YDDN - BACSU - GREMLIN Contacts

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YDDN - Uncharacterized protein YddN

UniProt:	P96651	Sequences: MKKFDISVLSVAPLRQGETMKQGIDSAVSLAKAVDNMGYKRIWFAEHHNHDAYASAATVSIVQHILANTKDIRVGSGGIMLPNHSPLIVAEQFGTLETLYPNRVDLALGRAPGTDQKTADVIRRSNHNGVFFFEREVNDILRFVGDKSVQGEVRAYPGIGTHVPVFVLGSSTDSAEIAAKLGLPYAFGAQFSPHSMEEALSIYRENFQPSSYLQEPYVIACINVIAAESIDEASFISASHLQVYIDIYTNNLSKLIPPTENFLESLSQFELEILHSRLGYTIMGDRETIRRELIDFQQMYHADELIVLSNIYELSKEIQSYEILKQVVDELFKKRMEQL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	339 (296)
Sequences:	16333 (10296)
Seq/√Len:	598.4

ECOLI - YHBW RUTA SSUD
BACSU - YDDN YTMO YVBT YWCH YCEB SSUD YXEK MOXC
HALSA - Q9HQZ9
SULSO - Q97Y17

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
230_I	288_T	5.263	1.00
32_K	68_N	3.254	1.00
33_A	322_E	2.818	1.00
230_I	285_D	2.736	1.00
73_R	105_D	2.667	1.00
134_E	180_K	2.643	1.00
292_E	295_D	2.565	1.00
33_A	36_N	2.558	1.00
35_D	71_D	2.535	1.00
176_E	206_N	2.463	1.00
229_S	232_E	2.447	1.00
230_I	234_S	2.414	1.00
201_S	205_E	2.411	1.00
66_L	100_Y	2.399	1.00
62_V	74_V	2.312	1.00
285_D	288_T	2.306	1.00
227_A	232_E	2.281	1.00
175_A	202_I	2.162	1.00
138_N	181_L	2.160	1.00
200_L	204_R	2.135	1.00
207_F	216_P	2.119	1.00
205_E	209_P	2.094	1.00
32_K	36_N	2.088	1.00
25_D	101_P	2.084	1.00
28_V	32_K	2.080	1.00
200_L	218_V	2.051	1.00
322_E	326_Q	2.049	1.00
324_L	328_V	2.036	1.00
31_A	65_I	2.025	1.00
202_I	206_N	2.024	1.00
228_E	327_V	1.992	1.00
197_E	201_S	1.986	1.00
197_E	299_M	1.976	1.00
37_M	325_K	1.971	1.00
231_D	235_F	1.937	1.00
295_D	299_M	1.875	1.00
145_G	162_H	1.836	1.00
42_I	72_I	1.819	1.00
29_S	32_K	1.810	1.00
66_L	74_V	1.808	1.00
282_I	289_I	1.796	1.00
28_V	68_N	1.785	1.00
97_E	102_N	1.784	1.00
179_A	206_N	1.773	1.00
57_A	92_Q	1.752	1.00
93_F	104_V	1.752	1.00
43_W	75_G	1.748	1.00
256_I	260_E	1.718	1.00
206_N	209_P	1.664	1.00
31_A	42_I	1.616	1.00
116_Q	120_D	1.615	1.00
176_E	209_P	1.596	1.00
202_I	205_E	1.588	1.00
138_N	142_R	1.588	1.00
65_I	74_V	1.585	1.00
261_N	264_E	1.585	1.00
141_L	162_H	1.576	1.00
93_F	106_L	1.561	1.00
33_A	37_M	1.557	1.00
198_E	201_S	1.538	1.00
238_A	242_Q	1.537	1.00
226_A	289_I	1.510	1.00
169_G	185_Y	1.495	1.00
288_T	291_R	1.480	1.00
141_L	181_L	1.471	1.00
287_E	291_R	1.464	1.00
19_T	22_Q	1.453	1.00
28_V	64_H	1.441	1.00
176_E	180_K	1.436	1.00
290_R	294_I	1.416	1.00
220_A	302_A	1.401	1.00
323_I	327_V	1.395	1.00
31_A	69_T	1.385	1.00
36_N	70_K	1.380	1.00
294_I	297_Q	1.357	1.00
232_E	236_I	1.354	1.00
141_L	165_V	1.333	1.00
64_H	67_A	1.325	1.00
142_R	146_D	1.324	1.00
35_D	69_T	1.323	1.00
142_R	147_K	1.321	1.00
134_E	181_L	1.313	1.00
25_D	29_S	1.294	1.00
22_Q	26_S	1.292	1.00
288_T	292_E	1.292	1.00
57_A	60_S	1.288	1.00
64_H	99_L	1.280	1.00
227_A	233_A	1.279	1.00
291_R	295_D	1.272	1.00
166_F	219_I	1.269	1.00
286_R	323_I	1.268	1.00
207_F	212_Y	1.258	1.00
84_H	92_Q	1.250	1.00
217_Y	303_D	1.242	1.00
225_I	236_I	1.238	1.00
29_S	33_A	1.228	1.00
226_A	286_R	1.227	1.00
235_F	238_A	1.216	1.00
44_F	62_V	1.212	1.00
179_A	210_S	1.208	1.00
128_N	131_F	1.200	1.00
56_A	95_T	1.196	1.00
257_P	260_E	1.187	1.00
75_G	105_D	1.185	1.00
35_D	70_K	1.180	1.00
89_V	136_E	1.180	1.00
172_T	202_I	1.179	1.00
176_E	202_I	1.169	1.00
44_F	65_I	1.168	1.00
176_E	210_S	1.165	1.00
254_K	258_P	1.163	1.00
166_F	184_P	1.163	1.00
96_L	104_V	1.149	1.00
267_S	270_E	1.142	1.00
180_K	210_S	1.140	1.00
262_F	265_S	1.139	1.00
31_A	72_I	1.138	1.00
106_L	140_I	1.138	1.00
137_V	181_L	1.136	1.00
37_M	321_Y	1.135	1.00
232_E	235_F	1.131	1.00
141_L	183_L	1.129	1.00
173_D	176_E	1.124	1.00
138_N	151_G	1.118	1.00
101_P	158_G	1.116	1.00
134_E	138_N	1.115	1.00
159_I	162_H	1.106	1.00
228_E	232_E	1.106	1.00
256_I	259_T	1.103	1.00
237_S	241_L	1.100	1.00
206_N	210_S	1.100	1.00
193_P	295_D	1.087	1.00
62_V	76_S	1.085	1.00
60_S	63_Q	1.084	1.00
88_I	92_Q	1.066	1.00
79_I	89_V	1.053	1.00
195_S	198_E	1.052	1.00
36_N	322_E	1.051	1.00
284_G	289_I	1.050	1.00
59_V	92_Q	1.048	1.00
108_L	137_V	1.044	1.00
64_H	68_N	1.038	1.00
132_F	135_R	1.036	1.00
21_K	25_D	1.029	1.00
140_I	144_V	1.027	1.00
282_I	292_E	1.026	1.00
32_K	70_K	1.024	1.00
262_F	266_L	1.021	1.00
261_N	265_S	1.018	1.00
78_G	168_L	1.018	1.00
135_R	139_D	1.017	1.00
217_Y	304_E	1.016	1.00
226_A	323_I	1.011	1.00
207_F	213_L	1.011	1.00
235_F	239_S	1.010	1.00
149_V	152_E	1.007	1.00
197_E	300_Y	1.002	1.00
262_F	267_S	1.001	1.00
224_V	307_V	0.994	1.00
97_E	161_T	0.994	1.00
264_E	267_S	0.991	1.00
307_V	324_L	0.990	1.00
60_S	96_L	0.989	1.00
263_L	266_L	0.986	1.00
29_S	314_L	0.983	1.00
198_E	202_I	0.982	1.00
141_L	145_G	0.982	1.00
234_S	238_A	0.981	1.00
39_Y	325_K	0.977	1.00
97_E	160_G	0.974	1.00
131_F	173_D	0.969	1.00
290_R	328_V	0.969	1.00
320_S	323_I	0.966	1.00
192_S	195_S	0.965	1.00
155_A	159_I	0.958	1.00
139_D	142_R	0.956	1.00
78_G	109_G	0.952	1.00
26_S	29_S	0.949	1.00
59_V	79_I	0.949	1.00
186_A	219_I	0.943	1.00
227_A	236_I	0.935	1.00
134_E	177_I	0.927	1.00
26_S	314_L	0.926	1.00
222_I	293_L	0.925	1.00
222_I	282_I	0.925	1.00
41_R	75_G	0.923	1.00
208_Q	213_L	0.912	1.00
148_S	152_E	0.910	1.00
148_S	151_G	0.907	1.00
177_I	181_L	0.907	1.00
228_E	323_I	0.899	1.00
237_S	283_M	0.893	1.00
114_T	118_T	0.893	1.00
34_V	321_Y	0.890	1.00
226_A	328_V	0.885	1.00
178_A	185_Y	0.884	1.00
193_P	197_E	0.883	1.00
224_V	324_L	0.883	1.00
153_V	156_Y	0.883	1.00
128_N	132_F	0.879	1.00
86_P	139_D	0.878	1.00
175_A	179_A	0.875	1.00
261_N	266_L	0.874	1.00
231_D	234_S	0.873	1.00
254_K	257_P	0.872	1.00
63_Q	67_A	0.871	1.00
321_Y	325_K	0.871	1.00
132_F	136_E	0.871	1.00
25_D	28_V	0.869	1.00
204_R	218_V	0.861	1.00
175_A	206_N	0.852	1.00
255_L	258_P	0.851	1.00
263_L	267_S	0.848	1.00
291_R	294_I	0.839	1.00
24_I	99_L	0.837	1.00
139_D	151_G	0.837	1.00
66_L	104_V	0.836	1.00
243_V	246_D	0.836	1.00
255_L	260_E	0.835	1.00
62_V	66_L	0.831	1.00
265_S	268_Q	0.830	1.00
41_R	304_E	0.829	1.00
81_L	136_E	0.827	1.00
266_L	269_F	0.826	1.00
29_S	36_N	0.822	1.00
155_A	158_G	0.819	1.00
294_I	299_M	0.817	1.00
167_V	178_A	0.817	1.00
142_R	149_V	0.812	1.00
201_S	301_H	0.809	1.00
203_Y	207_F	0.808	1.00
265_S	269_F	0.805	1.00
236_I	323_I	0.805	1.00
255_L	259_T	0.804	1.00
115_D	118_T	0.794	1.00
204_R	208_Q	0.793	1.00
144_V	163_V	0.793	1.00
250_N	253_S	0.790	1.00
134_E	173_D	0.790	1.00
81_L	89_V	0.789	1.00
36_N	326_Q	0.787	1.00
234_S	278_L	0.785	1.00
98_T	158_G	0.785	1.00
207_F	210_S	0.782	1.00
23_G	26_S	0.779	1.00
239_S	243_V	0.778	1.00
67_A	100_Y	0.777	1.00
185_Y	203_Y	0.777	1.00
245_I	248_Y	0.777	1.00
200_L	203_Y	0.776	1.00
207_F	214_Q	0.775	1.00
239_S	242_Q	0.774	1.00
94_G	153_V	0.773	1.00
229_S	233_A	0.771	1.00
176_E	205_E	0.768	1.00
254_K	260_E	0.767	1.00
142_R	151_G	0.765	1.00
97_E	159_I	0.764	1.00
97_E	162_H	0.761	1.00
98_T	161_T	0.760	1.00
172_T	206_N	0.758	1.00
136_E	140_I	0.752	1.00
309_S	324_L	0.750	1.00
167_V	174_S	0.750	1.00
130_V	173_D	0.747	1.00
62_V	104_V	0.747	1.00
66_L	96_L	0.744	1.00
105_D	166_F	0.735	1.00
113_G	118_T	0.734	1.00
143_F	149_V	0.731	1.00
175_A	185_Y	0.731	1.00
89_V	140_I	0.730	1.00
43_W	77_G	0.728	1.00
172_T	176_E	0.720	1.00
30_L	321_Y	0.715	1.00
62_V	96_L	0.713	1.00
116_Q	126_N	0.711	1.00
236_I	239_S	0.710	1.00
194_H	197_E	0.709	1.00
73_R	164_P	0.709	1.00
138_N	180_K	0.708	1.00
242_Q	246_D	0.707	1.00
40_K	71_D	0.706	1.00
234_S	283_M	0.705	1.00
207_F	215_E	0.702	1.00
262_F	269_F	0.701	1.00
42_I	65_I	0.701	1.00
25_D	67_A	0.696	1.00
48_H	91_E	0.696	1.00
117_K	120_D	0.696	1.00
221_C	306_I	0.694	1.00
200_L	300_Y	0.693	1.00
26_S	30_L	0.691	1.00
264_E	268_Q	0.688	1.00
261_N	267_S	0.686	1.00
263_L	269_F	0.683	1.00
153_V	157_P	0.683	1.00
41_R	306_I	0.682	1.00
28_V	65_I	0.678	1.00
46_E	84_H	0.677	1.00
245_I	249_T	0.677	1.00
127_H	173_D	0.676	1.00
234_S	237_S	0.676	1.00
203_Y	216_P	0.675	1.00
84_H	88_I	0.674	1.00
33_A	325_K	0.674	1.00
24_I	64_H	0.670	1.00
167_V	182_G	0.670	1.00
80_M	113_G	0.669	1.00
40_K	73_R	0.669	1.00
218_V	302_A	0.667	1.00
59_V	93_F	0.666	1.00
238_A	241_L	0.666	1.00
142_R	145_G	0.665	1.00
110_R	129_G	0.664	1.00
110_R	133_F	0.663	1.00
187_F	199_A	0.662	1.00
93_F	144_V	0.661	1.00
85_S	88_I	0.659	1.00
138_N	141_L	0.659	1.00
167_V	177_I	0.651	1.00
79_I	93_F	0.651	1.00
86_P	136_E	0.649	1.00
76_S	104_V	0.643	1.00
287_E	290_R	0.642	1.00
28_V	31_A	0.641	1.00
254_K	259_T	0.638	1.00
156_Y	159_I	0.638	1.00
169_G	174_S	0.635	1.00
74_V	100_Y	0.633	1.00
108_L	140_I	0.633	1.00
24_I	28_V	0.632	1.00
219_I	304_E	0.632	1.00
154_R	157_P	0.632	1.00
44_F	61_I	0.631	1.00
297_Q	302_A	0.631	1.00
87_L	143_F	0.630	1.00
35_D	72_I	0.626	1.00
94_G	155_A	0.626	1.00
210_S	213_L	0.625	1.00
309_S	321_Y	0.622	1.00
286_R	327_V	0.621	1.00
293_L	305_L	0.620	1.00
108_L	165_V	0.619	1.00
25_D	70_K	0.619	1.00
247_I	250_N	0.618	1.00
137_V	167_V	0.618	1.00
75_G	166_F	0.617	1.00
230_I	233_A	0.615	1.00
180_K	206_N	0.614	1.00
204_R	303_D	0.614	1.00
97_E	157_P	0.613	1.00
69_T	72_I	0.613	1.00
243_V	247_I	0.611	1.00
97_E	100_Y	0.609	1.00
135_R	138_N	0.607	1.00
193_P	300_Y	0.606	1.00
179_A	207_F	0.605	1.00
63_Q	96_L	0.604	1.00
69_T	103_R	0.604	1.00
180_K	209_P	0.603	1.00
28_V	67_A	0.602	1.00
292_E	296_F	0.602	1.00
34_V	72_I	0.601	1.00
193_P	299_M	0.600	1.00
261_N	269_F	0.599	1.00
240_H	243_V	0.598	1.00
84_H	89_V	0.597	1.00
224_V	282_I	0.597	1.00
247_I	251_N	0.596	1.00
61_I	95_T	0.596	1.00
204_R	301_H	0.595	1.00
124_R	132_F	0.594	1.00
173_D	177_I	0.590	1.00
222_I	305_L	0.587	1.00
20_M	23_G	0.586	1.00
265_S	270_E	0.584	1.00
175_A	203_Y	0.584	1.00
241_L	244_Y	0.582	1.00
125_S	128_N	0.581	1.00
264_E	269_F	0.579	1.00
201_S	204_R	0.578	1.00
172_T	198_E	0.577	1.00
81_L	108_L	0.576	1.00
215_E	303_D	0.576	1.00
228_E	286_R	0.575	1.00
154_R	159_I	0.575	1.00
164_P	217_Y	0.573	1.00
146_D	149_V	0.571	1.00
94_G	144_V	0.570	1.00
107_A	168_L	0.569	1.00
204_R	213_L	0.569	1.00
280_Y	292_E	0.568	1.00
293_L	307_V	0.564	1.00
122_I	125_S	0.562	1.00
286_R	326_Q	0.561	1.00
204_R	214_Q	0.557	0.99
270_E	277_R	0.557	0.99
258_P	261_N	0.557	0.99
170_S	188_G	0.557	0.99
204_R	207_F	0.556	0.99
205_E	208_Q	0.556	0.99
184_P	217_Y	0.554	0.99
147_K	151_G	0.554	0.99
248_Y	251_N	0.554	0.99
196_M	199_A	0.554	0.99
63_Q	100_Y	0.553	0.99
22_Q	25_D	0.552	0.99
286_R	290_R	0.551	0.99
270_E	276_S	0.546	0.99
63_Q	66_L	0.545	0.99
85_S	124_R	0.541	0.99
133_F	167_V	0.540	0.99
203_Y	218_V	0.539	0.99
248_Y	253_S	0.538	0.99
90_A	144_V	0.537	0.99
248_Y	252_L	0.536	0.99
227_A	230_I	0.534	0.99
166_F	304_E	0.534	0.99
287_E	327_V	0.530	0.99
220_A	296_F	0.530	0.99
191_F	195_S	0.529	0.99
64_H	100_Y	0.529	0.99
223_N	308_L	0.527	0.99
229_S	235_F	0.526	0.99
36_N	71_D	0.525	0.99
60_S	92_Q	0.525	0.99
60_S	64_H	0.525	0.99
177_I	180_K	0.521	0.99
78_G	107_A	0.520	0.99
199_A	202_I	0.520	0.99
97_E	163_V	0.519	0.99
262_F	268_Q	0.519	0.99
105_D	304_E	0.519	0.99
105_D	164_P	0.518	0.99
162_H	183_L	0.516	0.99
60_S	95_T	0.516	0.99
246_D	249_T	0.515	0.99
225_I	237_S	0.510	0.99
113_G	119_A	0.510	0.99
247_I	252_L	0.506	0.99
266_L	270_E	0.505	0.99
144_V	165_V	0.501	0.99
170_S	189_A	0.500	0.99

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)
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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
1lucA	1	0.9263	100	0.201	Contact Map
2wgkA	2	0.9764	100	0.214	Contact Map
1lucB	1	0.9086	100	0.217	Contact Map
4us5A	3	0.9587	100	0.221	Contact Map
2i7gA	2	0.9528	100	0.228	Contact Map
3raoA	2	0.9617	100	0.245	Contact Map
1ezwA	3	0.9204	100	0.248	Contact Map
3c8nA	2	0.9204	100	0.259	Contact Map
3b9oA	2	0.9676	100	0.267	Contact Map
1rhcA	2	0.9115	100	0.269	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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