YDJN - BACSU - GREMLIN Contacts

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YDJN - Uncharacterized protein YdjN

UniProt:	O34353	Sequences: MKKRIILLLAVIIAAAAAGVAFYVAKDKGHEKAADVSVNTESGDELLVSITDTDLLTKYYENDKVIHEEKLTSYPAFALDQKQQVLYYTGNNEQNEMRLFKLDLKSHKKTMLYKGAESADSLFLSKDRSTIYFRLGKADESNFRIAAFDLKTKKYKNLYPAANDQDDTVSSFFYNQKNDSFALLHYSVEEDYKKTDEANEKGIDPEPTTIHFAEGRQNKFNELKSLNQFISDIAVSDDDKRILFTSYTQKGTEQTASIQMLNADTKKYESIISNQKSFKLLIDAQPQFSKDGKNIYFLAEAKGAKKLKDETGREAKVRTIYSYSLENKTFKKVWENPNGIINSFFVIN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	348 (273)
Sequences:	317 (307)
Seq/√Len:	18.6

BACSU - YDJN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
300_E	304_A	5.460	1.00
275_Q	300_E	5.088	1.00
226_L	248_T	4.658	1.00
237_D	292_G	4.465	1.00
275_Q	298_L	4.277	1.00
243_L	288_F	4.048	1.00
226_L	244_F	3.950	1.00
258_I	298_L	3.612	1.00
262_N	309_D	3.398	1.00
226_L	261_L	3.329	1.00
281_L	286_P	2.926	0.99
244_F	261_L	2.920	0.99
246_S	290_K	2.906	0.99
246_S	257_S	2.812	0.98
236_S	289_S	2.726	0.98
226_L	246_S	2.719	0.98
244_F	256_A	2.693	0.98
244_F	248_T	2.505	0.97
225_S	244_F	2.422	0.96
243_L	297_F	2.417	0.96
232_D	281_L	2.367	0.95
242_I	295_I	2.311	0.95
227_N	307_L	2.302	0.95
275_Q	304_A	2.255	0.94
248_T	257_S	2.210	0.93
232_D	245_T	2.180	0.93
261_L	308_K	2.165	0.92
259_Q	271_I	2.127	0.92
237_D	288_F	2.091	0.91
297_F	307_L	2.090	0.91
274_N	300_E	2.080	0.91
262_N	267_K	1.976	0.88
260_M	292_G	1.940	0.88
235_V	239_D	1.905	0.87
241_R	260_M	1.885	0.86
248_T	261_L	1.867	0.85
226_L	259_Q	1.850	0.85
285_Q	299_A	1.816	0.84
280_L	284_A	1.724	0.80
57_T	286_P	1.696	0.79
248_T	302_K	1.682	0.79
228_Q	231_S	1.678	0.78
262_N	285_Q	1.671	0.78
225_S	261_L	1.640	0.77
229_F	285_Q	1.621	0.76
235_V	291_D	1.603	0.75
302_K	306_K	1.573	0.74
230_I	261_L	1.567	0.73
237_D	260_M	1.563	0.73
288_F	292_G	1.534	0.72
243_L	266_K	1.475	0.69
223_L	228_Q	1.447	0.67
34_A	44_D	1.444	0.67
223_L	230_I	1.442	0.67
36_V	50_I	1.431	0.66
243_L	295_I	1.421	0.66
245_T	299_A	1.404	0.65
263_A	306_K	1.385	0.64
248_T	259_Q	1.376	0.63
239_D	291_D	1.370	0.63
246_S	264_D	1.359	0.62
266_K	291_D	1.353	0.62
236_S	288_F	1.346	0.61
248_T	275_Q	1.335	0.61
225_S	308_K	1.325	0.60
181_F	194_K	1.319	0.60
246_S	284_A	1.301	0.59
212_F	216_R	1.282	0.58
236_S	240_K	1.282	0.58
275_Q	302_K	1.278	0.57
43_G	57_T	1.275	0.57
256_A	277_S	1.265	0.56
238_D	289_S	1.236	0.55
274_N	306_K	1.229	0.54
52_D	258_I	1.223	0.54
166_D	170_S	1.215	0.53
235_V	308_K	1.214	0.53
258_I	286_P	1.185	0.52
262_N	298_L	1.185	0.52
238_D	293_K	1.177	0.51
281_L	298_L	1.175	0.51
298_L	308_K	1.164	0.50
261_L	286_P	1.164	0.50
230_I	263_A	1.163	0.50
266_K	306_K	1.155	0.50
288_F	305_K	1.148	0.49
134_R	223_L	1.134	0.48
284_A	301_A	1.117	0.47
259_Q	304_A	1.105	0.47
242_I	262_N	1.102	0.46
213_A	216_R	1.095	0.46
259_Q	268_Y	1.093	0.46
38_V	43_G	1.092	0.46
233_I	244_F	1.089	0.46
143_F	258_I	1.089	0.46
46_L	50_I	1.087	0.45
259_Q	306_K	1.087	0.45
94_Q	97_M	1.072	0.44
85_V	88_Y	1.069	0.44
221_N	299_A	1.059	0.44
209_T	219_K	1.056	0.43
217_Q	221_N	1.050	0.43
289_S	308_K	1.033	0.42
209_T	281_L	1.031	0.42
238_D	288_F	1.030	0.42
244_F	257_S	1.028	0.42
196_D	206_E	1.024	0.42
285_Q	300_E	1.024	0.42
149_D	152_T	1.022	0.41
45_E	49_S	1.022	0.41
226_L	308_K	1.018	0.41
49_S	53_T	1.015	0.41
257_S	269_E	1.012	0.41
37_S	52_D	1.009	0.41
234_A	239_D	1.006	0.40
243_L	310_E	0.998	0.40
248_T	268_Y	0.993	0.40
243_L	260_M	0.991	0.40
183_L	200_E	0.986	0.39
239_D	306_K	0.982	0.39
248_T	284_A	0.975	0.39
243_L	270_S	0.974	0.39
242_I	248_T	0.974	0.39
240_K	289_S	0.967	0.38
223_L	289_S	0.965	0.38
46_L	52_D	0.961	0.38
298_L	309_D	0.960	0.38
270_S	290_K	0.960	0.38
243_L	305_K	0.959	0.38
45_E	55_L	0.952	0.37
293_K	309_D	0.952	0.37
298_L	302_K	0.949	0.37
217_Q	220_F	0.947	0.37
263_A	273_S	0.944	0.37
239_D	292_G	0.942	0.37
28_K	31_E	0.932	0.36
272_I	287_Q	0.928	0.36
245_T	281_L	0.927	0.36
244_F	298_L	0.927	0.36
235_V	285_Q	0.924	0.36
243_L	292_G	0.923	0.36
300_E	303_G	0.923	0.36
233_I	239_D	0.921	0.35
111_M	262_N	0.921	0.35
230_I	287_Q	0.919	0.35
208_T	212_F	0.918	0.35
233_I	236_S	0.908	0.35
263_A	300_E	0.907	0.35
53_T	57_T	0.903	0.34
233_I	243_L	0.896	0.34
48_V	57_T	0.896	0.34
194_K	197_E	0.894	0.34
235_V	311_T	0.887	0.34
163_N	194_K	0.887	0.34
230_I	238_D	0.880	0.33
47_L	51_T	0.877	0.33
36_V	40_T	0.874	0.33
276_K	298_L	0.870	0.33
76_A	116_A	0.867	0.32
132_Y	143_F	0.865	0.32
244_F	271_I	0.863	0.32
239_D	289_S	0.862	0.32
231_S	247_Y	0.860	0.32
235_V	289_S	0.857	0.32
263_A	288_F	0.854	0.32
40_T	44_D	0.852	0.32
233_I	292_G	0.850	0.31
274_N	308_K	0.849	0.31
300_E	310_E	0.849	0.31
170_S	180_S	0.848	0.31
120_D	140_E	0.847	0.31
305_K	312_G	0.847	0.31
235_V	256_A	0.846	0.31
84_Q	109_K	0.843	0.31
221_N	303_G	0.838	0.31
262_N	280_L	0.836	0.31
256_A	268_Y	0.833	0.31
235_V	299_A	0.832	0.31
209_T	212_F	0.830	0.30
228_Q	248_T	0.829	0.30
243_L	272_I	0.828	0.30
232_D	286_P	0.827	0.30
37_S	45_E	0.826	0.30
225_S	259_Q	0.825	0.30
91_N	157_N	0.824	0.30
209_T	256_A	0.822	0.30
297_F	306_K	0.820	0.30
211_H	214_E	0.820	0.30
44_D	52_D	0.819	0.30
103_D	125_S	0.815	0.30
289_S	300_E	0.809	0.29
170_S	243_L	0.805	0.29
201_K	204_D	0.804	0.29
50_I	150_L	0.803	0.29
101_K	109_K	0.801	0.29
246_S	286_P	0.800	0.29
274_N	302_K	0.797	0.29
212_F	220_F	0.795	0.29
41_E	60_Y	0.789	0.28
138_A	144_R	0.788	0.28
298_L	305_K	0.787	0.28
149_D	217_Q	0.784	0.28
241_R	245_T	0.784	0.28
209_T	215_G	0.781	0.28
230_I	244_F	0.778	0.28
168_T	260_M	0.778	0.28
243_L	286_P	0.776	0.28
232_D	256_A	0.774	0.28
96_E	99_L	0.773	0.27
99_L	102_L	0.770	0.27
52_D	55_L	0.767	0.27
236_S	243_L	0.767	0.27
61_E	119_A	0.765	0.27
33_A	56_L	0.759	0.27
62_N	72_T	0.759	0.27
113_Y	153_K	0.756	0.27
64_K	67_H	0.753	0.27
44_D	54_D	0.750	0.26
285_Q	291_D	0.750	0.26
95_N	98_R	0.747	0.26
236_S	277_S	0.742	0.26
116_A	291_D	0.742	0.26
298_L	304_A	0.739	0.26
226_L	230_I	0.738	0.26
272_I	308_K	0.735	0.26
228_Q	305_K	0.735	0.26
267_K	307_L	0.733	0.26
298_L	310_E	0.733	0.26
290_K	297_F	0.731	0.25
31_E	34_A	0.730	0.25
259_Q	284_A	0.730	0.25
266_K	307_L	0.728	0.25
122_L	180_S	0.727	0.25
94_Q	152_T	0.723	0.25
219_K	222_E	0.723	0.25
242_I	309_D	0.721	0.25
113_Y	173_F	0.720	0.25
258_I	261_L	0.720	0.25
233_I	268_Y	0.718	0.25
199_N	207_P	0.718	0.25
239_D	274_N	0.716	0.25
272_I	306_K	0.713	0.25
193_K	197_E	0.711	0.25
240_K	291_D	0.711	0.25
30_H	33_A	0.708	0.24
34_A	37_S	0.708	0.24
190_E	246_S	0.707	0.24
132_Y	190_E	0.707	0.24
236_S	239_D	0.707	0.24
244_F	308_K	0.706	0.24
77_F	167_D	0.706	0.24
54_D	133_F	0.704	0.24
125_S	130_T	0.704	0.24
297_F	305_K	0.704	0.24
196_D	199_N	0.700	0.24
244_F	268_Y	0.699	0.24
47_L	53_T	0.698	0.24
228_Q	284_A	0.697	0.24
209_T	233_I	0.696	0.24
236_S	242_I	0.696	0.24
235_V	243_L	0.694	0.24
274_N	304_A	0.692	0.24
232_D	241_R	0.691	0.24
263_A	297_F	0.690	0.24
284_A	306_K	0.688	0.23
261_L	285_Q	0.684	0.23
211_H	277_S	0.683	0.23
280_L	309_D	0.679	0.23
267_K	273_S	0.678	0.23
49_S	60_Y	0.678	0.23
235_V	306_K	0.677	0.23
257_S	305_K	0.675	0.23
229_F	301_A	0.675	0.23
184_L	272_I	0.674	0.23
39_N	56_L	0.670	0.23
41_E	44_D	0.662	0.22
194_K	202_G	0.660	0.22
288_F	303_G	0.660	0.22
277_S	303_G	0.659	0.22
244_F	309_D	0.656	0.22
225_S	281_L	0.653	0.22
209_T	298_L	0.652	0.22
138_A	141_S	0.651	0.22
231_S	237_D	0.649	0.22
132_Y	204_D	0.648	0.22
277_S	311_T	0.647	0.22
57_T	60_Y	0.647	0.22
243_L	271_I	0.647	0.22
274_N	298_L	0.646	0.22
266_K	274_N	0.645	0.22
292_G	297_F	0.643	0.22
233_I	304_A	0.641	0.21
225_S	265_T	0.640	0.21
233_I	266_K	0.640	0.21
227_N	303_G	0.638	0.21
258_I	262_N	0.636	0.21
244_F	284_A	0.632	0.21
272_I	295_I	0.631	0.21
225_S	268_Y	0.627	0.21
37_S	44_D	0.624	0.21
38_V	281_L	0.623	0.21
292_G	307_L	0.623	0.21
211_H	219_K	0.621	0.21
246_S	273_S	0.619	0.21
209_T	274_N	0.619	0.21
183_L	192_Y	0.618	0.20
36_V	44_D	0.618	0.20
42_S	47_L	0.617	0.20
192_Y	198_A	0.615	0.20
229_F	256_A	0.612	0.20
66_I	73_S	0.611	0.20
289_S	292_G	0.609	0.20
274_N	289_S	0.609	0.20
115_G	155_Y	0.604	0.20
84_Q	188_V	0.604	0.20
263_A	293_K	0.602	0.20
110_T	135_L	0.601	0.20
214_E	221_N	0.597	0.20
140_E	277_S	0.595	0.20
55_L	60_Y	0.593	0.19
230_I	248_T	0.592	0.19
200_E	203_I	0.592	0.19
105_K	108_K	0.590	0.19
263_A	299_A	0.588	0.19
181_F	281_L	0.586	0.19
236_S	303_G	0.586	0.19
81_Q	90_G	0.585	0.19
124_L	137_K	0.585	0.19
267_K	272_I	0.583	0.19
210_I	284_A	0.582	0.19
256_A	297_F	0.581	0.19
108_K	111_M	0.579	0.19
114_K	119_A	0.578	0.19
212_F	280_L	0.573	0.19
38_V	51_T	0.572	0.19
49_S	230_I	0.571	0.19
272_I	302_K	0.570	0.19
243_L	299_A	0.568	0.19
178_N	204_D	0.567	0.18
41_E	284_A	0.565	0.18
210_I	214_E	0.562	0.18
206_E	290_K	0.562	0.18
190_E	193_K	0.561	0.18
165_Q	190_E	0.561	0.18
29_G	32_K	0.561	0.18
238_D	275_Q	0.561	0.18
209_T	305_K	0.560	0.18
63_D	295_I	0.560	0.18
248_T	309_D	0.560	0.18
157_N	167_D	0.560	0.18
140_E	184_L	0.559	0.18
187_S	269_E	0.558	0.18
117_E	175_N	0.557	0.18
217_Q	299_A	0.557	0.18
40_T	101_K	0.556	0.18
44_D	105_K	0.555	0.18
173_F	197_E	0.550	0.18
121_S	257_S	0.548	0.18
94_Q	158_L	0.547	0.18
77_F	90_G	0.544	0.18
247_Y	301_A	0.543	0.18
247_Y	300_E	0.543	0.18
224_K	299_A	0.541	0.18
245_T	302_K	0.540	0.17
236_S	293_K	0.537	0.17
258_I	267_K	0.536	0.17
40_T	49_S	0.535	0.17
47_L	93_E	0.534	0.17
149_D	153_K	0.534	0.17
153_K	156_K	0.533	0.17
233_I	241_R	0.533	0.17
175_N	197_E	0.532	0.17
179_D	294_N	0.532	0.17
75_P	143_F	0.532	0.17
207_P	306_K	0.531	0.17
158_L	182_A	0.530	0.17
236_S	269_E	0.529	0.17
49_S	52_D	0.527	0.17
40_T	45_E	0.526	0.17
116_A	130_T	0.526	0.17
239_D	300_E	0.526	0.17
110_T	218_N	0.526	0.17
209_T	220_F	0.525	0.17
299_A	310_E	0.525	0.17
271_I	293_K	0.524	0.17
259_Q	275_Q	0.521	0.17
67_H	173_F	0.520	0.17
101_K	113_Y	0.518	0.17
242_I	277_S	0.518	0.17
35_D	133_F	0.518	0.17
230_I	285_Q	0.517	0.17
268_Y	304_A	0.517	0.17
200_E	206_E	0.516	0.17
90_G	123_F	0.515	0.17
41_E	51_T	0.515	0.17
180_S	195_T	0.515	0.17
234_A	299_A	0.514	0.17
53_T	148_F	0.513	0.17
228_Q	242_I	0.513	0.17
242_I	288_F	0.511	0.16
228_Q	301_A	0.510	0.16
230_I	311_T	0.509	0.16
54_D	60_Y	0.509	0.16
258_I	290_K	0.505	0.16
294_N	313_R	0.505	0.16
230_I	240_K	0.505	0.16
241_R	307_L	0.504	0.16
70_K	73_S	0.503	0.16
211_H	284_A	0.500	0.16
226_L	284_A	0.500	0.16

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
4u1eI	1	0.3305	99.9	0.627	Contact Map
1vyhC	1	0.4511	99.8	0.656	Contact Map
4ui9I	1	0.3362	99.8	0.66	Contact Map
4j0wA	1	0.342	99.8	0.661	Contact Map
4j87A	1	0.454	99.8	0.663	Contact Map
3f3fA	1	0.342	99.8	0.667	Contact Map
4j73A	1	0.3362	99.8	0.668	Contact Map
3j60g	1	0.5029	99.8	0.67	Contact Map
3zey7	1	0.4713	99.8	0.672	Contact Map
5a1uC	1	0.4483	99.8	0.673	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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