.00
184_F	187_M	0.572	1.00
216_E	221_E	0.570	1.00
93_R	102_D	0.570	1.00
39_A	47_I	0.569	1.00
128_L	177_G	0.566	1.00
165_A	194_D	0.565	1.00
264_R	267_G	0.565	1.00
165_A	193_A	0.565	1.00
66_E	86_S	0.564	1.00
54_P	64_L	0.563	1.00
206_N	219_L	0.563	1.00
6_I	9_S	0.560	1.00
158_L	162_D	0.560	1.00
155_V	159_D	0.560	1.00
46_L	83_I	0.558	1.00
235_C	293_L	0.558	1.00
281_A	284_H	0.556	1.00
312_M	315_L	0.555	1.00
193_A	201_I	0.554	1.00
18_L	35_Q	0.552	1.00
161_L	193_A	0.552	1.00
214_S	217_V	0.544	1.00
24_G	65_T	0.544	1.00
114_L	118_L	0.543	1.00
17_G	231_L	0.543	1.00
284_H	324_L	0.542	1.00
118_L	124_D	0.539	1.00
181_E	186_V	0.539	1.00
99_I	102_D	0.537	1.00
67_T	122_Q	0.533	1.00
16_L	322_L	0.532	1.00
157_L	185_G	0.529	1.00
31_D	313_D	0.529	1.00
36_L	73_L	0.529	1.00
114_L	172_K	0.528	1.00
109_N	113_A	0.526	1.00
309_A	318_N	0.524	1.00
91_P	103_Q	0.524	1.00
184_F	188_R	0.519	1.00
267_G	270_T	0.519	1.00
79_R	127_D	0.518	1.00
189_Y	201_I	0.517	1.00
240_T	270_T	0.511	1.00
201_I	228_V	0.509	1.00
72_W	77_G	0.508	1.00
191_H	226_E	0.508	1.00
14_S	46_L	0.507	1.00
9_S	168_Q	0.507	1.00
70_G	74_A	0.506	1.00
247_N	271_Q	0.506	1.00
105_L	160_T	0.505	1.00
118_L	126_L	0.505	1.00
170_A	173_I	0.505	1.00
269_Q	273_A	0.503	1.00
269_Q	272_K	0.503	1.00
281_A	288_P	0.502	1.00
91_P	102_D	0.502	1.00
115_H	167_Y	0.501	1.00
181_E	204_I	0.500	1.00
280_I	283_R	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
1lqaA	2	1	100	0.12	Contact Map
1pz1A	1	0.9017	100	0.167	Contact Map
4xk2A	5	0.8584	100	0.171	Contact Map
1pyfA	1	0.8815	100	0.172	Contact Map
3v0sA	1	0.7832	100	0.174	Contact Map
3n2tA	1	0.9017	100	0.175	Contact Map
3eauA	3	0.9075	100	0.179	Contact Map
3lutA	3	0.9046	100	0.18	Contact Map
3erpA	6	0.8497	100	0.186	Contact Map
2bp1A	2	0.8699	100	0.187	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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