GLGD - BACSU - GREMLIN Contacts

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GLGD - Glycogen biosynthesis protein GlgD

UniProt:	P39124	Sequences: MFNNQMLGVIDETTYKHSLQDLTAQRSLGAIPFAGRYRLIDFMLSNMVNADIRSVAIFPKYRYRSLMDHLGAGKEWDLHRKKDGLFFFPSPHLHHEYDEFGSFRQFSDHLDYFHRSTQQYAVISNSHTVCNIQFQYVLKRHQEVGCDVTEVFQDGQSLQIYIMSTTLLKDLIYGHSEKGYKTIQEAVEKESSALTICPYEYSGYAAVIDSVEKYYTHSMELIQPRFWQQVFLPQQPIYTKVKDEPPTKYGKHSTVKNSLVANGCVLEGEVENCILFRAVHVGKGTKLKNCIIMQKTQIGEDCLLEQVISDKDVKIGKATEAAGTAEQPLVLRKGLVQGELMNS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	343 (291)
Sequences:	8791 (5829)
Seq/√Len:	341.7

ECOLI - GLGC GLMU RMLA1 RMLA2
BACSU - GLGD GLGC GLMU
HALSA - Q9HSZ8 Q9HSZ9 Q9HS61
SULSO - Q97ZD1 Q980H9 Q980D4 Q7LXE7 Q7LXK9 Q97XG0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
270_V	273_C	3.591	1.00
272_N	289_N	3.142	1.00
141_H	149_T	2.825	1.00
273_C	287_L	2.769	1.00
36_R	45_S	2.643	1.00
287_L	290_C	2.617	1.00
271_E	288_K	2.566	1.00
256_K	271_E	2.507	1.00
263_G	278_A	2.479	1.00
304_L	307_V	2.415	1.00
139_K	143_E	2.376	1.00
288_K	305_E	2.321	1.00
8_G	52_I	2.296	1.00
299_G	317_K	2.287	1.00
278_A	295_K	2.259	1.00
262_N	277_R	2.241	1.00
292_I	298_I	2.200	1.00
54_S	86_F	2.144	1.00
282_G	300_E	2.107	1.00
8_G	47_M	2.091	1.00
300_E	317_K	2.081	1.00
261_A	277_R	2.066	1.00
265_V	280_H	2.048	1.00
120_Y	142_Q	2.025	1.00
277_R	294_Q	2.018	1.00
248_K	265_V	1.982	1.00
242_K	259_L	1.976	1.00
140_R	144_V	1.938	1.00
245_P	262_N	1.929	1.00
121_A	165_T	1.925	1.00
146_C	197_C	1.913	1.00
41_D	69_H	1.906	1.00
137_V	151_V	1.889	1.00
269_E	286_K	1.884	1.00
275_L	281_V	1.871	1.00
26_R	32_P	1.869	1.00
56_A	88_F	1.868	1.00
170_D	174_G	1.866	1.00
275_L	279_V	1.860	1.00
247_T	264_C	1.823	1.00
255_V	258_S	1.819	1.00
244_E	262_N	1.811	1.00
283_K	300_E	1.808	1.00
276_F	294_Q	1.786	1.00
25_Q	263_G	1.783	1.00
120_Y	164_S	1.773	1.00
252_H	268_G	1.766	1.00
289_N	306_Q	1.752	1.00
268_G	284_G	1.739	1.00
147_D	164_S	1.731	1.00
44_L	55_V	1.679	1.00
169_K	172_I	1.654	1.00
208_I	217_H	1.644	1.00
137_V	162_I	1.614	1.00
257_N	272_N	1.606	1.00
144_V	197_C	1.604	1.00
240_K	257_N	1.595	1.00
238_Y	256_K	1.590	1.00
140_R	199_Y	1.554	1.00
146_C	149_T	1.546	1.00
47_M	124_S	1.538	1.00
135_Q	139_K	1.511	1.00
279_V	296_T	1.497	1.00
284_G	301_D	1.496	1.00
291_I	308_I	1.489	1.00
100_F	104_R	1.485	1.00
40_I	70_L	1.475	1.00
267_E	283_K	1.467	1.00
41_D	45_S	1.460	1.00
63_Y	67_M	1.435	1.00
168_L	172_I	1.430	1.00
89_P	97_Y	1.423	1.00
295_K	312_D	1.420	1.00
280_H	297_Q	1.419	1.00
259_L	274_I	1.396	1.00
63_Y	89_P	1.390	1.00
254_T	269_E	1.386	1.00
174_G	192_S	1.376	1.00
274_I	291_I	1.374	1.00
7_L	54_S	1.370	1.00
247_T	277_R	1.361	1.00
292_I	296_T	1.347	1.00
267_E	282_G	1.345	1.00
260_V	264_C	1.338	1.00
296_T	313_V	1.331	1.00
294_Q	311_K	1.314	1.00
264_C	279_V	1.312	1.00
309_S	313_V	1.309	1.00
282_G	297_Q	1.290	1.00
293_M	308_I	1.290	1.00
123_I	163_M	1.280	1.00
297_Q	314_K	1.280	1.00
110_L	169_K	1.276	1.00
39_L	208_I	1.272	1.00
264_C	275_L	1.269	1.00
285_T	302_C	1.268	1.00
138_L	162_I	1.260	1.00
250_G	267_E	1.260	1.00
59_P	63_Y	1.260	1.00
250_G	265_V	1.257	1.00
120_Y	162_I	1.256	1.00
110_L	173_Y	1.251	1.00
170_D	192_S	1.225	1.00
165_T	169_K	1.210	1.00
147_D	194_L	1.205	1.00
104_R	108_D	1.194	1.00
114_H	169_K	1.191	1.00
167_L	171_L	1.190	1.00
309_S	315_I	1.187	1.00
71_G	87_F	1.178	1.00
188_E	191_S	1.176	1.00
282_G	299_G	1.173	1.00
30_A	69_H	1.169	1.00
206_A	220_E	1.164	1.00
147_D	195_T	1.155	1.00
244_E	247_T	1.142	1.00
122_V	162_I	1.141	1.00
34_A	221_L	1.138	1.00
41_D	73_G	1.137	1.00
204_Y	220_E	1.133	1.00
60_K	99_E	1.123	1.00
104_R	107_S	1.117	1.00
148_V	190_E	1.114	1.00
287_L	292_I	1.114	1.00
296_T	309_S	1.106	1.00
33_F	218_S	1.103	1.00
225_R	229_Q	1.100	1.00
288_K	303_L	1.099	1.00
64_R	68_D	1.098	1.00
125_N	128_T	1.096	1.00
225_R	228_Q	1.086	1.00
56_A	112_Y	1.082	1.00
167_L	194_L	1.082	1.00
286_K	303_L	1.080	1.00
263_G	277_R	1.078	1.00
290_C	307_V	1.077	1.00
232_L	235_Q	1.071	1.00
29_G	126_S	1.065	1.00
157_S	161_Y	1.062	1.00
230_V	248_K	1.058	1.00
137_V	149_T	1.058	1.00
136_Y	139_K	1.055	1.00
106_F	123_I	1.049	1.00
244_E	277_R	1.044	1.00
107_S	110_L	1.040	1.00
27_S	65_S	1.040	1.00
133_Q	204_Y	1.037	1.00
231_F	235_Q	1.037	1.00
42_F	221_L	1.031	1.00
140_R	197_C	1.026	1.00
167_L	172_I	1.025	1.00
110_L	172_I	1.024	1.00
243_D	247_T	1.020	1.00
32_P	38_R	1.015	1.00
124_S	134_F	1.013	1.00
65_S	68_D	1.012	1.00
67_M	89_P	0.999	1.00
210_S	213_K	0.996	1.00
26_R	65_S	0.993	1.00
270_V	275_L	0.983	1.00
206_A	216_T	0.983	1.00
190_E	194_L	0.981	1.00
179_G	185_E	0.981	1.00
7_L	113_F	0.979	1.00
70_L	85_L	0.978	1.00
46_N	131_N	0.970	1.00
38_R	41_D	0.968	1.00
299_G	314_K	0.966	1.00
40_I	57_I	0.964	1.00
302_C	317_K	0.959	1.00
122_V	138_L	0.957	1.00
241_V	255_V	0.955	1.00
167_L	170_D	0.955	1.00
141_H	164_S	0.954	1.00
229_Q	243_D	0.946	1.00
212_E	216_T	0.944	1.00
99_E	104_R	0.944	1.00
247_T	261_A	0.935	1.00
212_E	227_W	0.933	1.00
285_T	299_G	0.932	1.00
48_V	84_G	0.930	1.00
249_Y	255_V	0.930	1.00
250_G	253_S	0.929	1.00
244_E	261_A	0.924	1.00
279_V	293_M	0.922	1.00
146_C	150_E	0.922	1.00
147_D	150_E	0.916	1.00
117_T	169_K	0.913	1.00
118_Q	166_T	0.909	1.00
40_I	66_L	0.905	1.00
256_K	269_E	0.905	1.00
189_K	192_S	0.905	1.00
38_R	69_H	0.905	1.00
279_V	311_K	0.902	1.00
119_Q	165_T	0.900	1.00
49_N	131_N	0.900	1.00
174_G	189_K	0.896	1.00
16_K	28_L	0.894	1.00
281_V	285_T	0.888	1.00
119_Q	164_S	0.884	1.00
258_S	270_V	0.882	1.00
136_Y	140_R	0.881	1.00
175_H	178_K	0.868	1.00
171_L	174_G	0.867	1.00
163_M	186_A	0.867	1.00
237_I	241_V	0.864	1.00
267_E	280_H	0.863	1.00
64_R	67_M	0.862	1.00
223_Q	227_W	0.860	1.00
140_R	143_E	0.854	1.00
18_S	28_L	0.848	1.00
279_V	298_I	0.847	1.00
264_C	276_F	0.843	1.00
236_P	254_T	0.840	1.00
48_V	73_G	0.838	1.00
30_A	65_S	0.833	1.00
100_F	181_K	0.831	1.00
261_A	264_C	0.829	1.00
133_Q	136_Y	0.827	1.00
62_R	65_S	0.822	1.00
14_T	18_S	0.820	1.00
86_F	112_Y	0.820	1.00
67_M	87_F	0.813	1.00
252_H	267_E	0.813	1.00
219_M	222_I	0.811	1.00
276_F	291_I	0.809	1.00
298_I	304_L	0.807	1.00
276_F	279_V	0.805	1.00
166_T	170_D	0.803	1.00
281_V	287_L	0.802	1.00
110_L	114_H	0.801	1.00
249_Y	253_S	0.796	1.00
220_E	223_Q	0.793	1.00
120_Y	141_H	0.793	1.00
10_I	47_M	0.792	1.00
59_P	87_F	0.791	1.00
286_K	301_D	0.790	1.00
155_G	200_E	0.790	1.00
279_V	294_Q	0.789	1.00
246_P	262_N	0.785	1.00
168_L	174_G	0.784	1.00
238_Y	241_V	0.784	1.00
44_L	85_L	0.772	1.00
57_I	85_L	0.768	1.00
171_L	192_S	0.768	1.00
146_C	195_T	0.767	1.00
287_L	304_L	0.766	1.00
28_L	127_H	0.764	1.00
10_I	44_L	0.763	1.00
122_V	134_F	0.761	1.00
246_P	263_G	0.760	1.00
7_L	117_T	0.759	1.00
148_V	163_M	0.756	1.00
219_M	233_P	0.754	1.00
301_D	317_K	0.752	1.00
247_T	260_V	0.751	1.00
43_M	124_S	0.750	1.00
60_K	104_R	0.746	1.00
216_T	219_M	0.742	1.00
139_K	142_Q	0.742	1.00
169_K	173_Y	0.737	0.99
59_P	67_M	0.736	0.99
50_A	134_F	0.733	0.99
27_S	62_R	0.732	0.99
293_M	311_K	0.731	0.99
285_T	298_I	0.727	0.99
141_H	162_I	0.726	0.99
7_L	56_A	0.725	0.99
98_D	104_R	0.725	0.99
299_G	316_G	0.722	0.99
48_V	55_V	0.722	0.99
275_L	287_L	0.719	0.99
57_I	70_L	0.718	0.99
279_V	292_I	0.714	0.99
253_S	256_K	0.711	0.99
260_V	266_L	0.711	0.99
155_G	198_P	0.711	0.99
44_L	70_L	0.711	0.99
138_L	142_Q	0.710	0.99
47_M	52_I	0.710	0.99
14_T	28_L	0.708	0.99
302_C	315_I	0.703	0.99
235_Q	255_V	0.701	0.99
289_N	305_E	0.699	0.99
244_E	259_L	0.698	0.99
41_D	70_L	0.698	0.99
59_P	66_L	0.698	0.99
285_T	301_D	0.693	0.99
34_A	218_S	0.693	0.99
54_S	84_G	0.691	0.99
243_D	260_V	0.690	0.99
9_V	56_A	0.688	0.99
125_N	159_Q	0.687	0.99
70_L	87_F	0.685	0.99
9_V	121_A	0.683	0.99
6_M	138_L	0.681	0.99
38_R	42_F	0.678	0.99
9_V	106_F	0.676	0.99
136_Y	202_S	0.670	0.99
183_I	186_A	0.669	0.99
171_L	190_E	0.668	0.99
243_D	249_Y	0.667	0.99
264_C	277_R	0.664	0.99
215_Y	232_L	0.664	0.99
304_L	309_S	0.663	0.99
255_V	260_V	0.663	0.99
278_A	294_Q	0.663	0.99
164_S	167_L	0.662	0.99
276_F	293_M	0.660	0.99
145_G	149_T	0.657	0.99
296_T	310_D	0.657	0.99
45_S	49_N	0.655	0.99
253_S	266_L	0.654	0.99
58_F	105_Q	0.652	0.99
33_F	39_L	0.649	0.99
10_I	43_M	0.649	0.99
224_P	228_Q	0.647	0.99
244_E	264_C	0.646	0.99
231_F	234_Q	0.646	0.99
231_F	249_Y	0.644	0.99
158_L	205_A	0.643	0.99
191_S	194_L	0.641	0.99
314_K	317_K	0.641	0.99
247_T	262_N	0.640	0.99
290_C	304_L	0.637	0.98
151_V	160_I	0.632	0.98
168_L	171_L	0.631	0.98
68_D	71_G	0.628	0.98
56_A	109_H	0.625	0.98
52_I	138_L	0.625	0.98
145_G	164_S	0.624	0.98
269_E	288_K	0.621	0.98
107_S	181_K	0.618	0.98
130_C	133_Q	0.617	0.98
11_D	125_N	0.617	0.98
241_V	258_S	0.616	0.98
284_G	300_E	0.615	0.98
250_G	256_K	0.611	0.98
167_L	190_E	0.609	0.98
147_D	167_L	0.609	0.98
114_H	173_Y	0.604	0.98
211_V	215_Y	0.604	0.98
296_T	311_K	0.604	0.98
56_A	113_F	0.604	0.98
218_S	222_I	0.604	0.98
169_K	174_G	0.602	0.98
171_L	189_K	0.602	0.98
111_D	114_H	0.601	0.98
39_L	43_M	0.601	0.98
180_Y	185_E	0.600	0.98
136_Y	199_Y	0.599	0.98
275_L	292_I	0.598	0.98
124_S	160_I	0.597	0.98
301_D	305_E	0.595	0.98
88_F	109_H	0.593	0.98
42_F	45_S	0.593	0.98
56_A	86_F	0.591	0.98
251_K	254_T	0.590	0.98
264_C	278_A	0.589	0.97
271_E	286_K	0.586	0.97
13_T	58_F	0.585	0.97
11_D	105_Q	0.584	0.97
148_V	196_I	0.584	0.97
206_A	217_H	0.584	0.97
252_H	256_K	0.583	0.97
201_Y	205_A	0.583	0.97
7_L	121_A	0.582	0.97
104_R	181_K	0.582	0.97
36_R	42_F	0.582	0.97
96_E	104_R	0.581	0.97
11_D	58_F	0.579	0.97
216_T	220_E	0.579	0.97
239_T	257_N	0.578	0.97
130_C	160_I	0.578	0.97
285_T	317_K	0.577	0.97
46_N	50_A	0.577	0.97
183_I	188_E	0.577	0.97
173_Y	189_K	0.574	0.97
292_I	309_S	0.573	0.97
310_D	313_V	0.569	0.97
106_F	182_T	0.568	0.97
181_K	184_Q	0.568	0.97
293_M	296_T	0.567	0.97
127_H	207_V	0.566	0.97
270_V	281_V	0.566	0.97
147_D	151_V	0.564	0.97
34_A	42_F	0.560	0.97
20_Q	24_A	0.558	0.97
300_E	314_K	0.556	0.96
13_T	16_K	0.555	0.96
33_F	217_H	0.554	0.96
238_Y	254_T	0.553	0.96
213_K	216_T	0.553	0.96
253_S	268_G	0.550	0.96
295_K	311_K	0.550	0.96
46_N	134_F	0.548	0.96
46_N	49_N	0.547	0.96
223_Q	226_F	0.546	0.96
170_D	173_Y	0.546	0.96
184_Q	188_E	0.544	0.96
251_K	255_V	0.541	0.96
171_L	186_A	0.541	0.96
226_F	229_Q	0.541	0.96
269_E	283_K	0.541	0.96
182_T	185_E	0.539	0.96
282_G	285_T	0.538	0.96
113_F	168_L	0.537	0.96
119_Q	166_T	0.534	0.96
25_Q	245_P	0.533	0.96
237_I	243_D	0.530	0.95
18_S	29_G	0.528	0.95
166_T	169_K	0.528	0.95
303_L	306_Q	0.526	0.95
31_I	211_V	0.526	0.95
16_K	207_V	0.525	0.95
231_F	236_P	0.525	0.95
117_T	165_T	0.524	0.95
109_H	112_Y	0.520	0.95
50_A	135_Q	0.518	0.95
297_Q	300_E	0.518	0.95
29_G	66_L	0.513	0.94
16_K	29_G	0.511	0.94
158_L	161_Y	0.511	0.94
238_Y	258_S	0.511	0.94
26_R	310_D	0.510	0.94
251_K	256_K	0.509	0.94
300_E	305_E	0.509	0.94
300_E	303_L	0.508	0.94
240_K	243_D	0.508	0.94
19_L	31_I	0.507	0.94
102_S	127_H	0.504	0.94
201_Y	204_Y	0.504	0.94
214_Y	293_M	0.501	0.94
30_A	63_Y	0.501	0.94
44_L	57_I	0.501	0.94
67_M	71_G	0.500	0.94

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
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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
3brkX	2	0.9388	100	0.395	Contact Map
1yp2A	4	0.9796	100	0.408	Contact Map
2ggoA	3	0.9155	100	0.449	Contact Map
4g3qA	3	0.9446	100	0.467	Contact Map
1hm9A	3	0.9242	100	0.474	Contact Map
2v0hA	3	0.9271	100	0.484	Contact Map
4fceA	3	0.9096	100	0.491	Contact Map
2icyA	1	0.8542	100	0.545	Contact Map
2i5kA	5	0.863	100	0.574	Contact Map
4r7pA	4	0.8688	100	0.585	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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