YFNG - BACSU - GREMLIN Contacts

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YFNG - Putative sugar dehydratase/epimerase YfnG

UniProt:	O06485	Sequences: MSFWKNKNVFVTGCTGLLGSYLVKELIEQGANVTGLVRDHVPQSNLYQGEHIKKMNIVRGSLEDLAVIERALGEYEIDTVFHLAAQAIVGVANRNPISTFEANILGTWNILEACRKHPLIKRVIVASSDKAYGDQENLPYDENMPLQGKHPYDVSKSCADLISHTYFHTYGLPVCITRCGNLYGGGDLNFNRIIPQTIQLVLNGEAPEIRSDGTFVRDYFYIEDAVQAYLLLAEKMEENNLAGEAFNFSNEIQLTVLELVEKILKKMNSNLKPKVLNQGSNEIKHQYLSAEKARKLLNWTPAYTIDEGLEKTIEWYTEFFKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	322 (289)
Sequences:	61474 (43004)
Seq/√Len:	2529.6

ECOLI - RMLB2 RMLB1 GM4D GALE YBJS FCL HLDD YFCH RMLD YEEZ QOR2 ARNA YBJT YRAR
BACSU - YFNG RMLB GALE YTCB SPSK YFHF YTBQ YESF YHFK YWNB EPSC YHEG
HALSA - Q9HSU9 Q9HSV1 Q9HRD1 Q9HSE7 Q9HS50 Q9HML4 Q9HSQ3 Q9HNV3 Q9HPF1 Q9HR86
SULSO - Q980W1 Q97VN5 Q7LXG5 Q97XJ9 Q7LXE8 Q97XG1 Q97UM3 Q7LX44 Q7LXE6 Q97XF9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
14_C	35_G	3.297	1.00
8_N	32_N	3.016	1.00
262_K	306_D	2.732	1.00
228_A	248_F	2.703	1.00
25_E	227_Q	2.693	1.00
244_E	292_K	2.647	1.00
246_F	296_L	2.566	1.00
69_E	116_K	2.518	1.00
101_E	105_L	2.444	1.00
79_T	233_A	2.296	1.00
126_A	229_Y	2.276	1.00
265_K	306_D	2.256	1.00
36_L	60_G	2.252	1.00
64_D	67_V	2.241	1.00
304_T	307_E	2.198	1.00
82_H	125_V	2.189	1.00
95_N	98_S	2.163	1.00
12_T	82_H	2.157	1.00
122_R	173_P	2.156	1.00
294_R	300_T	2.108	1.00
183_Y	308_G	2.092	1.00
25_E	29_Q	2.086	1.00
141_D	144_M	2.038	1.00
81_F	233_A	2.019	1.00
60_G	67_V	2.013	1.00
227_Q	302_A	2.000	1.00
11_V	23_V	1.978	1.00
10_F	77_I	1.975	1.00
25_E	230_L	1.936	1.00
257_L	261_E	1.907	1.00
29_Q	234_E	1.893	1.00
266_K	310_E	1.864	1.00
8_N	34_T	1.853	1.00
34_T	56_N	1.850	1.00
32_N	56_N	1.828	1.00
179_C	229_Y	1.825	1.00
163_S	174_V	1.814	1.00
223_E	311_K	1.803	1.00
34_T	77_I	1.800	1.00
227_Q	231_L	1.794	1.00
262_K	265_K	1.770	1.00
255_T	258_E	1.714	1.00
177_T	232_L	1.664	1.00
65_L	112_E	1.661	1.00
63_E	101_E	1.661	1.00
34_T	58_V	1.661	1.00
22_L	226_V	1.656	1.00
22_L	81_F	1.634	1.00
127_S	131_A	1.619	1.00
221_Y	311_K	1.618	1.00
251_E	294_R	1.612	1.00
69_E	113_A	1.606	1.00
39_D	57_I	1.585	1.00
199_Q	203_N	1.578	1.00
108_W	112_E	1.559	1.00
108_W	162_I	1.548	1.00
293_A	297_L	1.511	1.00
132_Y	247_N	1.510	1.00
22_L	83_L	1.499	1.00
142_E	292_K	1.493	1.00
25_E	28_E	1.486	1.00
78_D	121_K	1.486	1.00
18_L	182_L	1.474	1.00
29_Q	230_L	1.464	1.00
82_H	107_T	1.455	1.00
100_F	158_C	1.455	1.00
9_V	31_A	1.452	1.00
115_R	170_Y	1.450	1.00
230_L	234_E	1.444	1.00
258_E	261_E	1.441	1.00
262_K	266_K	1.437	1.00
105_L	108_W	1.432	1.00
221_Y	308_G	1.430	1.00
103_N	155_S	1.413	1.00
290_A	294_R	1.404	1.00
97_I	101_E	1.403	1.00
179_C	225_A	1.401	1.00
23_V	35_G	1.389	1.00
152_Y	156_K	1.381	1.00
80_V	114_C	1.380	1.00
83_L	126_A	1.371	1.00
200_L	205_E	1.370	1.00
81_F	229_Y	1.370	1.00
157_S	161_L	1.363	1.00
25_E	226_V	1.357	1.00
122_R	175_C	1.356	1.00
67_V	70_R	1.354	1.00
177_T	229_Y	1.354	1.00
180_G	288_L	1.349	1.00
107_T	159_A	1.332	1.00
222_I	226_V	1.321	1.00
231_L	235_K	1.314	1.00
69_E	117_H	1.313	1.00
65_L	109_N	1.299	1.00
110_I	123_V	1.298	1.00
126_A	179_C	1.293	1.00
146_L	157_S	1.274	1.00
15_T	37_V	1.263	1.00
62_L	106_G	1.257	1.00
307_E	310_E	1.253	1.00
161_L	164_H	1.251	1.00
218_D	251_E	1.238	1.00
31_A	234_E	1.233	1.00
24_K	186_G	1.225	1.00
14_C	23_V	1.210	1.00
65_L	69_E	1.208	1.00
307_E	311_K	1.201	1.00
290_A	301_P	1.190	1.00
72_L	80_V	1.174	1.00
140_Y	144_M	1.170	1.00
112_E	115_R	1.170	1.00
111_L	166_Y	1.169	1.00
114_C	123_V	1.169	1.00
141_D	289_S	1.161	1.00
125_V	159_A	1.158	1.00
257_L	275_V	1.156	1.00
9_V	26_L	1.155	1.00
220_F	225_A	1.153	1.00
216_V	253_Q	1.149	1.00
244_E	296_L	1.140	1.00
70_R	73_G	1.128	1.00
178_R	245_A	1.127	1.00
73_G	117_H	1.125	1.00
137_N	141_D	1.124	1.00
137_N	144_M	1.119	1.00
8_N	78_D	1.108	1.00
17_L	184_G	1.101	1.00
26_L	230_L	1.098	1.00
125_V	163_S	1.091	1.00
112_E	116_K	1.091	1.00
62_L	84_A	1.086	1.00
27_I	55_M	1.086	1.00
9_V	79_T	1.085	1.00
72_L	77_I	1.084	1.00
164_H	176_I	1.078	1.00
178_R	247_N	1.075	1.00
154_V	158_C	1.073	1.00
21_Y	223_E	1.068	1.00
164_H	245_A	1.067	1.00
160_D	178_R	1.067	1.00
10_F	36_L	1.063	1.00
143_N	292_K	1.057	1.00
35_G	55_M	1.054	1.00
24_K	28_E	1.052	1.00
254_L	305_I	1.050	1.00
264_L	270_N	1.050	1.00
292_K	296_L	1.045	1.00
224_D	250_N	1.039	1.00
69_E	73_G	1.034	1.00
83_L	229_Y	1.032	1.00
208_E	274_K	1.032	1.00
124_I	177_T	1.030	1.00
228_A	293_A	1.026	1.00
20_S	186_G	1.018	1.00
214_T	257_L	1.018	1.00
227_Q	299_W	1.018	1.00
25_E	223_E	1.017	1.00
183_Y	221_Y	1.014	1.00
111_L	123_V	1.006	1.00
221_Y	224_D	1.006	1.00
68_I	113_A	1.003	1.00
167_F	174_V	0.992	1.00
261_E	264_L	0.992	1.00
12_T	84_A	0.981	1.00
102_A	106_G	0.981	1.00
162_I	165_T	0.976	1.00
306_D	310_E	0.973	1.00
17_L	222_I	0.972	1.00
66_A	69_E	0.968	1.00
266_K	313_I	0.966	1.00
115_R	172_L	0.959	1.00
66_A	70_R	0.957	1.00
125_V	176_I	0.953	1.00
164_H	174_V	0.953	1.00
86_Q	102_A	0.952	1.00
182_L	225_A	0.951	1.00
8_N	77_I	0.950	1.00
34_T	76_E	0.950	1.00
113_A	117_H	0.949	1.00
193_I	197_T	0.944	1.00
27_I	54_K	0.942	1.00
39_D	42_P	0.932	1.00
276_L	279_G	0.932	1.00
206_A	274_K	0.931	1.00
246_F	292_K	0.930	1.00
105_L	109_N	0.927	1.00
249_S	288_L	0.926	1.00
165_T	169_T	0.924	1.00
173_P	242_A	0.922	1.00
91_V	95_N	0.922	1.00
9_V	81_F	0.921	1.00
123_V	163_S	0.915	1.00
127_S	160_D	0.914	1.00
72_L	113_A	0.910	1.00
36_L	71_A	0.906	1.00
36_L	68_I	0.906	1.00
114_C	120_I	0.901	1.00
235_K	240_N	0.899	1.00
267_M	313_I	0.896	1.00
109_N	112_E	0.895	1.00
111_L	162_I	0.890	1.00
199_Q	202_L	0.889	1.00
206_A	272_K	0.885	1.00
58_V	71_A	0.883	1.00
228_A	299_W	0.880	1.00
21_Y	222_I	0.877	1.00
231_L	297_L	0.869	1.00
22_L	26_L	0.865	1.00
232_L	297_L	0.862	1.00
266_K	309_L	0.861	1.00
216_V	255_T	0.861	1.00
214_T	255_T	0.861	1.00
67_V	71_A	0.859	1.00
253_Q	285_H	0.858	1.00
111_L	163_S	0.858	1.00
38_R	61_S	0.857	1.00
164_H	168_H	0.857	1.00
100_F	104_I	0.856	1.00
27_I	33_V	0.852	1.00
249_S	290_A	0.852	1.00
79_T	122_R	0.849	1.00
232_L	293_A	0.847	1.00
253_Q	287_Y	0.838	1.00
177_T	248_F	0.836	1.00
254_L	258_E	0.836	1.00
175_C	232_L	0.835	1.00
65_L	116_K	0.834	1.00
182_L	220_F	0.830	1.00
241_L	244_E	0.826	1.00
12_T	110_I	0.825	1.00
21_Y	24_K	0.825	1.00
248_F	293_A	0.819	1.00
37_V	57_I	0.819	1.00
23_V	33_V	0.818	1.00
99_T	155_S	0.818	1.00
129_D	180_G	0.816	1.00
72_L	117_H	0.816	1.00
176_I	245_A	0.815	1.00
196_Q	200_L	0.813	1.00
231_L	234_E	0.812	1.00
113_A	116_K	0.811	1.00
21_Y	25_E	0.811	1.00
266_K	306_D	0.809	1.00
104_I	158_C	0.808	1.00
138_L	144_M	0.806	1.00
40_H	59_R	0.804	1.00
264_L	271_L	0.802	1.00
36_L	67_V	0.793	1.00
100_F	105_L	0.791	1.00
31_A	78_D	0.780	1.00
9_V	233_A	0.778	1.00
8_N	31_A	0.776	1.00
63_E	102_A	0.776	1.00
254_L	259_L	0.776	1.00
72_L	114_C	0.771	1.00
158_C	161_L	0.763	1.00
10_F	60_G	0.763	1.00
106_G	109_N	0.762	1.00
192_R	195_P	0.762	1.00
180_G	249_S	0.760	1.00
100_F	155_S	0.757	1.00
196_Q	199_Q	0.756	1.00
39_D	59_R	0.754	1.00
109_N	113_A	0.752	1.00
261_E	265_K	0.751	1.00
148_G	153_D	0.747	1.00
264_L	269_S	0.744	1.00
131_A	160_D	0.740	1.00
142_E	293_A	0.740	1.00
251_E	290_A	0.734	1.00
21_Y	226_V	0.733	1.00
73_G	76_E	0.729	1.00
231_L	298_N	0.726	1.00
166_Y	170_Y	0.724	1.00
213_G	257_L	0.721	1.00
231_L	299_W	0.719	1.00
107_T	111_L	0.713	1.00
115_R	171_G	0.709	1.00
86_Q	103_N	0.708	1.00
227_Q	230_L	0.707	1.00
185_G	311_K	0.706	1.00
107_T	163_S	0.705	1.00
80_V	110_I	0.705	1.00
68_I	109_N	0.703	1.00
98_S	101_E	0.702	1.00
186_G	189_N	0.701	1.00
18_L	225_A	0.701	1.00
30_G	54_K	0.700	1.00
159_A	163_S	0.700	1.00
112_E	166_Y	0.699	1.00
22_L	229_Y	0.698	1.00
32_N	54_K	0.695	1.00
185_G	189_N	0.693	1.00
10_F	80_V	0.693	1.00
92_A	99_T	0.692	1.00
26_L	233_A	0.692	1.00
93_N	151_P	0.690	1.00
96_P	154_V	0.689	1.00
291_E	294_R	0.686	1.00
216_V	285_H	0.685	1.00
64_D	68_I	0.685	1.00
20_S	24_K	0.683	1.00
252_I	304_T	0.682	1.00
205_E	208_E	0.682	1.00
80_V	123_V	0.682	1.00
86_Q	99_T	0.679	1.00
61_S	64_D	0.678	1.00
197_T	200_L	0.673	1.00
235_K	241_L	0.663	1.00
161_L	165_T	0.662	1.00
82_H	110_I	0.659	1.00
8_N	76_E	0.659	1.00
129_D	288_L	0.657	1.00
198_I	202_L	0.653	1.00
121_K	173_P	0.652	1.00
135_Q	140_Y	0.649	1.00
259_L	305_I	0.649	1.00
86_Q	98_S	0.648	1.00
262_K	305_I	0.648	1.00
201_V	264_L	0.647	1.00
130_K	153_D	0.647	1.00
294_R	301_P	0.644	1.00
224_D	302_A	0.637	1.00
158_C	162_I	0.635	1.00
85_A	103_N	0.634	1.00
185_G	221_Y	0.632	1.00
218_D	250_N	0.632	1.00
224_D	227_Q	0.628	1.00
34_T	71_A	0.628	1.00
136_E	144_M	0.627	1.00
128_S	156_K	0.623	1.00
258_E	262_K	0.620	1.00
37_V	41_V	0.619	1.00
142_E	247_N	0.618	1.00
103_N	152_Y	0.617	1.00
277_N	280_S	0.615	1.00
10_F	71_A	0.615	1.00
241_L	296_L	0.612	1.00
181_N	217_R	0.612	1.00
115_R	166_Y	0.610	1.00
293_A	296_L	0.609	1.00
252_I	306_D	0.607	1.00
100_F	154_V	0.605	1.00
24_K	52_I	0.604	1.00
98_S	102_A	0.600	1.00
200_L	203_N	0.600	1.00
150_H	153_D	0.597	1.00
82_H	123_V	0.597	1.00
226_V	230_L	0.594	1.00
174_V	243_G	0.594	1.00
58_V	67_V	0.594	1.00
139_P	289_S	0.593	1.00
133_G	147_Q	0.592	1.00
154_V	161_L	0.591	1.00
30_G	33_V	0.587	1.00
183_Y	250_N	0.587	1.00
155_S	159_A	0.583	1.00
31_A	79_T	0.582	1.00
29_Q	227_Q	0.581	1.00
302_A	307_E	0.581	1.00
215_F	256_V	0.575	1.00
198_I	263_I	0.574	1.00
154_V	165_T	0.573	1.00
79_T	124_I	0.573	1.00
71_A	77_I	0.570	1.00
198_I	313_I	0.568	1.00
52_I	55_M	0.567	1.00
114_C	117_H	0.564	1.00
151_P	155_S	0.564	1.00
107_T	125_V	0.561	1.00
68_I	72_L	0.558	1.00
124_I	233_A	0.557	1.00
271_L	274_K	0.557	1.00
117_H	120_I	0.556	1.00
11_V	26_L	0.555	1.00
163_S	176_I	0.554	1.00
60_G	71_A	0.554	1.00
177_T	228_A	0.553	1.00
162_I	166_Y	0.551	1.00
124_I	229_Y	0.550	1.00
148_G	157_S	0.550	1.00
11_V	35_G	0.550	1.00
197_T	201_V	0.550	1.00
152_Y	155_S	0.549	1.00
10_F	72_L	0.547	1.00
126_A	177_T	0.547	1.00
151_P	154_V	0.547	1.00
117_H	121_K	0.547	1.00
225_A	248_F	0.546	1.00
15_T	39_D	0.546	1.00
179_C	182_L	0.545	1.00
124_I	232_L	0.545	1.00
204_G	269_S	0.545	1.00
204_G	207_P	0.544	1.00
218_D	253_Q	0.543	1.00
83_L	179_C	0.543	1.00
260_V	264_L	0.542	1.00
23_V	27_I	0.541	1.00
96_P	151_P	0.540	1.00
264_L	273_P	0.538	1.00
240_N	244_E	0.536	1.00
262_K	309_L	0.535	1.00
79_T	121_K	0.534	1.00
200_L	204_G	0.532	1.00
193_I	196_Q	0.531	1.00
180_G	218_D	0.531	1.00
264_L	267_M	0.530	1.00
216_V	287_Y	0.530	1.00
17_L	21_Y	0.527	1.00
201_V	207_P	0.526	1.00
128_S	131_A	0.525	1.00
200_L	208_E	0.522	1.00
175_C	240_N	0.521	1.00
38_R	41_V	0.520	1.00
246_F	293_A	0.519	1.00
26_L	81_F	0.518	1.00
131_A	178_R	0.515	1.00
135_Q	138_L	0.514	1.00
29_Q	231_L	0.514	1.00
24_K	223_E	0.513	1.00
181_N	219_Y	0.512	1.00
146_L	161_L	0.509	1.00
156_K	159_A	0.508	1.00
185_G	223_E	0.508	1.00
254_L	262_K	0.507	1.00
26_L	31_A	0.506	1.00
175_C	244_E	0.504	1.00
131_A	146_L	0.503	1.00
166_Y	172_L	0.502	1.00
280_S	283_I	0.502	1.00
73_G	116_K	0.501	1.00
221_Y	312_T	0.501	1.00
308_G	311_K	0.500	1.00
240_N	243_G	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
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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
1rkxA	3	0.9845	100	0.185	Contact Map
1sb8A	2	0.9783	100	0.185	Contact Map
3rufA	2	0.9689	100	0.189	Contact Map
2hunA	2	0.9658	100	0.198	Contact Map
4wokA	1	0.9503	100	0.203	Contact Map
1rpnA	4	0.9658	100	0.205	Contact Map
1orrA	3	0.9658	100	0.205	Contact Map
2q1sA	2	0.9348	100	0.206	Contact Map
2z1mA	4	0.9658	100	0.208	Contact Map
1gy8A	2	0.9845	100	0.21	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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