YDJI - BACSU - GREMLIN Contacts

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YDJI - Uncharacterized protein YdjI

UniProt:	O34789	Sequences: MSFFRNQLANVVEWEEFRDDMIFYKWNNREIKKGSRLIIRPGQDAVFLNNGRVEGVFQDDGDYDIESEIIPFLSTLKGFKFGFNSGMRAEVLFVNTKEFTVRWGTKQAINIPAAGMPGGMPIRANGTFNFKVQDYISLIDKIAGVKDQYFVEDIKTRIISILDQLLMKWITREGKDMFNLQANAFDIAKGIQEDLDMQLISDGMTVTGFQIMSFNYPQEVQDMITKNASYGMVGDVNRYQQISMTDGMASGKMSGSGAASDMAGMMMGMNMANQMMNQMNQNQQAQSSGPQSTGSGSKPNFCPNCGTKTGEANFCPNCGQKLV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	323 (294)
Sequences:	1026 (756)
Seq/√Len:	44.1

BACSU - YDJI
SULSO - Q97X00

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
250_S	253_M	7.044	1.00
237_N	241_Q	5.011	1.00
38_I	62_D	4.221	1.00
218_Q	222_D	3.796	1.00
246_D	249_A	3.681	1.00
41_P	60_D	3.624	1.00
120_M	177_M	3.411	1.00
222_D	226_K	3.372	1.00
125_N	212_M	3.150	1.00
235_D	238_R	2.917	1.00
101_V	130_F	2.819	1.00
133_Q	205_T	2.717	1.00
185_F	194_D	2.715	1.00
94_V	132_V	2.690	1.00
52_R	140_D	2.349	1.00
22_I	132_V	2.328	1.00
251_G	254_S	2.326	1.00
44_D	135_Y	2.294	1.00
36_R	62_D	2.264	1.00
162_L	209_F	2.262	1.00
132_V	138_L	2.198	1.00
258_A	261_D	2.168	1.00
131_K	205_T	2.160	1.00
46_V	94_V	2.075	0.99
220_V	225_T	2.067	0.99
130_F	151_V	2.043	0.99
240_Q	245_T	2.031	0.99
183_N	186_D	2.026	0.99
136_I	140_D	2.012	0.99
200_I	205_T	2.005	0.99
256_S	260_S	1.943	0.99
112_P	115_G	1.934	0.99
70_I	73_L	1.918	0.99
168_K	186_D	1.840	0.99
108_A	123_R	1.835	0.99
252_K	255_G	1.808	0.98
55_G	63_Y	1.769	0.98
142_I	202_D	1.758	0.98
227_N	231_G	1.756	0.98
291_Q	295_S	1.740	0.98
23_F	143_A	1.721	0.98
11_V	78_G	1.706	0.98
14_W	93_F	1.685	0.97
168_K	172_R	1.673	0.97
146_K	153_D	1.668	0.97
57_F	70_I	1.644	0.97
12_V	31_I	1.608	0.97
198_Q	208_G	1.585	0.96
247_G	252_K	1.582	0.96
256_S	261_D	1.536	0.96
251_G	257_G	1.512	0.95
288_S	292_S	1.507	0.95
244_M	248_M	1.500	0.95
295_S	298_K	1.491	0.95
291_Q	294_G	1.484	0.95
110_N	177_M	1.478	0.95
293_T	297_S	1.467	0.94
9_A	35_S	1.454	0.94
137_S	200_I	1.454	0.94
164_Q	188_A	1.441	0.94
121_P	225_T	1.438	0.94
131_K	207_T	1.419	0.93
177_M	216_Y	1.415	0.93
230_Y	233_V	1.412	0.93
74_S	78_G	1.408	0.93
274_Q	277_N	1.398	0.93
249_A	252_K	1.394	0.93
123_R	215_N	1.387	0.93
254_S	257_G	1.381	0.92
103_W	209_F	1.364	0.92
7_Q	75_T	1.346	0.91
18_R	21_M	1.341	0.91
290_P	293_T	1.335	0.91
292_S	295_S	1.334	0.91
47_F	57_F	1.332	0.91
251_G	255_G	1.328	0.91
138_L	142_I	1.313	0.90
106_K	125_N	1.287	0.89
286_Q	292_S	1.283	0.89
223_M	229_S	1.279	0.89
44_D	96_T	1.279	0.89
31_I	35_S	1.277	0.89
41_P	140_D	1.273	0.89
36_R	64_D	1.265	0.89
289_G	292_S	1.264	0.88
119_G	178_F	1.264	0.88
294_G	297_S	1.255	0.88
226_K	229_S	1.252	0.88
286_Q	291_Q	1.249	0.88
278_Q	281_Q	1.242	0.88
167_M	213_S	1.237	0.87
3_F	27_N	1.232	0.87
230_Y	242_I	1.230	0.87
281_Q	284_Q	1.230	0.87
230_Y	239_Y	1.220	0.87
268_G	272_A	1.208	0.86
255_G	258_A	1.208	0.86
30_E	88_R	1.203	0.86
230_Y	234_G	1.194	0.85
47_F	89_A	1.189	0.85
280_N	283_Q	1.177	0.85
275_M	279_M	1.174	0.84
223_M	227_N	1.170	0.84
276_M	279_M	1.156	0.84
115_G	176_D	1.153	0.83
131_K	141_K	1.148	0.83
22_I	94_V	1.147	0.83
103_W	162_L	1.137	0.83
187_I	209_F	1.133	0.82
134_D	137_S	1.131	0.82
281_Q	296_G	1.128	0.82
226_K	246_D	1.123	0.82
107_Q	213_S	1.122	0.82
224_I	228_A	1.120	0.82
276_M	280_N	1.119	0.81
38_I	93_F	1.116	0.81
17_F	24_Y	1.114	0.81
294_G	298_K	1.107	0.81
13_E	40_R	1.106	0.81
9_A	80_K	1.098	0.80
33_K	66_E	1.095	0.80
127_T	160_S	1.094	0.80
46_V	56_V	1.093	0.80
262_M	265_M	1.093	0.80
120_M	216_Y	1.088	0.80
32_K	35_S	1.081	0.79
165_L	185_F	1.078	0.79
198_Q	201_S	1.074	0.79
20_D	150_F	1.070	0.78
11_V	74_S	1.067	0.78
16_E	21_M	1.067	0.78
292_S	297_S	1.059	0.78
239_Y	242_I	1.055	0.77
237_N	240_Q	1.048	0.77
98_E	202_D	1.046	0.77
22_I	42_G	1.045	0.77
37_L	57_F	1.040	0.76
50_N	62_D	1.040	0.76
265_M	271_M	1.039	0.76
48_L	53_V	1.039	0.76
287_S	290_P	1.033	0.76
101_V	162_L	1.032	0.76
174_G	212_M	1.028	0.76
105_T	108_A	1.027	0.76
263_A	266_M	1.025	0.75
254_S	272_A	1.020	0.75
287_S	291_Q	1.019	0.75
243_S	249_A	1.018	0.75
288_S	291_Q	1.018	0.75
172_R	194_D	1.014	0.75
158_I	199_L	1.010	0.74
190_G	193_E	1.007	0.74
258_A	262_M	1.006	0.74
169_W	194_D	1.005	0.74
255_G	261_D	1.000	0.74
269_M	272_A	0.999	0.73
267_M	277_N	0.993	0.73
285_A	292_S	0.992	0.73
44_D	58_Q	0.986	0.73
290_P	295_S	0.983	0.72
285_A	291_Q	0.982	0.72
226_K	230_Y	0.969	0.71
239_Y	246_D	0.957	0.70
267_M	275_M	0.952	0.70
279_M	284_Q	0.947	0.69
168_K	185_F	0.941	0.69
131_K	171_T	0.934	0.68
255_G	260_S	0.929	0.68
272_A	276_M	0.929	0.68
154_I	158_I	0.926	0.68
288_S	296_G	0.924	0.68
293_T	298_K	0.920	0.67
217_P	220_V	0.920	0.67
265_M	272_A	0.919	0.67
154_I	189_K	0.918	0.67
164_Q	211_I	0.918	0.67
272_A	277_N	0.915	0.67
10_N	78_G	0.913	0.67
86_G	91_V	0.913	0.67
118_G	220_V	0.908	0.66
23_F	94_V	0.906	0.66
37_L	65_I	0.905	0.66
13_E	88_R	0.898	0.65
173_E	190_G	0.898	0.65
42_G	145_V	0.891	0.65
47_F	70_I	0.888	0.64
67_S	88_R	0.886	0.64
280_N	284_Q	0.879	0.64
275_M	280_N	0.876	0.63
48_L	92_L	0.875	0.63
103_W	124_A	0.874	0.63
285_A	289_G	0.873	0.63
240_Q	244_M	0.871	0.63
98_E	129_N	0.868	0.63
13_E	38_I	0.866	0.62
69_I	87_M	0.865	0.62
11_V	85_S	0.864	0.62
22_I	151_V	0.862	0.62
40_R	43_Q	0.856	0.62
164_Q	184_A	0.856	0.62
274_Q	280_N	0.856	0.62
125_N	242_I	0.848	0.61
259_A	264_G	0.840	0.60
172_R	185_F	0.832	0.59
10_N	28_N	0.831	0.59
103_W	164_Q	0.831	0.59
192_Q	196_D	0.829	0.59
132_V	192_Q	0.826	0.59
70_I	87_M	0.825	0.59
112_P	179_N	0.824	0.59
288_S	293_T	0.824	0.59
238_R	241_Q	0.823	0.58
189_K	192_Q	0.823	0.58
288_S	294_G	0.817	0.58
223_M	231_G	0.817	0.58
19_D	146_K	0.815	0.58
216_Y	232_M	0.812	0.57
50_N	88_R	0.809	0.57
55_G	72_F	0.800	0.56
165_L	198_Q	0.796	0.56
130_F	155_K	0.794	0.56
281_Q	288_S	0.793	0.56
142_I	208_G	0.793	0.56
22_I	99_F	0.791	0.55
56_V	96_T	0.791	0.55
292_S	296_G	0.789	0.55
94_V	139_I	0.787	0.55
15_E	29_R	0.785	0.55
167_M	171_T	0.784	0.55
67_S	76_L	0.781	0.54
242_I	246_D	0.780	0.54
141_K	201_S	0.779	0.54
261_D	264_G	0.778	0.54
11_V	75_T	0.775	0.54
102_R	142_I	0.770	0.53
265_M	269_M	0.768	0.53
116_M	227_N	0.767	0.53
189_K	193_E	0.765	0.53
62_D	68_E	0.764	0.53
288_S	297_S	0.763	0.53
285_A	290_P	0.761	0.53
11_V	38_I	0.758	0.52
31_I	88_R	0.754	0.52
173_E	183_N	0.751	0.52
23_F	191_I	0.750	0.52
166_L	191_I	0.749	0.51
11_V	88_R	0.746	0.51
101_V	155_K	0.744	0.51
284_Q	288_S	0.744	0.51
101_V	128_F	0.736	0.50
285_A	296_G	0.733	0.50
265_M	273_N	0.729	0.50
105_T	109_I	0.725	0.49
228_A	231_G	0.725	0.49
243_S	246_D	0.722	0.49
48_L	139_I	0.720	0.49
138_L	166_L	0.718	0.48
279_M	282_N	0.717	0.48
4_F	72_F	0.714	0.48
263_A	267_M	0.713	0.48
260_S	266_M	0.712	0.48
21_M	148_Q	0.711	0.48
107_Q	125_N	0.710	0.48
137_S	140_D	0.708	0.47
288_S	295_S	0.708	0.47
55_G	86_G	0.706	0.47
227_N	232_M	0.705	0.47
118_G	225_T	0.702	0.47
98_E	141_K	0.701	0.47
239_Y	268_G	0.699	0.47
155_K	158_I	0.691	0.46
46_V	139_I	0.688	0.46
240_Q	248_M	0.688	0.46
115_G	119_G	0.688	0.46
292_S	298_K	0.687	0.45
106_K	271_M	0.687	0.45
211_I	270_N	0.685	0.45
125_N	213_S	0.680	0.45
252_K	272_A	0.680	0.45
118_G	234_G	0.678	0.45
269_M	273_N	0.677	0.45
293_T	296_G	0.676	0.44
226_K	239_Y	0.676	0.44
66_E	206_V	0.672	0.44
283_Q	287_S	0.672	0.44
278_Q	289_G	0.668	0.44
7_Q	27_N	0.663	0.43
56_V	132_V	0.656	0.43
100_T	130_F	0.652	0.42
90_E	143_A	0.649	0.42
256_S	285_A	0.644	0.41
263_A	271_M	0.643	0.41
287_S	295_S	0.639	0.41
274_Q	283_Q	0.638	0.41
79_F	83_F	0.637	0.41
221_Q	225_T	0.635	0.41
166_L	170_I	0.633	0.40
172_R	186_D	0.633	0.40
19_D	153_D	0.631	0.40
258_A	270_N	0.627	0.40
115_G	221_Q	0.626	0.40
281_Q	285_A	0.625	0.40
100_T	132_V	0.625	0.40
47_F	54_E	0.624	0.40
38_I	157_R	0.623	0.39
227_N	234_G	0.623	0.39
13_E	29_R	0.622	0.39
161_I	210_Q	0.622	0.39
276_M	282_N	0.622	0.39
20_D	99_F	0.622	0.39
105_T	124_A	0.621	0.39
112_P	221_Q	0.621	0.39
194_D	197_M	0.621	0.39
290_P	294_G	0.620	0.39
175_K	219_E	0.618	0.39
6_N	27_N	0.616	0.39
286_Q	290_P	0.615	0.39
189_K	293_T	0.614	0.39
162_L	187_I	0.614	0.39
50_N	67_S	0.612	0.38
30_E	103_W	0.611	0.38
29_R	75_T	0.611	0.38
21_M	150_F	0.611	0.38
257_G	261_D	0.611	0.38
274_Q	287_S	0.611	0.38
103_W	210_Q	0.608	0.38
111_I	170_I	0.607	0.38
158_I	204_M	0.607	0.38
239_Y	249_A	0.605	0.38
211_I	222_D	0.605	0.38
57_F	65_I	0.605	0.38
50_N	77_K	0.604	0.38
35_S	79_F	0.603	0.38
286_Q	294_G	0.599	0.37
278_Q	294_G	0.598	0.37
245_T	249_A	0.598	0.37
220_V	228_A	0.598	0.37
15_E	25_K	0.598	0.37
150_F	206_V	0.596	0.37
270_N	280_N	0.594	0.37
291_Q	296_G	0.593	0.37
12_V	35_S	0.589	0.36
235_D	240_Q	0.589	0.36
36_R	86_G	0.588	0.36
220_V	232_M	0.587	0.36
277_N	280_N	0.585	0.36
53_V	218_Q	0.584	0.36
3_F	7_Q	0.584	0.36
289_G	296_G	0.583	0.36
287_S	298_K	0.582	0.36
11_V	62_D	0.581	0.36
133_Q	253_M	0.581	0.36
43_Q	105_T	0.580	0.36
47_F	65_I	0.580	0.36
277_N	285_A	0.579	0.35
32_K	83_F	0.577	0.35
123_R	181_Q	0.576	0.35
125_N	162_L	0.576	0.35
179_N	221_Q	0.575	0.35
144_G	217_P	0.575	0.35
157_R	245_T	0.575	0.35
32_K	91_V	0.575	0.35
231_G	247_G	0.574	0.35
282_N	289_G	0.573	0.35
18_R	170_I	0.570	0.35
33_K	68_E	0.569	0.35
50_N	83_F	0.568	0.35
289_G	293_T	0.568	0.35
261_D	273_N	0.567	0.34
58_Q	63_Y	0.564	0.34
262_M	266_M	0.563	0.34
120_M	170_I	0.561	0.34
139_I	177_M	0.560	0.34
278_Q	285_A	0.559	0.34
32_K	89_A	0.558	0.34
93_F	271_M	0.557	0.34
13_E	32_K	0.556	0.33
125_N	215_N	0.556	0.33
119_G	176_D	0.556	0.33
4_F	243_S	0.555	0.33
240_Q	279_M	0.555	0.33
58_Q	135_Y	0.553	0.33
280_N	287_S	0.553	0.33
30_E	85_S	0.552	0.33
49_N	68_E	0.550	0.33
215_N	221_Q	0.550	0.33
156_T	265_M	0.548	0.33
219_E	225_T	0.547	0.33
284_Q	291_Q	0.547	0.33
58_Q	72_F	0.547	0.33
73_L	90_E	0.547	0.33
142_I	158_I	0.545	0.33
25_K	92_L	0.545	0.33
187_I	194_D	0.545	0.33
235_D	241_Q	0.544	0.32
227_N	239_Y	0.544	0.32
137_S	141_K	0.542	0.32
189_K	281_Q	0.541	0.32
274_Q	278_Q	0.541	0.32
16_E	40_R	0.540	0.32
284_Q	295_S	0.539	0.32
14_W	43_Q	0.537	0.32
83_F	220_V	0.537	0.32
120_M	173_E	0.536	0.32
7_Q	63_Y	0.536	0.32
206_V	281_Q	0.536	0.32
171_T	215_N	0.535	0.32
18_R	95_N	0.533	0.32
251_G	264_G	0.533	0.32
285_A	295_S	0.530	0.31
251_G	261_D	0.530	0.31
49_N	89_A	0.529	0.31
112_P	119_G	0.528	0.31
56_V	246_D	0.526	0.31
184_A	188_A	0.526	0.31
148_Q	189_K	0.525	0.31
152_E	202_D	0.525	0.31
56_V	136_I	0.524	0.31
186_D	189_K	0.524	0.31
30_E	70_I	0.523	0.31
164_Q	191_I	0.522	0.31
266_M	272_A	0.522	0.31
164_Q	210_Q	0.519	0.30
10_N	219_E	0.516	0.30
199_L	206_V	0.515	0.30
51_G	71_P	0.514	0.30
101_V	151_V	0.511	0.30
161_I	202_D	0.510	0.30
163_D	167_M	0.509	0.30
94_V	273_N	0.508	0.30
121_P	220_V	0.508	0.30
274_Q	279_M	0.507	0.29
270_N	276_M	0.507	0.29
113_A	119_G	0.506	0.29
82_G	124_A	0.505	0.29
3_F	29_R	0.504	0.29
99_F	187_I	0.503	0.29
104_G	126_G	0.502	0.29
3_F	11_V	0.501	0.29
9_A	64_D	0.501	0.29
49_N	77_K	0.500	0.29

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
4fvgA	2	0.3375	99.6	0.852	Contact Map
1winA	1	0.4427	99.5	0.856	Contact Map
3bk6A	3	0.5263	99.3	0.874	Contact Map
2rpbA	1	0.3498	99.1	0.882	Contact Map
3h0gL	1	0.0836	95.9	0.94	Contact Map
2lcqA	1	0.4458	89.4	0.953	Contact Map
1twfL	1	0.0867	86.7	0.955	Contact Map
3wwlA	1	0.0805	86.7	0.955	Contact Map
2jrpA	1	0.13	83.7	0.956	Contact Map
4aybP	1	0.0712	81	0.958	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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