DGOK - ECOLI - GREMLIN Contacts

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DGOK - 2-dehydro-3-deoxygalactonokinase

UniProt:	P31459	Sequences: MTARYIAIDWGSTNLRAWLYQGDHCLESRQSEAGVTRLNGKSPAAVLAEVTTDWREEKTPVVMAGMVGSNVGWKVAPYLSVPACFSSIGEQLTSVGDNIWIIPGLCVSHDDNHNVMRGEETQLIGARALAPSSLYVMPGTHCKWVQADSQQINDFRTVMTGELHHLLLNHSLIGAGLPPQENSADAFTAGLERGLNTPAILPQLFEVRASHVLGTLPREQVSEFLSGLLIGAEVASMRDYVAHQHAITLVAGTSLTARYQQAFQAMGCDVTAVAGDTAFQAGIRSIAHAVAN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11717
Length:	292 (281)
Sequences:	762 (592)
Seq/√Len:	35.3

ECOLI - DGOK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
166_L	171_S	9.012	1.00
63_M	67_V	6.173	1.00
105_L	152_I	5.311	1.00
188_T	261_Q	4.620	1.00
84_C	87_S	3.860	1.00
191_L	262_A	3.527	1.00
81_V	105_L	3.337	1.00
115_V	212_V	3.116	1.00
29_R	53_D	3.078	1.00
123_L	145_V	2.978	1.00
183_S	220_Q	2.791	1.00
92_L	102_I	2.777	1.00
249_L	256_T	2.774	1.00
192_E	265_A	2.765	1.00
195_L	266_M	2.555	1.00
35_V	69_S	2.456	1.00
17_A	54_W	2.428	1.00
7_A	20_Y	2.377	1.00
166_L	170_H	2.293	0.99
126_A	135_Y	2.277	0.99
163_L	201_L	2.158	0.99
123_L	135_Y	2.125	0.99
8_I	17_A	2.112	0.99
71_V	175_A	2.070	0.99
8_I	63_M	2.036	0.98
102_I	286_I	2.008	0.98
177_L	211_H	2.007	0.98
79_L	83_A	1.963	0.98
142_C	233_E	1.937	0.98
167_L	171_S	1.906	0.98
158_V	233_E	1.885	0.97
68_G	101_I	1.882	0.97
127_R	147_A	1.879	0.97
70_N	75_V	1.826	0.97
148_D	153_N	1.803	0.97
80_S	106_C	1.759	0.96
64_A	283_I	1.736	0.96
11_G	16_R	1.730	0.96
176_G	211_H	1.726	0.96
182_N	223_E	1.719	0.96
273_V	278_A	1.706	0.95
126_A	273_V	1.703	0.95
160_T	229_L	1.702	0.95
137_M	145_V	1.682	0.95
21_Q	24_H	1.673	0.95
47_L	61_V	1.673	0.95
106_C	213_L	1.668	0.95
140_T	166_L	1.662	0.95
146_Q	154_D	1.651	0.94
35_V	71_V	1.638	0.94
200_I	232_A	1.630	0.94
284_R	287_A	1.603	0.94
33_A	49_E	1.597	0.93
207_V	224_F	1.593	0.93
136_V	223_E	1.563	0.93
140_T	226_S	1.528	0.92
232_A	236_S	1.515	0.91
157_T	205_F	1.505	0.91
140_T	171_S	1.502	0.91
164_H	168_L	1.501	0.91
78_Y	226_S	1.498	0.91
9_D	16_R	1.493	0.91
78_Y	140_T	1.486	0.91
27_E	54_W	1.479	0.90
260_Q	264_Q	1.442	0.89
163_L	204_L	1.434	0.89
132_S	148_D	1.423	0.89
263_F	268_C	1.400	0.88
66_M	117_R	1.395	0.88
126_A	147_A	1.366	0.87
154_D	239_D	1.346	0.86
119_E	208_R	1.343	0.86
84_C	151_Q	1.341	0.86
280_Q	284_R	1.319	0.85
223_E	258_R	1.315	0.84
69_S	102_I	1.300	0.84
85_F	152_I	1.298	0.84
38_L	41_K	1.263	0.82
28_S	276_D	1.260	0.82
117_R	208_R	1.252	0.81
164_H	222_S	1.243	0.81
47_L	51_T	1.224	0.80
251_A	256_T	1.214	0.79
164_H	226_S	1.211	0.79
68_G	76_A	1.208	0.79
158_V	237_M	1.200	0.78
66_M	208_R	1.186	0.78
274_A	277_T	1.174	0.77
234_V	263_F	1.171	0.77
143_K	208_R	1.170	0.77
117_R	141_H	1.170	0.77
136_V	144_W	1.158	0.76
74_K	101_I	1.156	0.76
62_V	100_W	1.153	0.76
12_S	66_M	1.151	0.75
119_E	143_K	1.150	0.75
76_A	93_T	1.149	0.75
16_R	161_G	1.140	0.75
122_Q	226_S	1.130	0.74
187_F	262_A	1.120	0.73
12_S	35_V	1.109	0.73
187_F	191_L	1.108	0.73
64_A	121_T	1.107	0.72
216_L	221_V	1.103	0.72
113_H	210_S	1.102	0.72
14_N	113_H	1.102	0.72
231_G	262_A	1.100	0.72
207_V	221_V	1.079	0.71
15_L	50_V	1.074	0.70
187_F	230_I	1.066	0.70
279_F	283_I	1.065	0.69
48_A	97_D	1.058	0.69
11_G	34_G	1.045	0.68
141_H	205_F	1.036	0.67
141_H	162_E	1.034	0.67
18_W	209_A	1.019	0.66
119_E	141_H	1.016	0.66
17_A	51_T	1.009	0.65
168_L	174_G	1.003	0.65
246_A	271_T	1.003	0.65
85_F	96_G	0.996	0.64
7_A	76_A	0.995	0.64
76_A	105_L	0.986	0.63
66_M	141_H	0.983	0.63
239_D	269_D	0.976	0.63
126_A	250_V	0.975	0.63
11_G	140_T	0.972	0.62
11_G	117_R	0.971	0.62
122_Q	140_T	0.969	0.62
190_G	194_G	0.964	0.62
187_F	226_S	0.960	0.61
34_G	119_E	0.954	0.61
207_V	225_L	0.952	0.61
184_A	257_A	0.936	0.59
94_S	98_N	0.932	0.59
162_E	205_F	0.931	0.59
66_M	119_E	0.928	0.59
209_A	213_L	0.920	0.58
10_W	78_Y	0.919	0.58
117_R	143_K	0.912	0.57
153_N	242_A	0.911	0.57
144_W	237_M	0.909	0.57
49_E	132_S	0.906	0.57
143_K	205_F	0.901	0.56
70_N	212_V	0.900	0.56
105_L	133_S	0.898	0.56
190_G	228_L	0.898	0.56
62_V	177_L	0.898	0.56
148_D	242_A	0.896	0.56
190_G	224_F	0.890	0.55
140_T	143_K	0.890	0.55
209_A	224_F	0.888	0.55
67_V	101_I	0.886	0.55
148_D	185_D	0.885	0.55
189_A	216_L	0.884	0.55
149_S	242_A	0.881	0.55
119_E	161_G	0.879	0.55
23_D	26_L	0.876	0.54
34_G	104_G	0.874	0.54
109_H	112_N	0.870	0.54
72_G	119_E	0.870	0.54
20_Y	44_A	0.862	0.53
36_T	172_L	0.862	0.53
135_Y	147_A	0.861	0.53
247_I	268_C	0.858	0.53
74_K	93_T	0.852	0.52
64_A	279_F	0.850	0.52
143_K	226_S	0.850	0.52
68_G	283_I	0.850	0.52
15_L	29_R	0.849	0.52
92_L	100_W	0.849	0.52
36_T	174_G	0.849	0.52
12_S	16_R	0.846	0.52
5_Y	20_Y	0.846	0.52
10_W	226_S	0.844	0.52
11_G	78_Y	0.842	0.51
78_Y	205_F	0.841	0.51
78_Y	164_H	0.837	0.51
249_L	273_V	0.837	0.51
145_V	155_F	0.825	0.50
122_Q	186_A	0.824	0.50
195_L	238_R	0.822	0.50
159_M	233_E	0.820	0.49
148_D	151_Q	0.815	0.49
44_A	97_D	0.810	0.49
205_F	226_S	0.810	0.49
233_E	259_Y	0.803	0.48
231_G	259_Y	0.802	0.48
93_T	105_L	0.800	0.48
34_G	117_R	0.799	0.48
122_Q	143_K	0.799	0.48
51_T	54_W	0.798	0.48
259_Y	262_A	0.797	0.48
142_C	255_L	0.795	0.47
254_S	258_R	0.792	0.47
207_V	211_H	0.792	0.47
34_G	143_K	0.786	0.47
162_E	171_S	0.782	0.46
16_R	140_T	0.782	0.46
78_Y	119_E	0.781	0.46
274_A	278_A	0.781	0.46
114_N	157_T	0.781	0.46
170_H	174_G	0.777	0.46
160_T	231_G	0.776	0.46
136_V	249_L	0.774	0.46
126_A	130_A	0.772	0.45
132_S	149_S	0.771	0.45
43_P	73_W	0.771	0.45
141_H	208_R	0.767	0.45
143_K	161_G	0.763	0.45
78_Y	143_K	0.762	0.45
126_A	133_S	0.762	0.45
123_L	147_A	0.762	0.45
159_M	229_L	0.761	0.44
249_L	260_Q	0.761	0.44
114_N	205_F	0.760	0.44
142_C	158_V	0.755	0.44
173_I	225_L	0.750	0.43
38_L	46_V	0.748	0.43
76_A	101_I	0.745	0.43
136_V	258_R	0.742	0.43
83_A	105_L	0.741	0.43
188_T	191_L	0.737	0.42
51_T	55_R	0.734	0.42
32_E	39_N	0.733	0.42
198_P	286_I	0.732	0.42
72_G	117_R	0.728	0.42
120_E	208_R	0.727	0.42
199_A	232_A	0.724	0.41
140_T	208_R	0.723	0.41
253_T	256_T	0.723	0.41
146_Q	153_N	0.722	0.41
139_G	227_G	0.720	0.41
16_R	119_E	0.719	0.41
114_N	232_A	0.716	0.41
10_W	187_F	0.714	0.40
162_E	208_R	0.714	0.40
94_S	100_W	0.714	0.40
183_S	186_A	0.711	0.40
7_A	280_Q	0.709	0.40
77_P	80_S	0.709	0.40
210_S	213_L	0.707	0.40
85_F	123_L	0.707	0.40
63_M	100_W	0.706	0.40
16_R	226_S	0.705	0.40
88_I	103_P	0.705	0.40
117_R	162_E	0.700	0.39
9_D	78_Y	0.696	0.39
260_Q	272_A	0.696	0.39
95_V	278_A	0.696	0.39
68_G	226_S	0.695	0.39
59_T	277_T	0.695	0.39
48_A	96_G	0.694	0.39
7_A	71_V	0.694	0.39
8_I	69_S	0.694	0.39
126_A	144_W	0.692	0.39
108_S	114_N	0.692	0.39
35_V	67_V	0.686	0.38
92_L	286_I	0.681	0.38
63_M	99_I	0.681	0.38
28_S	176_G	0.677	0.37
64_A	67_V	0.677	0.37
141_H	212_V	0.676	0.37
43_P	166_L	0.675	0.37
56_E	85_F	0.672	0.37
68_G	103_P	0.672	0.37
25_C	254_S	0.672	0.37
42_S	46_V	0.671	0.37
9_D	12_S	0.669	0.37
6_I	54_W	0.669	0.37
68_G	73_W	0.669	0.37
9_D	13_T	0.665	0.36
184_A	261_Q	0.664	0.36
66_M	143_K	0.663	0.36
51_T	102_I	0.661	0.36
161_G	226_S	0.660	0.36
38_L	99_I	0.659	0.36
136_V	247_I	0.659	0.36
93_T	147_A	0.658	0.36
189_A	193_R	0.657	0.36
61_V	234_V	0.656	0.36
185_D	196_N	0.656	0.36
86_S	152_I	0.656	0.36
120_E	162_E	0.655	0.36
30_Q	38_L	0.653	0.36
145_V	252_G	0.646	0.35
121_T	283_I	0.646	0.35
33_A	69_S	0.644	0.35
126_A	152_I	0.643	0.35
105_L	234_V	0.643	0.35
34_G	208_R	0.642	0.35
8_I	14_N	0.642	0.35
10_W	140_T	0.639	0.34
5_Y	284_R	0.637	0.34
13_T	83_A	0.633	0.34
149_S	195_L	0.631	0.34
6_I	84_C	0.630	0.34
265_A	277_T	0.630	0.34
91_Q	102_I	0.629	0.34
32_E	62_V	0.627	0.34
30_Q	288_H	0.626	0.33
249_L	270_V	0.626	0.33
140_T	164_H	0.626	0.33
16_R	34_G	0.626	0.33
78_Y	208_R	0.623	0.33
104_G	117_R	0.622	0.33
163_L	258_R	0.622	0.33
234_V	266_M	0.621	0.33
209_A	231_G	0.621	0.33
280_Q	287_A	0.621	0.33
207_V	213_L	0.618	0.33
9_D	140_T	0.618	0.33
119_E	140_T	0.617	0.33
5_Y	287_A	0.614	0.33
78_Y	117_R	0.613	0.32
113_H	209_A	0.612	0.32
136_V	263_F	0.610	0.32
72_G	161_G	0.610	0.32
172_L	224_F	0.609	0.32
38_L	67_V	0.607	0.32
123_L	164_H	0.606	0.32
188_T	265_A	0.606	0.32
92_L	135_Y	0.605	0.32
121_T	174_G	0.603	0.32
190_G	227_G	0.603	0.32
34_G	120_E	0.602	0.32
168_L	222_S	0.602	0.32
13_T	37_R	0.600	0.31
43_P	101_I	0.600	0.31
209_A	267_G	0.597	0.31
73_W	115_V	0.597	0.31
71_V	76_A	0.596	0.31
11_G	119_E	0.595	0.31
17_A	67_V	0.594	0.31
43_P	75_V	0.593	0.31
188_T	264_Q	0.590	0.31
54_W	96_G	0.589	0.31
69_S	72_G	0.589	0.31
90_E	257_A	0.586	0.30
263_F	266_M	0.586	0.30
16_R	122_Q	0.585	0.30
178_P	217_P	0.584	0.30
42_S	45_A	0.581	0.30
95_V	101_I	0.578	0.30
158_V	236_S	0.577	0.30
12_S	34_G	0.576	0.30
12_S	172_L	0.576	0.30
143_K	157_T	0.575	0.30
66_M	205_F	0.575	0.30
115_V	159_M	0.575	0.30
274_A	280_Q	0.574	0.30
13_T	261_Q	0.574	0.30
10_W	122_Q	0.572	0.29
203_Q	207_V	0.572	0.29
226_S	230_I	0.570	0.29
15_L	35_V	0.570	0.29
122_Q	164_H	0.569	0.29
24_H	276_D	0.568	0.29
163_L	253_T	0.568	0.29
130_A	189_A	0.568	0.29
34_G	66_M	0.568	0.29
145_V	152_I	0.566	0.29
205_F	212_V	0.566	0.29
92_L	212_V	0.564	0.29
104_G	119_E	0.562	0.29
257_A	261_Q	0.561	0.29
279_F	282_G	0.560	0.29
6_I	76_A	0.558	0.28
16_R	66_M	0.557	0.28
61_V	95_V	0.556	0.28
149_S	271_T	0.555	0.28
252_G	274_A	0.555	0.28
36_T	121_T	0.554	0.28
78_Y	115_V	0.554	0.28
8_I	221_V	0.553	0.28
269_D	272_A	0.550	0.28
77_P	201_L	0.550	0.28
176_G	221_V	0.550	0.28
10_W	262_A	0.550	0.28
165_H	169_N	0.549	0.28
15_L	258_R	0.545	0.28
206_E	210_S	0.544	0.27
115_V	143_K	0.543	0.27
91_Q	220_Q	0.542	0.27
91_Q	185_D	0.541	0.27
205_F	208_R	0.541	0.27
18_W	286_I	0.539	0.27
5_Y	102_I	0.539	0.27
5_Y	280_Q	0.538	0.27
98_N	235_A	0.538	0.27
29_R	51_T	0.537	0.27
134_L	260_Q	0.537	0.27
71_V	278_A	0.535	0.27
12_S	173_I	0.535	0.27
103_P	283_I	0.534	0.27
210_S	224_F	0.534	0.27
58_K	97_D	0.534	0.27
282_G	286_I	0.534	0.27
13_T	212_V	0.533	0.27
11_G	66_M	0.533	0.27
61_V	216_L	0.533	0.27
79_L	188_T	0.531	0.27
35_V	70_N	0.527	0.26
19_L	54_W	0.524	0.26
11_G	122_Q	0.524	0.26
160_T	228_L	0.518	0.26
18_W	67_V	0.518	0.26
188_T	192_E	0.517	0.26
75_V	117_R	0.510	0.25
239_D	243_H	0.510	0.25
11_G	104_G	0.509	0.25
190_G	220_Q	0.508	0.25
154_D	244_Q	0.506	0.25
7_A	18_W	0.506	0.25
78_Y	141_H	0.505	0.25
166_L	197_T	0.505	0.25
73_W	78_Y	0.503	0.25
24_H	218_R	0.502	0.25
62_V	235_A	0.502	0.25
213_L	280_Q	0.501	0.25
199_A	251_A	0.501	0.25
238_R	243_H	0.500	0.25

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
3r1xA	4	1	100	0.044	Contact Map
3t69A	2	0.9897	100	0.057	Contact Map
1huxA	2	0.8185	96.2	0.932	Contact Map
2qm1A	2	0.9555	95.5	0.935	Contact Map
2e2oA	2	0.8699	95.2	0.936	Contact Map
3bexA	2	0.8048	94.7	0.938	Contact Map
4ehuA	2	0.8082	94.4	0.939	Contact Map
1sazA	3	0.9692	93.6	0.941	Contact Map
3djcA	5	0.8219	92.9	0.943	Contact Map
3enoA	1	0.887	92.1	0.944	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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