YCSN - BACSU - GREMLIN Contacts

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YCSN - Uncharacterized oxidoreductase YcsN

UniProt:	P42972	Sequences: MQRIQLAEDLQFSRVIHGLWRLNEWNYSDAELLSLIEWCIDHGITTFDHADIYGGYTCEKLFGNALALSPGLRENIELVTKCGIVLESPERPAHRSHHYNTSKSHILASVEQSLMNLRTDYIDMLLIHRPDPLMDPEGVAEAFQALKCSGKVRYFGVSNFKDHQYRMLESYLPEKLVTNQIELSAYELENMLDGTLNLCQEKRIPPMAWSPLAGGKVFTENTDKDRRVRTALESVQGEIGAASLDEVMYAWLYTHPAGIMPIVGSGKRERISAAINALSYKLDQDQWFRIFTAVQGYDIP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	300 (262)
Sequences:	32360 (20473)
Seq/√Len:	1264.8

ECOLI - YDHF YAJO YDJG TAS GPR YDBC DKGA YEAE DKGB
BACSU - YCSN YRPG IOLS GS69 YCCK YQKF GR YTBE
HALSA - Q9HPH9 Q9HNN3 Q9HQU7 Q9HSE6 Q9HS02 Q9HQT1
SULSO - Q97UG6 Q97ZZ1 Q97UV9 Q97UJ7 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_W	272_S	3.192	1.00
111_E	151_K	3.012	1.00
29_D	64_N	2.912	1.00
67_A	118_R	2.837	1.00
239_I	286_Q	2.734	1.00
110_V	146_L	2.520	1.00
5_Q	11_Q	2.517	1.00
283_D	286_Q	2.503	1.00
107_L	145_A	2.429	1.00
107_L	149_S	2.370	1.00
38_W	42_H	2.327	1.00
238_E	289_R	2.161	1.00
144_Q	148_C	2.065	1.00
233_E	237_G	2.009	1.00
238_E	286_Q	2.002	1.00
121_Y	153_R	1.992	1.00
33_L	64_N	1.978	1.00
254_T	287_W	1.977	1.00
4_I	14_R	1.968	1.00
112_Q	116_N	1.967	1.00
145_A	149_S	1.947	1.00
198_L	202_K	1.937	1.00
268_R	272_S	1.902	1.00
199_C	206_P	1.901	1.00
284_Q	288_F	1.887	1.00
72_L	75_N	1.885	1.00
234_S	289_R	1.852	1.00
103_K	145_A	1.835	1.00
57_T	60_K	1.831	1.00
38_W	268_R	1.825	1.00
16_I	46_T	1.821	1.00
126_L	178_T	1.797	1.00
42_H	272_S	1.761	1.00
241_A	280_Y	1.752	1.00
78_L	119_T	1.750	1.00
145_A	148_C	1.703	1.00
166_R	170_S	1.703	1.00
80_T	122_I	1.677	1.00
39_C	44_I	1.677	1.00
33_L	65_A	1.667	1.00
250_A	280_Y	1.648	1.00
103_K	107_L	1.642	1.00
60_K	116_N	1.633	1.00
42_H	275_I	1.632	1.00
28_S	31_E	1.624	1.00
231_A	234_S	1.619	1.00
80_T	113_S	1.616	1.00
243_S	273_A	1.613	1.00
166_R	198_L	1.602	1.00
82_C	125_L	1.598	1.00
110_V	125_L	1.587	1.00
276_N	279_S	1.575	1.00
107_L	111_E	1.573	1.00
79_V	126_L	1.566	1.00
33_L	37_E	1.566	1.00
38_W	41_D	1.564	1.00
288_F	292_T	1.561	1.00
82_C	106_I	1.557	1.00
205_P	260_M	1.550	1.00
142_A	145_A	1.541	1.00
19_L	47_F	1.501	1.00
108_A	112_Q	1.449	1.00
29_D	33_L	1.446	1.00
126_L	207_M	1.446	1.00
51_D	109_S	1.438	1.00
10_L	154_Y	1.428	1.00
40_I	76_I	1.425	1.00
197_N	201_E	1.404	1.00
122_I	152_V	1.403	1.00
161_K	164_Q	1.396	1.00
111_E	115_M	1.396	1.00
241_A	246_E	1.382	1.00
194_G	197_N	1.376	1.00
31_E	34_S	1.376	1.00
36_I	65_A	1.349	1.00
181_I	206_P	1.348	1.00
169_E	202_K	1.344	1.00
250_A	254_T	1.335	1.00
272_S	276_N	1.321	1.00
37_E	41_D	1.311	1.00
10_L	77_E	1.307	1.00
103_K	141_E	1.293	1.00
154_Y	177_V	1.292	1.00
107_L	142_A	1.290	1.00
265_S	270_R	1.282	1.00
112_Q	115_M	1.281	1.00
152_V	155_F	1.280	1.00
169_E	198_L	1.275	1.00
289_R	292_T	1.271	1.00
146_L	152_V	1.265	1.00
34_S	38_W	1.259	1.00
77_E	124_M	1.253	1.00
241_A	247_V	1.249	1.00
103_K	142_A	1.240	1.00
231_A	289_R	1.231	1.00
117_L	122_I	1.226	1.00
265_S	271_I	1.225	1.00
162_D	198_L	1.222	1.00
7_A	177_V	1.217	1.00
243_S	246_E	1.210	1.00
59_E	113_S	1.209	1.00
257_A	291_F	1.205	1.00
73_R	121_Y	1.189	1.00
148_C	173_P	1.187	1.00
64_N	118_R	1.186	1.00
137_E	171_Y	1.179	1.00
47_F	62_F	1.176	1.00
63_G	118_R	1.176	1.00
30_A	34_S	1.172	1.00
196_L	200_Q	1.171	1.00
124_M	178_T	1.159	1.00
73_R	119_T	1.157	1.00
234_S	238_E	1.157	1.00
233_E	244_L	1.151	1.00
200_Q	256_P	1.144	1.00
60_K	64_N	1.137	1.00
269_E	272_S	1.136	1.00
105_H	108_A	1.130	1.00
130_P	164_Q	1.129	1.00
110_V	122_I	1.125	1.00
46_T	207_M	1.124	1.00
104_S	108_A	1.124	1.00
186_Y	229_R	1.115	1.00
166_R	201_E	1.114	1.00
235_V	247_V	1.106	1.00
147_K	177_V	1.105	1.00
102_S	105_H	1.104	1.00
185_A	290_I	1.101	1.00
46_T	79_V	1.094	1.00
8_E	154_Y	1.092	1.00
166_R	202_K	1.089	1.00
111_E	149_S	1.089	1.00
143_F	155_F	1.082	1.00
252_L	261_P	1.074	1.00
35_L	271_I	1.073	1.00
144_Q	147_K	1.071	1.00
182_E	187_E	1.070	1.00
19_L	62_F	1.059	1.00
138_G	141_E	1.057	1.00
127_I	143_F	1.053	1.00
37_E	65_A	1.052	1.00
230_T	234_S	1.043	1.00
234_S	237_G	1.033	1.00
45_T	77_E	1.022	1.00
246_E	276_N	1.020	1.00
167_M	171_Y	1.014	1.00
34_S	268_R	1.013	1.00
101_T	127_I	1.012	1.00
146_L	151_K	1.008	1.00
232_L	244_L	1.000	1.00
200_Q	257_A	0.998	1.00
162_D	166_R	0.984	1.00
230_T	233_E	0.983	1.00
5_Q	9_D	0.983	1.00
157_V	176_L	0.978	1.00
253_Y	277_A	0.974	1.00
13_S	45_T	0.973	1.00
185_A	248_M	0.962	1.00
137_E	167_M	0.954	1.00
59_E	116_N	0.950	1.00
178_T	207_M	0.945	1.00
246_E	273_A	0.943	1.00
14_R	253_Y	0.941	1.00
271_I	275_I	0.941	1.00
13_S	44_I	0.939	1.00
141_E	145_A	0.938	1.00
146_L	149_S	0.936	1.00
8_E	177_V	0.936	1.00
200_Q	258_G	0.934	1.00
197_N	200_Q	0.931	1.00
147_K	174_E	0.930	1.00
66_L	76_I	0.930	1.00
207_M	260_M	0.927	1.00
103_K	138_G	0.926	1.00
193_D	197_N	0.926	1.00
123_D	153_R	0.925	1.00
51_D	105_H	0.919	1.00
142_A	146_L	0.913	1.00
273_A	276_N	0.908	1.00
60_K	115_M	0.905	1.00
51_D	86_L	0.904	1.00
107_L	110_V	0.899	1.00
144_Q	173_P	0.892	1.00
34_S	37_E	0.891	1.00
269_E	273_A	0.886	1.00
14_R	278_L	0.881	1.00
79_V	207_M	0.881	1.00
108_A	111_E	0.876	1.00
36_I	47_F	0.875	1.00
157_V	165_Y	0.874	1.00
179_N	199_C	0.872	1.00
288_F	291_F	0.872	1.00
254_T	281_K	0.867	1.00
235_V	239_I	0.861	1.00
267_K	270_R	0.859	1.00
79_V	124_M	0.851	1.00
285_D	289_R	0.846	1.00
144_Q	172_L	0.844	1.00
155_F	176_L	0.843	1.00
141_E	144_Q	0.843	1.00
167_M	170_S	0.840	1.00
107_L	146_L	0.839	1.00
249_Y	277_A	0.839	1.00
40_I	72_L	0.838	1.00
285_D	288_F	0.832	1.00
238_E	283_D	0.832	1.00
8_E	147_K	0.830	1.00
198_L	201_E	0.827	1.00
29_D	57_T	0.824	1.00
144_Q	155_F	0.815	1.00
239_I	283_D	0.815	1.00
165_Y	204_I	0.815	1.00
29_D	61_L	0.808	1.00
159_N	209_W	0.806	1.00
188_L	291_F	0.798	1.00
19_L	58_C	0.797	1.00
196_L	257_A	0.795	1.00
17_H	39_C	0.794	1.00
196_L	206_P	0.789	1.00
51_D	116_N	0.780	1.00
114_L	151_K	0.774	1.00
170_S	174_E	0.772	1.00
248_M	252_L	0.769	1.00
38_W	271_I	0.768	1.00
80_T	125_L	0.768	1.00
129_R	159_N	0.767	1.00
49_H	62_F	0.766	1.00
254_T	284_Q	0.766	1.00
183_L	196_L	0.763	1.00
192_L	197_N	0.762	1.00
250_A	277_A	0.758	1.00
211_P	263_V	0.757	1.00
169_E	175_K	0.740	1.00
208_A	211_P	0.739	1.00
162_D	195_T	0.737	1.00
51_D	112_Q	0.727	1.00
30_A	33_L	0.727	1.00
140_A	168_L	0.726	1.00
266_G	270_R	0.724	1.00
4_I	205_P	0.722	1.00
114_L	119_T	0.721	1.00
195_T	199_C	0.721	1.00
16_I	263_V	0.720	1.00
101_T	139_V	0.717	1.00
42_H	276_N	0.717	1.00
188_L	192_L	0.717	1.00
40_I	47_F	0.701	1.00
37_E	70_P	0.701	1.00
44_I	275_I	0.700	1.00
162_D	194_G	0.697	1.00
208_A	261_P	0.697	1.00
231_A	293_A	0.695	1.00
32_L	61_L	0.695	1.00
251_W	291_F	0.694	1.00
140_A	176_L	0.693	1.00
140_A	155_F	0.690	1.00
17_H	22_L	0.690	1.00
109_S	112_Q	0.689	1.00
15_V	253_Y	0.686	1.00
35_L	268_R	0.684	1.00
74_E	121_Y	0.682	1.00
110_V	151_K	0.677	1.00
188_L	193_D	0.677	1.00
113_S	125_L	0.677	1.00
106_I	146_L	0.676	1.00
157_V	160_F	0.675	1.00
199_C	204_I	0.674	1.00
235_V	286_Q	0.671	1.00
37_E	72_L	0.669	1.00
282_L	287_W	0.668	1.00
157_V	179_N	0.662	1.00
239_I	247_V	0.661	1.00
12_F	260_M	0.658	1.00
205_P	259_I	0.657	1.00
45_T	75_N	0.657	1.00
42_H	271_I	0.655	1.00
140_A	172_L	0.654	1.00
21_R	214_G	0.654	1.00
106_I	139_V	0.654	1.00
232_L	290_I	0.653	1.00
252_L	259_I	0.651	1.00
211_P	252_L	0.650	1.00
10_L	153_R	0.650	1.00
36_I	40_I	0.649	1.00
245_D	273_A	0.647	1.00
20_W	210_S	0.644	1.00
247_V	282_L	0.642	1.00
270_R	273_A	0.642	1.00
226_R	230_T	0.641	1.00
122_I	125_L	0.639	1.00
147_K	154_Y	0.639	1.00
52_I	83_G	0.636	1.00
229_R	233_E	0.635	1.00
126_L	156_G	0.629	1.00
31_E	268_R	0.628	1.00
236_Q	247_V	0.627	1.00
241_A	279_S	0.624	1.00
226_R	229_R	0.622	1.00
37_E	71_G	0.620	1.00
135_D	138_G	0.619	1.00
71_G	76_I	0.619	1.00
227_R	230_T	0.619	1.00
106_I	142_A	0.617	1.00
143_F	147_K	0.616	1.00
237_G	240_G	0.616	1.00
147_K	152_V	0.616	1.00
82_C	101_T	0.616	1.00
110_V	114_L	0.615	1.00
139_V	142_A	0.614	1.00
183_L	252_L	0.613	1.00
67_A	71_G	0.608	1.00
35_L	265_S	0.605	1.00
48_D	180_Q	0.603	1.00
183_L	206_P	0.597	1.00
232_L	248_M	0.595	1.00
282_L	286_Q	0.593	1.00
41_D	268_R	0.592	1.00
241_A	250_A	0.589	1.00
23_N	58_C	0.587	1.00
136_P	171_Y	0.586	1.00
16_I	260_M	0.586	1.00
107_L	151_K	0.586	1.00
22_L	35_L	0.586	1.00
236_Q	244_L	0.585	1.00
286_Q	289_R	0.584	1.00
86_L	105_H	0.583	1.00
166_R	169_E	0.580	1.00
131_D	134_M	0.579	1.00
125_L	143_F	0.577	1.00
183_L	188_L	0.577	1.00
169_E	172_L	0.576	1.00
24_E	61_L	0.576	1.00
247_V	280_Y	0.575	1.00
208_A	258_G	0.573	1.00
227_R	231_A	0.573	1.00
102_S	139_V	0.573	1.00
40_I	45_T	0.572	1.00
57_T	61_L	0.572	1.00
247_V	290_I	0.570	1.00
40_I	75_N	0.569	1.00
247_V	286_Q	0.568	1.00
114_L	122_I	0.568	1.00
164_Q	167_M	0.567	1.00
236_Q	239_I	0.566	1.00
22_L	32_L	0.564	1.00
235_V	289_R	0.562	1.00
125_L	152_V	0.562	1.00
210_S	214_G	0.561	1.00
135_D	167_M	0.560	1.00
185_A	251_W	0.559	1.00
114_L	120_D	0.558	1.00
241_A	276_N	0.558	1.00
82_C	109_S	0.557	1.00
15_V	278_L	0.555	1.00
216_K	229_R	0.554	1.00
6_L	205_P	0.553	1.00
186_Y	216_K	0.549	1.00
36_I	62_F	0.548	1.00
72_L	76_I	0.547	1.00
114_L	121_Y	0.546	1.00
16_I	262_I	0.545	1.00
136_P	139_V	0.543	1.00
12_F	46_T	0.538	1.00
84_I	129_R	0.537	1.00
157_V	168_L	0.535	1.00
253_Y	261_P	0.533	1.00
51_D	83_G	0.532	1.00
144_Q	174_E	0.532	1.00
172_L	176_L	0.531	1.00
127_I	139_V	0.530	1.00
17_H	35_L	0.529	1.00
183_L	259_I	0.529	1.00
59_E	80_T	0.526	1.00
235_V	238_E	0.526	1.00
47_F	66_L	0.524	1.00
62_F	65_A	0.523	1.00
39_C	47_F	0.523	1.00
268_R	271_I	0.520	1.00
250_A	281_K	0.519	1.00
40_I	65_A	0.517	1.00
84_I	101_T	0.517	1.00
246_E	280_Y	0.517	1.00
103_K	106_I	0.516	1.00
136_P	167_M	0.514	1.00
110_V	142_A	0.514	1.00
46_T	77_E	0.513	1.00
49_H	58_C	0.512	1.00
40_I	71_G	0.509	1.00
137_E	141_E	0.509	1.00
265_S	274_A	0.508	1.00
232_L	236_Q	0.507	1.00
169_E	204_I	0.501	1.00
130_P	160_F	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
4r9oA	5	0.9733	100	0.075	Contact Map
1pyfA	1	0.9467	100	0.086	Contact Map
3eauA	3	0.97	100	0.089	Contact Map
1pz1A	1	0.9633	100	0.09	Contact Map
3lutA	3	0.9667	100	0.09	Contact Map
3v0sA	1	0.9	100	0.091	Contact Map
4xk2A	5	0.94	100	0.093	Contact Map
1lqaA	2	0.98	100	0.093	Contact Map
3n2tA	1	0.97	100	0.101	Contact Map
3n6qA	5	0.9667	100	0.107	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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