O51991 - HALSA - GREMLIN Contacts

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O51991 - SojD

UniProt:	O51991	Sequences: MKSFAISQQKGGVGKTTNTINIAGALAHRGHQVLAIDADPQGYLTNTLGFREAYQSDPPSLYDAIKTPHDHDAADLVVAHAEFDVLPANIDMFQLEQDLIASGRRPRQRFGDVLDQLQDYDYVLIDAPPSLGPINDNVLLAAEDIIIPVEADDSSVLAIEHLLNQIESLERGYDVDIRERAILISNVNYPLDNEQADAIAWFEDTFDGRAPVFEVRNRAAIKRSLGAGGSIFGEDAEETDMTTVYDDVAATLEEVEG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	257 (234)
Sequences:	17563 (11545)
Seq/√Len:	754.7

ECOLI - BCSQ MIND MRP
BACSU - SOJ YLXH MIND SALA YWQD YVEL
HALSA - O51991 Q9HHU2 O51969 Q9HHZ7 Q9HHL5 O54573 Q9HQY5 Q9HNF1 Q9HQJ7
SULSO - Q97ZW4 Q981B3 Q97VX7 Q97WA2 Q97YM8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
19_T	124_L	3.776	1.00
84_D	120_Y	3.758	1.00
216_R	244_V	3.668	1.00
31_H	122_Y	3.177	1.00
29_R	250_A	3.146	1.00
26_L	122_Y	3.047	1.00
18_N	245_Y	2.865	1.00
230_S	233_G	2.796	1.00
5_A	142_A	2.749	1.00
150_E	186_N	2.708	1.00
192_D	195_Q	2.707	1.00
35_A	44_L	2.562	1.00
34_L	120_Y	2.540	1.00
20_I	44_L	2.485	1.00
186_N	217_N	2.469	1.00
23_A	35_A	2.177	1.00
47_T	154_S	2.050	1.00
144_D	180_R	2.040	1.00
28_H	246_D	2.033	1.00
19_T	35_A	2.011	1.00
220_A	223_R	2.011	1.00
18_N	183_L	1.954	1.00
32_Q	121_D	1.953	1.00
188_N	217_N	1.938	1.00
25_A	232_F	1.932	1.00
6_I	22_I	1.874	1.00
25_A	249_A	1.826	1.00
79_A	84_D	1.824	1.00
26_L	124_L	1.817	1.00
183_L	248_V	1.812	1.00
201_W	205_T	1.788	1.00
200_A	204_D	1.786	1.00
46_N	157_L	1.771	1.00
29_R	246_D	1.688	1.00
3_S	125_I	1.685	1.00
184_I	199_I	1.684	1.00
20_I	47_T	1.682	1.00
194_E	197_D	1.677	1.00
31_H	121_D	1.657	1.00
144_D	181_A	1.624	1.00
38_A	138_V	1.622	1.00
27_A	83_F	1.618	1.00
23_A	124_L	1.596	1.00
5_A	127_A	1.594	1.00
213_F	251_T	1.583	1.00
218_R	241_M	1.574	1.00
72_D	75_D	1.514	1.00
6_I	146_I	1.489	1.00
229_G	234_E	1.469	1.00
20_I	48_L	1.463	1.00
213_F	248_V	1.456	1.00
38_A	125_I	1.451	1.00
22_I	252_L	1.404	1.00
187_V	214_E	1.389	1.00
202_F	206_F	1.387	1.00
219_A	223_R	1.375	1.00
145_I	166_I	1.366	1.00
27_A	82_E	1.365	1.00
108_Q	111_G	1.363	1.00
135_N	138_V	1.355	1.00
43_Y	158_A	1.352	1.00
7_S	162_L	1.350	1.00
60_S	63_D	1.343	1.00
14_G	185_S	1.342	1.00
74_A	119_D	1.334	1.00
189_Y	199_I	1.311	1.00
48_L	83_F	1.311	1.00
200_A	214_E	1.304	1.00
212_V	251_T	1.266	1.00
62_Y	66_K	1.262	1.00
50_F	85_V	1.254	1.00
144_D	178_R	1.250	1.00
243_T	246_D	1.248	1.00
6_I	19_T	1.238	1.00
152_D	155_S	1.237	1.00
146_I	183_L	1.235	1.00
220_A	235_D	1.221	1.00
23_A	44_L	1.221	1.00
195_Q	198_A	1.216	1.00
26_L	33_V	1.214	1.00
151_A	184_I	1.211	1.00
18_N	185_S	1.210	1.00
75_D	78_V	1.195	1.00
201_W	204_D	1.190	1.00
195_Q	199_I	1.183	1.00
59_P	63_D	1.182	1.00
215_V	241_M	1.177	1.00
22_I	249_A	1.175	1.00
134_I	138_V	1.171	1.00
247_D	250_A	1.161	1.00
34_L	123_V	1.154	1.00
71_H	75_D	1.147	1.00
211_P	214_E	1.142	1.00
102_S	106_P	1.133	1.00
7_S	127_A	1.132	1.00
24_G	28_H	1.132	1.00
223_R	227_A	1.131	1.00
90_I	161_H	1.121	1.00
16_T	47_T	1.111	1.00
38_A	61_L	1.104	1.00
221_I	241_M	1.104	1.00
246_D	250_A	1.098	1.00
43_Y	154_S	1.094	1.00
76_L	79_A	1.093	1.00
152_D	222_K	1.084	1.00
73_A	86_L	1.060	1.00
40_P	134_I	1.049	1.00
71_H	76_L	1.042	1.00
85_V	90_I	1.040	1.00
16_T	44_L	1.038	1.00
77_V	80_H	1.027	1.00
25_A	29_R	1.023	1.00
160_E	205_T	1.021	1.00
18_N	22_I	1.017	1.00
247_D	251_T	1.017	1.00
238_E	242_T	1.015	1.00
193_N	196_A	1.015	1.00
63_D	66_K	1.014	1.00
109_R	113_V	1.013	1.00
244_V	247_D	1.010	1.00
229_G	233_G	1.009	1.00
21_N	24_G	1.004	1.00
133_P	138_V	0.990	1.00
154_S	225_L	0.988	1.00
110_F	113_V	0.982	1.00
42_G	45_T	0.972	1.00
63_D	68_P	0.964	1.00
240_D	243_T	0.962	1.00
23_A	83_F	0.961	1.00
248_V	252_L	0.960	1.00
194_E	199_I	0.957	1.00
21_N	232_F	0.953	1.00
36_I	125_I	0.945	1.00
73_A	76_L	0.936	1.00
3_S	123_V	0.934	1.00
113_V	116_Q	0.933	1.00
72_D	76_L	0.932	1.00
147_I	159_I	0.932	1.00
32_Q	119_D	0.929	1.00
100_I	103_G	0.928	1.00
232_F	246_D	0.927	1.00
26_L	249_A	0.920	1.00
25_A	246_D	0.910	1.00
133_P	140_L	0.908	1.00
48_L	85_V	0.907	1.00
36_I	123_V	0.907	1.00
148_P	185_S	0.904	1.00
25_A	28_H	0.902	1.00
199_I	203_E	0.902	1.00
200_A	203_E	0.901	1.00
185_S	245_Y	0.899	1.00
227_A	234_E	0.897	1.00
101_A	105_R	0.886	1.00
4_F	122_Y	0.885	1.00
218_R	238_E	0.881	1.00
6_I	18_N	0.878	1.00
241_M	244_V	0.872	1.00
96_E	132_G	0.868	1.00
236_A	242_T	0.866	1.00
111_G	115_D	0.863	1.00
4_F	252_L	0.859	1.00
17_T	221_I	0.859	1.00
127_A	138_V	0.857	1.00
242_T	246_D	0.851	1.00
102_S	105_R	0.848	1.00
74_A	78_V	0.841	1.00
17_T	225_L	0.840	1.00
28_H	233_G	0.840	1.00
41_Q	132_G	0.828	1.00
164_N	167_E	0.826	1.00
97_Q	100_I	0.823	1.00
108_Q	112_D	0.822	1.00
240_D	244_V	0.821	1.00
61_L	64_A	0.819	1.00
218_R	240_D	0.816	1.00
3_S	118_Q	0.812	1.00
192_D	196_A	0.806	1.00
24_G	233_G	0.804	1.00
203_E	214_E	0.804	1.00
42_G	88_A	0.801	1.00
76_L	80_H	0.799	1.00
112_D	116_Q	0.793	1.00
94_Q	97_Q	0.792	1.00
151_A	195_Q	0.790	1.00
6_I	124_L	0.789	1.00
21_N	230_S	0.789	1.00
74_A	77_V	0.787	1.00
24_G	232_F	0.780	1.00
206_F	209_R	0.780	1.00
18_N	215_V	0.777	1.00
147_I	162_L	0.776	1.00
33_V	122_Y	0.770	1.00
137_N	140_L	0.768	1.00
199_I	214_E	0.767	1.00
95_L	99_L	0.766	1.00
235_D	238_E	0.763	1.00
103_G	106_P	0.758	1.00
215_V	244_V	0.758	1.00
59_P	71_H	0.755	1.00
184_I	202_F	0.747	1.00
75_D	79_A	0.747	1.00
10_K	13_V	0.746	1.00
15_K	129_P	0.746	1.00
63_D	67_T	0.746	1.00
190_P	198_A	0.744	1.00
188_N	198_A	0.744	1.00
64_A	67_T	0.742	1.00
181_A	211_P	0.742	1.00
76_L	86_L	0.739	1.00
170_E	178_R	0.739	1.00
120_Y	123_V	0.736	1.00
13_V	155_S	0.735	1.00
73_A	77_V	0.735	1.00
74_A	116_Q	0.734	1.00
194_E	198_A	0.731	1.00
64_A	113_V	0.728	1.00
135_N	139_L	0.725	1.00
46_N	153_D	0.720	1.00
184_I	187_V	0.719	1.00
35_A	48_L	0.712	1.00
9_Q	165_Q	0.710	1.00
7_S	135_N	0.709	1.00
232_F	242_T	0.705	1.00
151_A	187_V	0.704	1.00
4_F	144_D	0.701	1.00
18_N	148_P	0.697	1.00
19_T	44_L	0.696	1.00
147_I	163_L	0.693	1.00
8_Q	13_V	0.691	1.00
33_V	124_L	0.690	1.00
243_T	247_D	0.690	1.00
150_E	155_S	0.688	1.00
25_A	245_Y	0.688	1.00
231_I	242_T	0.686	1.00
84_D	87_P	0.686	1.00
28_H	232_F	0.686	1.00
192_D	198_A	0.685	1.00
101_A	104_R	0.682	1.00
99_L	103_G	0.669	1.00
24_G	83_F	0.668	1.00
113_V	117_L	0.666	1.00
133_P	136_D	0.661	1.00
97_Q	133_P	0.657	1.00
43_Y	157_L	0.657	1.00
38_A	134_I	0.653	1.00
160_E	164_N	0.653	1.00
133_P	137_N	0.650	1.00
64_A	68_P	0.648	1.00
216_R	240_D	0.643	1.00
45_T	87_P	0.640	1.00
136_D	165_Q	0.639	1.00
149_V	182_I	0.635	1.00
104_R	108_Q	0.633	1.00
57_D	63_D	0.633	1.00
34_L	77_V	0.629	1.00
163_L	167_E	0.629	1.00
61_L	65_I	0.629	1.00
42_G	89_N	0.627	1.00
75_D	80_H	0.626	1.00
95_L	98_D	0.624	1.00
45_T	89_N	0.622	1.00
224_S	231_I	0.620	1.00
10_K	154_S	0.620	1.00
153_D	157_L	0.619	1.00
118_Q	143_E	0.619	1.00
71_H	74_A	0.615	1.00
237_E	243_T	0.614	1.00
77_V	84_D	0.614	1.00
238_E	241_M	0.613	1.00
3_S	143_E	0.611	1.00
189_Y	193_N	0.610	1.00
64_A	76_L	0.608	1.00
38_A	110_F	0.606	1.00
197_D	200_A	0.606	1.00
167_E	170_E	0.605	1.00
43_Y	46_N	0.601	1.00
24_G	230_S	0.601	1.00
231_I	241_M	0.600	1.00
181_A	212_V	0.600	1.00
33_V	83_F	0.600	1.00
109_R	114_L	0.597	1.00
224_S	229_G	0.595	1.00
192_D	199_I	0.593	1.00
106_P	134_I	0.590	1.00
72_D	80_H	0.589	1.00
205_T	208_G	0.587	1.00
138_V	142_A	0.586	1.00
184_I	214_E	0.586	1.00
146_I	252_L	0.582	1.00
32_Q	84_D	0.582	1.00
204_D	207_D	0.582	1.00
94_Q	98_D	0.579	1.00
202_F	205_T	0.577	1.00
24_G	27_A	0.575	1.00
156_V	202_F	0.574	1.00
135_N	140_L	0.572	1.00
164_N	168_S	0.571	1.00
193_N	197_D	0.571	1.00
124_L	252_L	0.570	1.00
62_Y	98_D	0.569	1.00
87_P	90_I	0.567	1.00
20_I	35_A	0.566	1.00
222_K	226_G	0.564	1.00
21_N	231_I	0.561	1.00
127_A	135_N	0.559	1.00
58_P	61_L	0.557	1.00
149_V	159_I	0.555	1.00
100_I	106_P	0.554	1.00
81_A	84_D	0.549	1.00
215_V	248_V	0.549	1.00
27_A	33_V	0.547	1.00
160_E	206_F	0.545	1.00
147_I	179_E	0.545	1.00
62_Y	65_I	0.544	1.00
219_A	222_K	0.540	1.00
33_V	121_D	0.537	1.00
236_A	243_T	0.537	1.00
57_D	61_L	0.535	1.00
109_R	112_D	0.534	1.00
4_F	124_L	0.533	1.00
22_I	248_V	0.532	1.00
221_I	225_L	0.530	1.00
114_L	141_A	0.528	1.00
223_R	234_E	0.528	1.00
110_F	114_L	0.525	1.00
188_N	219_A	0.525	1.00
86_L	117_L	0.522	1.00
32_Q	120_Y	0.522	1.00
91_D	94_Q	0.521	1.00
224_S	234_E	0.520	1.00
156_V	160_E	0.519	1.00
35_A	124_L	0.518	1.00
41_Q	129_P	0.516	1.00
209_R	251_T	0.515	1.00
30_G	82_E	0.515	1.00
165_Q	168_S	0.514	1.00
224_S	230_S	0.513	1.00
44_L	85_V	0.512	1.00
73_A	117_L	0.512	1.00
80_H	85_V	0.512	1.00
233_G	236_A	0.510	1.00
36_I	114_L	0.510	1.00
24_G	81_A	0.510	1.00
197_D	201_W	0.509	1.00
131_L	135_N	0.508	1.00
52_E	57_D	0.507	1.00
153_D	226_G	0.505	1.00
34_L	117_L	0.504	1.00
21_N	245_Y	0.502	1.00
10_K	15_K	0.502	1.00
72_D	77_V	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
1wcv1	2	0.9416	100	0.247	Contact Map
3pg5A	2	0.8872	100	0.258	Contact Map
4pfsA	1	0.9066	100	0.26	Contact Map
2ozeA	2	0.9767	100	0.29	Contact Map
3ez2A	2	0.9844	100	0.3	Contact Map
1g3qA	1	0.9027	100	0.304	Contact Map
4rz3A	2	0.9105	100	0.305	Contact Map
1hyqA	1	0.8911	100	0.307	Contact Map
3ez9A	2	0.821	100	0.31	Contact Map
3ea0A	2	0.9027	100	0.315	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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