YULF - BACSU - GREMLIN Contacts

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YULF - Uncharacterized oxidoreductase YulF

UniProt:	O05265	Sequences: MIRFAIIGTNWITDRFLESAADIEDFQLTAVYSRSAERAGEFAAKHNAAHAFSDLQEMAASDCFDAVYIASPNALHKEQAVLFMNHGKHVLCEKPFASNTKETEEMISAAKANGVVLMEAMKTTFLPNFKELKKHLHKIGTVRRFTASYCQYSSRYDAFRSGTVLNAFQPELSNGSLMDIGVYCIYPAVVLFGAPKDVKANGYALSSGVDGEGTVILSYDGFEAVLMHSKISTSYAPAEIQGEDGTIVIDTIHRPERVEIRYRDGRLENIAIPDPKPAMFYEAEEFVTLIKENKLESEENTFERSLTTAKIMEEARKQMGIVYPADQA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	328 (309)
Sequences:	25688 (19451)
Seq/√Len:	1106.5

ECOLI - YGJR YCJS YDGJ YHHX YJHC YCEM
BACSU - YULF NTDC YRBE YFII IOLW IOLX IOLG YTET
SULSO - Q97UH0 Q97UJ6 Q97UJ8 Q97UK3 Q97UK0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
56_Q	82_L	3.037	1.00
124_T	186_Y	2.787	1.00
81_V	109_A	2.773	1.00
77_K	105_E	2.760	1.00
197_D	218_S	2.704	1.00
3_R	27_Q	2.657	1.00
141_T	243_E	2.610	1.00
104_E	306_L	2.602	1.00
131_E	134_K	2.579	1.00
85_N	109_A	2.574	1.00
36_A	40_G	2.561	1.00
71_S	79_Q	2.373	1.00
133_K	137_H	2.366	1.00
196_K	220_D	2.356	1.00
77_K	102_E	2.343	1.00
81_V	85_N	2.339	1.00
5_A	58_M	2.329	1.00
81_V	105_E	2.312	1.00
89_H	116_V	2.283	1.00
215_V	315_A	2.247	1.00
84_M	115_V	2.185	1.00
30_A	52_F	2.095	1.00
317_K	321_I	2.093	1.00
75_L	79_Q	2.087	1.00
54_D	57_E	2.054	1.00
108_S	112_A	2.027	1.00
288_T	292_E	2.010	1.00
131_E	135_H	1.966	1.00
77_K	81_V	1.952	1.00
111_K	303_E	1.942	1.00
80_A	92_C	1.929	1.00
50_H	61_S	1.923	1.00
139_I	242_G	1.921	1.00
134_K	138_K	1.919	1.00
14_D	45_K	1.908	1.00
40_G	44_A	1.893	1.00
66_A	286_F	1.885	1.00
84_M	110_A	1.845	1.00
71_S	75_L	1.802	1.00
104_E	310_K	1.801	1.00
109_A	113_N	1.798	1.00
78_E	82_L	1.782	1.00
104_E	108_S	1.777	1.00
89_H	115_V	1.754	1.00
85_N	113_N	1.730	1.00
25_D	291_K	1.702	1.00
67_V	83_F	1.688	1.00
35_S	38_R	1.685	1.00
5_A	64_F	1.684	1.00
100_T	313_E	1.680	1.00
219_Y	224_A	1.665	1.00
20_A	68_Y	1.647	1.00
99_N	102_E	1.615	1.00
4_F	66_A	1.614	1.00
80_A	106_M	1.610	1.00
26_F	287_V	1.604	1.00
64_F	88_K	1.604	1.00
23_I	284_E	1.588	1.00
202_G	319_M	1.574	1.00
117_L	302_F	1.564	1.00
60_A	86_H	1.550	1.00
53_S	57_E	1.545	1.00
59_A	83_F	1.543	1.00
120_A	282_E	1.529	1.00
132_L	247_I	1.528	1.00
196_K	218_S	1.516	1.00
85_N	112_A	1.514	1.00
194_A	307_T	1.505	1.00
133_K	190_V	1.496	1.00
55_L	82_L	1.494	1.00
52_F	61_S	1.484	1.00
41_E	45_K	1.465	1.00
307_T	310_K	1.458	1.00
107_I	306_L	1.457	1.00
116_V	293_N	1.455	1.00
98_S	102_E	1.439	1.00
107_I	302_F	1.434	1.00
77_K	106_M	1.421	1.00
109_A	112_A	1.420	1.00
146_T	239_E	1.396	1.00
189_V	194_A	1.392	1.00
56_Q	60_A	1.385	1.00
36_A	53_S	1.380	1.00
57_E	60_A	1.376	1.00
194_A	220_D	1.375	1.00
143_R	243_E	1.374	1.00
97_A	106_M	1.361	1.00
84_M	113_N	1.350	1.00
97_A	103_T	1.340	1.00
239_E	248_V	1.339	1.00
52_F	58_M	1.330	1.00
82_L	85_N	1.327	1.00
288_T	294_K	1.324	1.00
57_E	61_S	1.316	1.00
189_V	307_T	1.316	1.00
103_T	306_L	1.296	1.00
39_A	51_A	1.295	1.00
139_I	245_G	1.291	1.00
82_L	86_H	1.282	1.00
285_E	289_L	1.266	1.00
100_T	310_K	1.265	1.00
9_T	31_V	1.264	1.00
32_Y	55_L	1.256	1.00
100_T	104_E	1.253	1.00
195_P	219_Y	1.250	1.00
201_N	218_S	1.236	1.00
3_R	29_T	1.218	1.00
32_Y	58_M	1.192	1.00
69_I	80_A	1.189	1.00
69_I	79_Q	1.185	1.00
185_I	311_I	1.183	1.00
105_E	108_S	1.183	1.00
285_E	299_E	1.170	1.00
3_R	65_D	1.170	1.00
55_L	79_Q	1.166	1.00
83_F	90_V	1.166	1.00
41_E	44_A	1.166	1.00
87_G	113_N	1.165	1.00
189_V	219_Y	1.161	1.00
107_I	303_E	1.157	1.00
146_T	227_M	1.152	1.00
142_V	240_I	1.151	1.00
37_E	40_G	1.146	1.00
74_A	172_L	1.143	1.00
237_P	248_V	1.140	1.00
135_H	138_K	1.138	1.00
84_M	109_A	1.133	1.00
301_T	304_R	1.132	1.00
96_F	103_T	1.117	1.00
169_Q	172_L	1.117	1.00
43_A	51_A	1.113	1.00
284_E	288_T	1.109	1.00
58_M	64_F	1.106	1.00
189_V	304_R	1.105	1.00
192_F	223_E	1.104	1.00
287_V	291_K	1.101	1.00
62_D	88_K	1.096	1.00
199_K	216_I	1.093	1.00
313_E	317_K	1.091	1.00
72_P	75_L	1.090	1.00
4_F	26_F	1.089	1.00
30_A	58_M	1.088	1.00
91_L	120_A	1.088	1.00
248_V	259_E	1.087	1.00
91_L	282_E	1.081	1.00
55_L	59_A	1.078	1.00
314_E	317_K	1.078	1.00
22_D	280_F	1.078	1.00
108_S	111_K	1.069	1.00
103_T	309_A	1.065	1.00
105_E	109_A	1.060	1.00
89_H	293_N	1.058	1.00
129_F	190_V	1.057	1.00
317_K	320_G	1.050	1.00
63_C	88_K	1.049	1.00
314_E	318_Q	1.041	1.00
188_A	224_A	1.040	1.00
30_A	64_F	1.039	1.00
139_I	247_I	1.038	1.00
59_A	82_L	1.037	1.00
145_F	192_F	1.037	1.00
107_I	111_K	1.024	1.00
81_V	106_M	1.022	1.00
61_S	64_F	1.011	1.00
102_E	105_E	1.009	1.00
7_I	79_Q	1.008	1.00
285_E	294_K	1.007	1.00
16_F	68_Y	1.002	1.00
139_I	142_V	0.997	1.00
59_A	86_H	0.995	1.00
92_C	117_L	0.991	1.00
39_A	53_S	0.990	1.00
97_A	102_E	0.987	1.00
101_K	104_E	0.977	1.00
145_F	224_A	0.969	1.00
134_K	137_H	0.956	1.00
125_F	285_E	0.953	1.00
142_V	242_G	0.953	1.00
18_E	22_D	0.952	1.00
124_T	304_R	0.943	1.00
281_Y	284_E	0.940	1.00
89_H	290_I	0.939	1.00
50_H	63_C	0.938	1.00
106_M	117_L	0.937	1.00
18_E	45_K	0.931	1.00
80_A	90_V	0.928	1.00
130_K	299_E	0.928	1.00
38_R	41_E	0.926	1.00
132_L	249_I	0.925	1.00
96_F	302_F	0.922	1.00
288_T	293_N	0.920	1.00
9_T	33_S	0.919	1.00
52_F	57_E	0.916	1.00
280_F	284_E	0.911	1.00
25_D	284_E	0.907	1.00
37_E	41_E	0.907	1.00
285_E	288_T	0.906	1.00
101_K	105_E	0.901	1.00
100_T	306_L	0.900	1.00
110_A	113_N	0.898	1.00
79_Q	82_L	0.894	1.00
122_K	278_A	0.894	1.00
77_K	97_A	0.893	1.00
140_G	245_G	0.889	1.00
303_E	307_T	0.889	1.00
297_S	301_T	0.889	1.00
195_P	217_L	0.887	1.00
142_V	192_F	0.885	1.00
140_G	242_G	0.883	1.00
118_M	286_F	0.877	1.00
316_R	320_G	0.875	1.00
96_F	117_L	0.873	1.00
310_K	314_E	0.870	1.00
36_A	39_A	0.861	1.00
214_T	225_V	0.859	1.00
84_M	90_V	0.854	1.00
31_V	42_F	0.853	1.00
68_Y	283_A	0.850	1.00
2_I	290_I	0.850	1.00
92_C	96_F	0.849	1.00
145_F	240_I	0.848	1.00
36_A	51_A	0.847	1.00
169_Q	208_G	0.846	1.00
5_A	30_A	0.845	1.00
39_A	43_A	0.845	1.00
43_A	48_A	0.844	1.00
69_I	83_F	0.843	1.00
110_A	117_L	0.841	1.00
75_L	78_E	0.840	1.00
40_G	43_A	0.839	1.00
40_G	51_A	0.835	1.00
4_F	20_A	0.835	1.00
200_A	315_A	0.827	1.00
147_A	238_A	0.827	1.00
185_I	312_M	0.825	1.00
239_E	246_T	0.824	1.00
146_T	225_V	0.822	1.00
92_C	106_M	0.819	1.00
289_L	294_K	0.817	1.00
137_H	193_G	0.816	1.00
104_E	107_I	0.815	1.00
110_A	115_V	0.814	1.00
80_A	84_M	0.813	1.00
195_P	311_I	0.812	1.00
170_P	208_G	0.806	1.00
5_A	32_Y	0.804	1.00
29_T	63_C	0.803	1.00
33_S	39_A	0.801	1.00
13_T	18_E	0.797	1.00
148_S	237_P	0.796	1.00
130_K	134_K	0.796	1.00
73_N	179_D	0.796	1.00
23_I	26_F	0.796	1.00
29_T	50_H	0.795	1.00
6_I	17_L	0.794	1.00
199_K	318_Q	0.792	1.00
25_D	288_T	0.789	1.00
136_L	242_G	0.789	1.00
145_F	188_A	0.788	1.00
61_S	88_K	0.785	1.00
289_L	292_E	0.780	1.00
14_D	41_E	0.779	1.00
20_A	283_A	0.779	1.00
33_S	38_R	0.778	1.00
244_D	263_R	0.776	1.00
116_V	289_L	0.776	1.00
118_M	289_L	0.769	1.00
84_M	117_L	0.769	1.00
20_A	26_F	0.769	1.00
279_M	282_E	0.766	1.00
98_S	173_S	0.763	1.00
110_A	302_F	0.763	1.00
217_L	224_A	0.761	1.00
289_L	298_E	0.760	1.00
116_V	290_I	0.760	1.00
3_R	64_F	0.760	1.00
2_I	66_A	0.756	1.00
7_I	71_S	0.754	1.00
12_I	16_F	0.753	1.00
121_M	182_V	0.752	1.00
170_P	320_G	0.751	1.00
66_A	89_H	0.748	1.00
16_F	283_A	0.748	1.00
189_V	308_T	0.746	1.00
13_T	70_A	0.744	1.00
7_I	55_L	0.742	1.00
176_S	228_H	0.741	1.00
195_P	220_D	0.739	1.00
181_G	228_H	0.739	1.00
103_T	107_I	0.734	1.00
175_G	210_D	0.733	1.00
286_F	290_I	0.731	1.00
257_R	269_N	0.731	1.00
141_T	244_D	0.731	1.00
210_D	316_R	0.729	1.00
119_E	305_S	0.726	1.00
306_L	310_K	0.725	1.00
29_T	61_S	0.722	1.00
177_L	312_M	0.721	1.00
237_P	250_D	0.720	1.00
12_I	70_A	0.719	1.00
201_N	216_I	0.718	1.00
147_A	184_C	0.718	1.00
17_L	28_L	0.715	1.00
192_F	219_Y	0.714	1.00
29_T	64_F	0.714	1.00
150_C	227_M	0.713	1.00
12_I	279_M	0.713	1.00
304_R	307_T	0.713	1.00
174_N	178_M	0.712	1.00
182_V	308_T	0.709	1.00
96_F	119_E	0.708	1.00
77_K	109_A	0.707	1.00
258_V	261_R	0.705	1.00
42_F	45_K	0.704	1.00
179_D	230_K	0.700	1.00
2_I	291_K	0.696	1.00
285_E	298_E	0.695	1.00
188_A	219_Y	0.695	1.00
123_T	126_L	0.693	1.00
25_D	287_V	0.690	1.00
181_G	184_C	0.689	1.00
5_A	67_V	0.688	1.00
76_H	92_C	0.687	1.00
141_T	221_G	0.683	1.00
94_K	183_Y	0.682	1.00
129_F	187_P	0.679	1.00
177_L	213_G	0.679	1.00
84_M	106_M	0.678	1.00
148_S	227_M	0.677	1.00
197_D	201_N	0.676	1.00
58_M	61_S	0.676	1.00
92_C	119_E	0.674	1.00
7_I	32_Y	0.673	1.00
87_G	115_V	0.671	1.00
78_E	105_E	0.671	1.00
27_Q	49_A	0.671	1.00
35_S	40_G	0.670	1.00
130_K	281_Y	0.667	1.00
81_V	84_M	0.665	1.00
241_Q	246_T	0.660	1.00
9_T	39_A	0.660	1.00
147_A	188_A	0.657	1.00
200_A	319_M	0.656	1.00
211_G	231_I	0.656	1.00
186_Y	190_V	0.654	1.00
121_M	308_T	0.650	1.00
88_K	115_V	0.650	1.00
80_A	117_L	0.649	1.00
186_Y	308_T	0.649	1.00
124_T	190_V	0.648	1.00
203_Y	218_S	0.647	1.00
42_F	46_H	0.647	1.00
91_L	118_M	0.646	1.00
4_F	287_V	0.646	1.00
133_K	191_L	0.639	1.00
200_A	215_V	0.639	1.00
302_F	305_S	0.638	1.00
191_L	240_I	0.638	1.00
309_A	313_E	0.634	1.00
205_L	211_G	0.632	1.00
189_V	311_I	0.631	1.00
229_S	232_S	0.622	1.00
3_R	63_C	0.621	1.00
121_M	186_Y	0.617	1.00
9_T	42_F	0.616	1.00
14_D	18_E	0.614	1.00
294_K	298_E	0.612	1.00
66_A	290_I	0.611	1.00
116_V	297_S	0.608	1.00
122_K	279_M	0.607	1.00
194_A	310_K	0.606	1.00
215_V	226_L	0.606	1.00
136_L	240_I	0.603	1.00
149_Y	180_I	0.600	1.00
30_A	50_H	0.599	1.00
144_R	241_Q	0.598	1.00
17_L	42_F	0.598	1.00
202_G	213_G	0.597	1.00
183_Y	186_Y	0.595	1.00
185_I	315_A	0.595	1.00
118_M	285_E	0.594	1.00
14_D	46_H	0.589	1.00
14_D	38_R	0.589	1.00
4_F	68_Y	0.588	1.00
67_V	88_K	0.588	1.00
200_A	213_G	0.584	1.00
68_Y	91_L	0.584	1.00
55_L	83_F	0.581	1.00
56_Q	78_E	0.580	1.00
132_L	191_L	0.577	1.00
23_I	280_F	0.577	1.00
23_I	287_V	0.572	1.00
12_I	93_E	0.572	1.00
130_K	190_V	0.569	1.00
10_N	70_A	0.569	1.00
259_E	269_N	0.568	1.00
136_L	191_L	0.567	1.00
308_T	312_M	0.567	1.00
94_K	179_D	0.566	1.00
294_K	297_S	0.564	1.00
178_M	313_E	0.563	1.00
34_R	71_S	0.562	1.00
166_N	169_Q	0.562	1.00
188_A	226_L	0.561	1.00
10_N	13_T	0.561	1.00
199_K	218_S	0.558	1.00
171_E	208_G	0.558	1.00
31_V	51_A	0.557	1.00
78_E	81_V	0.556	1.00
212_E	229_S	0.556	1.00
216_I	225_V	0.554	1.00
16_F	70_A	0.554	1.00
123_T	186_Y	0.554	1.00
65_D	291_K	0.553	1.00
107_I	110_A	0.552	1.00
135_H	260_I	0.552	1.00
70_A	93_E	0.552	1.00
69_I	76_H	0.551	1.00
177_L	215_V	0.550	1.00
14_D	42_F	0.549	1.00
71_S	76_H	0.547	1.00
93_E	120_A	0.547	1.00
167_A	179_D	0.546	1.00
26_F	66_A	0.546	1.00
80_A	110_A	0.545	1.00
13_T	42_F	0.541	1.00
151_Q	180_I	0.541	1.00
127_P	281_Y	0.539	1.00
85_N	105_E	0.537	1.00
288_T	291_K	0.535	1.00
118_M	282_E	0.533	1.00
7_I	69_I	0.532	1.00
262_Y	268_E	0.527	1.00
214_T	227_M	0.523	1.00
52_F	62_D	0.521	1.00
74_A	98_S	0.521	1.00
212_E	227_M	0.520	1.00
133_K	193_G	0.518	1.00
43_A	49_A	0.517	1.00
19_S	23_I	0.516	1.00
2_I	26_F	0.515	1.00
217_L	226_L	0.515	1.00
312_M	316_R	0.515	1.00
99_N	313_E	0.514	1.00
185_I	189_V	0.513	1.00
44_A	51_A	0.512	1.00
192_F	221_G	0.512	1.00
81_V	113_N	0.511	1.00
56_Q	86_H	0.511	1.00
144_R	225_V	0.510	1.00
32_Y	52_F	0.510	1.00
119_E	183_Y	0.508	1.00
116_V	298_E	0.507	1.00
6_I	28_L	0.507	1.00
18_E	21_A	0.506	1.00
298_E	301_T	0.504	1.00
189_V	195_P	0.504	1.00
144_R	212_E	0.503	1.00
219_Y	223_E	0.502	1.00
32_Y	53_S	0.502	1.00
173_S	209_V	0.501	1.00
101_K	313_E	0.500	1.00
121_M	183_Y	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
1zh8A	2	0.9604	100	0.213	Contact Map
1h6dA	8	0.9787	100	0.214	Contact Map
3dtyA	4	0.9451	100	0.228	Contact Map
2nvwA	3	0.9604	100	0.231	Contact Map
3e9mA	2	0.9604	100	0.233	Contact Map
3v5nA	4	0.9268	100	0.239	Contact Map
4hadA	4	0.9299	100	0.243	Contact Map
3euwA	4	0.9573	100	0.244	Contact Map
3evnA	1	0.9512	100	0.247	Contact Map
4gqaA	4	0.9817	100	0.249	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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