YCJY - ECOLI - GREMLIN Contacts

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YCJY - Uncharacterized protein YcjY

UniProt:	P76049	Sequences: MMNNKVSFTNSNNPTISLSAVIYFPPKFDETRQYQAIVLSHPGGGVKEQTAGTYAKKLAEKGFVTIAYDASYQGESGGEPRQLENPYIRTEDISAVIDYLTTLSYVDNTRIGAMGICAGAGYTANAAIQDRRIKAIGTVSAVNIGSIFRNGWENNVKSIDALPYVEAGSNARTSDISSGEYAIMPLAPMKESDAPNEELRQAWEYYHTPRAQYPTAPGYATLRSLNQIITYDAYHMAEVYLTQPTQIVAGSQAGSKWMSDDLYDRASSQDKRYHIVEGANHMDLYDGKAYVAEAISVLAPFFEETL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13922
Length:	306 (252)
Sequences:	41566 (34371)
Seq/√Len:	2165.2

ECOLI - YCJY PLDB FRSA YJFP MHPC YFHR RUTD YBFF DLHH BIOH YGHX MENH PTRB YHET YNBC
BACSU - CAH YFHM YBFK YUGF MENH YQKD YISY RSBQ YCGS YDJP NAP YBAC PLBAC YITV YRAK YVAM YTAP YTMA EST YBDG YCLE YQJL YUXL
HALSA - Q9HPY2 Q9HPT9 Q9HHP4 Q9HRJ0 Q9HS46 Q9HN07 Q9HP29
SULSO - PIP Q7LXY9 Q97VD6 Q7LX61 Q97YB2 Q97WG0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
112_G	135_A	5.502	1.00
71_S	92_D	4.282	1.00
251_S	277_E	3.877	1.00
274_H	297_V	3.451	1.00
276_V	297_V	3.286	1.00
61_K	299_A	3.108	1.00
287_G	290_Y	3.037	1.00
251_S	275_I	2.844	1.00
112_G	134_K	2.758	1.00
94_S	126_A	2.741	1.00
126_A	130_D	2.462	1.00
113_A	123_T	2.374	1.00
94_S	130_D	2.276	1.00
127_A	136_I	2.273	1.00
94_S	98_D	2.215	1.00
120_A	141_A	2.168	1.00
258_M	275_I	2.150	1.00
125_N	129_Q	2.084	1.00
140_S	253_A	2.082	1.00
112_G	302_F	2.074	1.00
123_T	136_I	2.067	1.00
110_R	134_K	2.063	1.00
279_A	287_G	2.013	1.00
139_V	291_V	2.007	1.00
138_T	141_A	1.950	1.00
36_A	66_I	1.883	1.00
36_A	64_V	1.827	1.00
246_Q	274_H	1.815	1.00
112_G	137_G	1.813	1.00
236_M	240_Y	1.811	1.00
264_D	271_K	1.804	1.00
41_H	73_Q	1.800	1.00
297_V	300_P	1.768	1.00
40_S	70_A	1.735	1.00
70_A	122_Y	1.722	1.00
35_Q	112_G	1.712	1.00
296_S	300_P	1.700	1.00
93_I	126_A	1.698	1.00
68_Y	93_I	1.693	1.00
137_G	298_L	1.657	1.00
57_K	60_E	1.636	1.00
44_G	117_C	1.614	1.00
276_V	279_A	1.606	1.00
47_K	75_E	1.604	1.00
91_E	129_Q	1.591	1.00
41_H	70_A	1.576	1.00
63_F	112_G	1.568	1.00
126_A	133_I	1.558	1.00
245_T	267_S	1.549	1.00
262_L	266_A	1.548	1.00
40_S	93_I	1.537	1.00
199_L	202_A	1.524	1.00
57_K	299_A	1.507	1.00
272_R	297_V	1.482	1.00
124_A	138_T	1.466	1.00
90_T	125_N	1.440	1.00
85_N	88_I	1.419	1.00
39_L	114_M	1.417	1.00
114_M	139_V	1.411	1.00
137_G	246_Q	1.382	1.00
34_Y	64_V	1.378	1.00
261_D	265_R	1.342	1.00
125_N	128_I	1.329	1.00
57_K	61_K	1.327	1.00
59_A	65_T	1.313	1.00
47_K	67_A	1.313	1.00
35_Q	63_F	1.311	1.00
68_Y	96_V	1.296	1.00
218_G	221_T	1.294	1.00
97_I	111_I	1.290	1.00
55_A	67_A	1.285	1.00
40_S	68_Y	1.283	1.00
267_S	271_K	1.280	1.00
267_S	270_D	1.279	1.00
87_Y	129_Q	1.269	1.00
39_L	65_T	1.242	1.00
261_D	264_D	1.242	1.00
263_Y	266_A	1.231	1.00
35_Q	134_K	1.227	1.00
40_S	123_T	1.226	1.00
162_L	166_E	1.221	1.00
248_V	276_V	1.216	1.00
217_P	220_A	1.210	1.00
249_A	275_I	1.207	1.00
44_G	73_Q	1.195	1.00
97_I	105_Y	1.193	1.00
219_Y	223_R	1.186	1.00
166_E	170_N	1.177	1.00
63_F	302_F	1.173	1.00
66_I	100_L	1.168	1.00
70_A	118_A	1.164	1.00
247_I	271_K	1.162	1.00
31_T	34_Y	1.148	1.00
217_P	221_T	1.146	1.00
128_I	236_M	1.146	1.00
164_Y	168_G	1.144	1.00
262_L	265_R	1.143	1.00
94_S	129_Q	1.140	1.00
92_D	95_A	1.137	1.00
37_I	114_M	1.135	1.00
97_I	102_T	1.132	1.00
196_N	199_L	1.131	1.00
37_I	63_F	1.125	1.00
36_A	102_T	1.122	1.00
249_A	258_M	1.106	1.00
94_S	97_I	1.105	1.00
137_G	302_F	1.104	1.00
223_R	226_N	1.097	1.00
204_E	208_T	1.088	1.00
262_L	267_S	1.082	1.00
204_E	207_H	1.078	1.00
116_I	284_L	1.070	1.00
252_Q	278_G	1.070	1.00
89_R	92_D	1.068	1.00
104_S	134_K	1.062	1.00
251_S	278_G	1.058	1.00
69_D	74_G	1.053	1.00
221_T	224_S	1.053	1.00
249_A	273_Y	1.050	1.00
37_I	58_L	1.049	1.00
205_Y	209_P	1.045	1.00
88_I	91_E	1.044	1.00
53_T	56_K	1.044	1.00
113_A	126_A	1.043	1.00
96_V	100_L	1.042	1.00
66_I	96_V	1.041	1.00
125_N	236_M	1.031	1.00
203_W	206_Y	1.025	1.00
136_I	245_T	1.019	1.00
222_L	226_N	1.016	1.00
91_E	94_S	1.006	1.00
220_A	223_R	1.002	1.00
54_Y	57_K	0.995	1.00
205_Y	208_T	0.982	1.00
200_R	204_E	0.980	1.00
43_G	118_A	0.979	1.00
105_Y	111_I	0.973	1.00
172_R	175_D	0.972	1.00
227_Q	230_T	0.964	1.00
263_Y	271_K	0.962	1.00
59_A	62_G	0.957	1.00
116_I	282_M	0.952	1.00
169_S	172_R	0.952	1.00
115_G	123_T	0.950	1.00
279_A	286_D	0.942	1.00
140_S	283_D	0.939	1.00
114_M	298_L	0.937	1.00
165_V	169_S	0.937	1.00
290_Y	297_V	0.935	1.00
183_I	186_L	0.928	1.00
56_K	60_E	0.928	1.00
113_A	133_I	0.927	1.00
127_A	243_Q	0.925	1.00
162_L	165_V	0.918	1.00
214_P	218_G	0.909	1.00
183_I	187_A	0.905	1.00
47_K	69_D	0.897	1.00
188_P	191_E	0.894	1.00
37_I	65_T	0.894	1.00
55_A	65_T	0.889	1.00
165_V	168_G	0.884	1.00
206_Y	209_P	0.883	1.00
47_K	68_Y	0.880	1.00
55_A	59_A	0.873	1.00
98_D	102_T	0.872	1.00
35_Q	110_R	0.871	1.00
101_T	104_S	0.867	1.00
40_S	113_A	0.866	1.00
102_T	105_Y	0.865	1.00
127_A	133_I	0.859	1.00
263_Y	267_S	0.858	1.00
139_V	284_L	0.856	1.00
161_A	165_V	0.853	1.00
56_K	59_A	0.850	1.00
198_E	202_A	0.847	1.00
96_V	99_Y	0.847	1.00
218_G	222_L	0.843	1.00
185_P	188_P	0.840	1.00
163_P	166_E	0.838	1.00
44_G	118_A	0.837	1.00
220_A	224_S	0.836	1.00
202_A	206_Y	0.836	1.00
114_M	137_G	0.835	1.00
98_D	130_D	0.829	1.00
101_T	105_Y	0.827	1.00
166_E	169_S	0.825	1.00
42_P	117_C	0.825	1.00
160_D	164_Y	0.817	1.00
34_Y	63_F	0.815	1.00
102_T	111_I	0.805	1.00
219_Y	222_L	0.805	1.00
223_R	227_Q	0.804	1.00
184_M	188_P	0.801	1.00
276_V	290_Y	0.796	1.00
238_E	266_A	0.786	1.00
97_I	133_I	0.784	1.00
50_T	284_L	0.784	1.00
140_S	250_G	0.783	1.00
124_A	141_A	0.782	1.00
87_Y	91_E	0.781	1.00
39_L	58_L	0.779	1.00
199_L	209_P	0.776	1.00
185_P	189_M	0.775	1.00
140_S	249_A	0.775	1.00
279_A	283_D	0.774	1.00
38_V	113_A	0.773	1.00
247_I	273_Y	0.770	1.00
201_Q	205_Y	0.769	1.00
246_Q	272_R	0.763	1.00
184_M	187_A	0.763	1.00
111_I	133_I	0.760	1.00
224_S	227_Q	0.758	1.00
121_G	142_V	0.757	1.00
202_A	205_Y	0.756	1.00
222_L	225_L	0.743	1.00
43_G	73_Q	0.742	1.00
169_S	173_T	0.739	1.00
171_A	175_D	0.737	1.00
32_R	64_V	0.735	1.00
139_V	283_D	0.734	1.00
38_V	97_I	0.731	1.00
91_E	95_A	0.731	1.00
45_G	50_T	0.727	1.00
167_A	171_A	0.726	1.00
116_I	140_S	0.726	1.00
214_P	217_P	0.722	1.00
187_A	191_E	0.721	1.00
163_P	167_A	0.720	1.00
52_G	56_K	0.720	1.00
174_S	177_S	0.718	1.00
290_Y	296_S	0.716	1.00
233_A	236_M	0.714	1.00
38_V	68_Y	0.710	1.00
48_E	52_G	0.709	1.00
264_D	267_S	0.707	1.00
227_Q	231_Y	0.707	1.00
135_A	301_F	0.706	1.00
198_E	206_Y	0.705	1.00
35_Q	135_A	0.704	1.00
133_I	243_Q	0.703	1.00
90_T	122_Y	0.701	1.00
195_P	199_L	0.701	1.00
69_D	75_E	0.700	1.00
280_N	286_D	0.700	1.00
224_S	228_I	0.699	1.00
36_A	63_F	0.697	1.00
150_N	153_E	0.695	1.00
261_D	275_I	0.694	1.00
203_W	207_H	0.693	1.00
226_N	229_I	0.689	1.00
95_A	98_D	0.686	1.00
228_I	231_Y	0.685	1.00
95_A	99_Y	0.680	1.00
161_A	166_E	0.680	1.00
116_I	139_V	0.677	1.00
70_A	73_Q	0.673	1.00
186_L	190_K	0.671	1.00
144_I	147_I	0.671	1.00
248_V	283_D	0.670	1.00
196_N	200_R	0.667	1.00
201_Q	204_E	0.665	1.00
242_T	269_Q	0.664	1.00
276_V	287_G	0.663	1.00
63_F	299_A	0.662	1.00
99_Y	102_T	0.660	1.00
249_A	256_K	0.649	1.00
274_H	290_Y	0.647	1.00
186_L	189_M	0.646	1.00
225_L	228_I	0.645	1.00
220_A	225_L	0.643	1.00
161_A	168_G	0.643	1.00
202_A	207_H	0.641	1.00
215_T	218_G	0.639	1.00
69_D	76_S	0.637	1.00
96_V	101_T	0.637	1.00
167_A	172_R	0.636	1.00
248_V	297_V	0.636	1.00
127_A	241_L	0.636	1.00
274_H	300_P	0.636	1.00
168_G	172_R	0.635	1.00
177_S	180_E	0.631	1.00
128_I	240_Y	0.629	1.00
170_N	174_S	0.627	1.00
120_A	140_S	0.626	1.00
248_V	274_H	0.625	1.00
138_T	247_I	0.624	1.00
99_Y	103_L	0.621	1.00
173_T	176_I	0.618	1.00
161_A	164_Y	0.617	1.00
180_E	184_M	0.615	1.00
198_E	201_Q	0.609	1.00
52_G	67_A	0.605	1.00
115_G	120_A	0.605	1.00
170_N	173_T	0.603	1.00
160_D	163_P	0.603	1.00
171_A	174_S	0.602	1.00
39_L	67_A	0.601	1.00
54_Y	291_V	0.600	1.00
45_G	285_Y	0.599	1.00
89_R	93_I	0.593	1.00
143_N	146_S	0.592	1.00
181_Y	184_M	0.591	1.00
218_G	225_L	0.588	1.00
50_T	116_I	0.587	1.00
89_R	118_A	0.586	1.00
89_R	122_Y	0.585	1.00
250_G	283_D	0.585	1.00
90_T	129_Q	0.583	1.00
38_V	93_I	0.583	1.00
162_L	171_A	0.583	1.00
87_Y	125_N	0.582	1.00
118_A	122_Y	0.581	1.00
54_Y	58_L	0.579	1.00
226_N	230_T	0.578	1.00
83_L	88_I	0.577	1.00
120_A	124_A	0.576	1.00
251_S	258_M	0.575	1.00
151_G	154_N	0.573	1.00
246_Q	301_F	0.573	1.00
149_R	153_E	0.573	1.00
90_T	94_S	0.572	1.00
174_S	178_S	0.572	1.00
164_Y	169_S	0.570	1.00
183_I	191_E	0.569	1.00
135_A	244_P	0.567	1.00
195_P	198_E	0.565	1.00
40_S	122_Y	0.564	1.00
162_L	168_G	0.564	1.00
181_Y	185_P	0.564	1.00
97_I	126_A	0.562	1.00
162_L	167_A	0.558	1.00
37_I	112_G	0.556	1.00
282_M	285_Y	0.556	1.00
147_I	150_N	0.556	1.00
232_D	235_H	0.555	1.00
258_M	261_D	0.555	1.00
117_C	282_M	0.554	1.00
129_Q	236_M	0.549	1.00
182_A	186_L	0.549	1.00
160_D	168_G	0.549	1.00
296_S	299_A	0.546	1.00
197_E	201_Q	0.545	1.00
175_D	178_S	0.545	1.00
167_A	170_N	0.543	1.00
218_G	223_R	0.543	1.00
221_T	225_L	0.540	1.00
291_V	298_L	0.540	1.00
165_V	171_A	0.537	1.00
187_A	190_K	0.536	1.00
182_A	185_P	0.535	1.00
217_P	223_R	0.534	1.00
60_E	299_A	0.532	1.00
41_H	68_Y	0.532	1.00
199_L	203_W	0.529	1.00
198_E	203_W	0.528	1.00
216_A	221_T	0.528	1.00
184_M	190_K	0.524	1.00
92_D	96_V	0.523	1.00
289_A	296_S	0.521	1.00
200_R	203_W	0.520	1.00
278_G	287_G	0.518	1.00
189_M	192_S	0.517	1.00
184_M	191_E	0.516	1.00
177_S	181_Y	0.516	1.00
183_I	188_P	0.514	1.00
162_L	169_S	0.514	1.00
33_Q	64_V	0.514	1.00
57_K	289_A	0.511	1.00
120_A	138_T	0.508	1.00
161_A	167_A	0.507	1.00
187_A	192_S	0.507	1.00
136_I	243_Q	0.507	1.00
252_Q	277_E	0.505	1.00
36_A	111_I	0.505	1.00
135_A	302_F	0.504	1.00
38_V	111_I	0.503	1.00
42_P	116_I	0.503	1.00
235_H	238_E	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
2hdwA	2	0.9739	100	0.287	Contact Map
3pe6A	1	0.8987	100	0.308	Contact Map
1zoiA	3	0.8758	100	0.321	Contact Map
1a8sA	4	0.8693	100	0.336	Contact Map
3fobA	3	0.8922	100	0.338	Contact Map
1mtzA	1	0.915	100	0.34	Contact Map
3nwoA	1	0.9248	100	0.341	Contact Map
3hjuA	2	0.902	100	0.341	Contact Map
1ehyA	1	0.8627	100	0.341	Contact Map
2wtmA	2	0.8039	100	0.344	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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