FRDB - ECOLI - GREMLIN Contacts

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FRDB - Fumarate reductase iron-sulfur subunit

UniProt:	P0AC47	Sequences: MAEMKNLKIEVVRYNPEVDTAPHSAFYEVPYDATTSLLDALGYIKDNLAPDLSYRWSCRMAICGSCGMMVNNVPKLACKTFLRDYTDGMKVEALANFPIERDLVVDMTHFIESLEAIKPYIIGNSRTADQGTNIQTPAQMAKYHQFSGCINCGLCYAACPQFGLNPEFIGPAAITLAHRYNEDSRDHGKKERMAQLNSQNGVWSCTFVGYCSEVCPKHVDPAAAIQQGKVESSKDFLIATLKPR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10331
Length:	244 (228)
Sequences:	2577 (1067)
Seq/√Len:	70.7

ECOLI - FRDB SDHB
BACSU - SDHB
HALSA - Q9HQ65
SULSO - Q97W78

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
43_Y	47_N	4.645	1.00
8_K	28_E	4.538	1.00
10_E	90_K	3.944	1.00
118_K	122_I	3.812	1.00
9_I	40_A	3.721	1.00
42_G	54_Y	3.705	1.00
53_S	104_V	3.663	1.00
10_E	26_F	3.520	1.00
9_I	44_I	2.980	1.00
68_M	77_A	2.815	1.00
40_A	82_L	2.799	1.00
174_I	228_G	2.674	1.00
146_F	224_A	2.577	1.00
15_N	18_V	2.447	1.00
25_A	49_A	2.436	1.00
123_G	187_H	2.408	1.00
181_N	228_G	2.356	1.00
30_P	43_Y	2.298	1.00
110_F	153_G	2.278	1.00
37_L	70_V	2.263	1.00
6_N	30_P	2.243	1.00
175_T	219_V	2.189	1.00
43_Y	48_L	2.147	1.00
170_G	224_A	2.132	1.00
160_P	208_V	2.096	1.00
70_V	75_K	2.051	1.00
29_V	44_I	2.049	1.00
74_P	158_A	2.034	1.00
6_N	28_E	1.998	1.00
118_K	191_E	1.976	1.00
12_V	22_P	1.975	1.00
137_P	141_A	1.938	1.00
67_G	154_L	1.872	1.00
227_Q	230_V	1.868	1.00
73_V	214_V	1.800	1.00
35_T	43_Y	1.759	1.00
209_G	221_P	1.750	1.00
10_E	24_S	1.718	1.00
69_M	157_A	1.713	1.00
183_D	186_D	1.656	0.99
67_G	94_L	1.644	0.99
112_E	115_E	1.636	0.99
9_I	89_M	1.609	0.99
75_K	80_T	1.591	0.99
8_K	26_F	1.538	0.99
24_S	90_K	1.525	0.99
139_Q	184_S	1.500	0.99
135_Q	184_S	1.498	0.99
12_V	92_E	1.481	0.99
196_L	200_N	1.467	0.99
122_I	188_G	1.461	0.99
124_N	187_H	1.449	0.99
30_P	47_N	1.438	0.99
160_P	170_G	1.391	0.98
168_F	182_E	1.372	0.98
12_V	24_S	1.366	0.98
196_L	199_Q	1.361	0.98
147_S	153_G	1.357	0.98
15_N	23_H	1.339	0.98
177_A	231_E	1.328	0.98
178_H	182_E	1.325	0.98
212_S	222_A	1.325	0.98
231_E	234_K	1.317	0.97
181_N	231_E	1.306	0.97
212_S	220_D	1.291	0.97
11_V	52_L	1.290	0.97
113_S	200_N	1.286	0.97
140_M	144_H	1.280	0.97
73_V	213_E	1.277	0.97
169_I	173_A	1.276	0.97
20_T	23_H	1.269	0.97
190_K	194_A	1.258	0.97
44_I	52_L	1.254	0.97
178_H	227_Q	1.233	0.96
55_R	65_S	1.217	0.96
17_E	20_T	1.217	0.96
136_T	139_Q	1.217	0.96
31_Y	40_A	1.214	0.96
123_G	133_N	1.195	0.95
31_Y	82_L	1.155	0.95
19_D	23_H	1.132	0.94
68_M	91_V	1.121	0.94
98_P	109_H	1.115	0.93
154_L	214_V	1.109	0.93
97_F	157_A	1.099	0.93
86_T	100_E	1.090	0.93
27_Y	53_S	1.088	0.93
126_R	130_Q	1.087	0.93
139_Q	142_K	1.084	0.92
194_A	235_D	1.081	0.92
175_T	221_P	1.073	0.92
69_M	95_A	1.072	0.92
85_Y	88_G	1.066	0.92
24_S	92_E	1.059	0.91
29_V	40_A	1.043	0.91
29_V	43_Y	1.033	0.90
126_R	129_D	1.017	0.90
190_K	235_D	1.014	0.90
174_I	177_A	1.011	0.89
107_M	110_F	1.009	0.89
10_E	88_G	1.001	0.89
59_R	62_I	0.997	0.89
175_T	224_A	0.993	0.89
62_I	79_K	0.991	0.89
188_G	191_E	0.977	0.88
11_V	91_V	0.976	0.88
25_A	48_L	0.968	0.87
45_K	53_S	0.962	0.87
32_D	35_T	0.955	0.87
14_Y	18_V	0.952	0.86
107_M	111_I	0.950	0.86
79_K	146_F	0.946	0.86
38_L	59_R	0.946	0.86
76_L	186_D	0.944	0.86
188_G	192_R	0.939	0.86
124_N	188_G	0.935	0.85
113_S	196_L	0.935	0.85
94_L	170_G	0.932	0.85
212_S	221_P	0.931	0.85
210_Y	214_V	0.931	0.85
145_Q	148_G	0.926	0.85
27_Y	49_A	0.925	0.85
142_K	223_A	0.924	0.85
100_E	104_V	0.921	0.85
75_K	85_Y	0.911	0.84
69_M	74_P	0.911	0.84
37_L	40_A	0.910	0.84
107_M	153_G	0.906	0.84
148_G	219_V	0.906	0.84
97_F	107_M	0.903	0.83
174_I	196_L	0.897	0.83
37_L	82_L	0.897	0.83
36_S	59_R	0.896	0.83
177_A	184_S	0.896	0.83
65_S	68_M	0.884	0.82
109_H	113_S	0.882	0.82
213_E	222_A	0.881	0.82
196_L	228_G	0.856	0.80
59_R	66_C	0.851	0.80
225_I	228_G	0.847	0.79
7_L	88_G	0.841	0.79
95_A	157_A	0.833	0.78
7_L	234_K	0.825	0.77
110_F	172_A	0.820	0.77
69_M	208_V	0.819	0.77
140_M	148_G	0.814	0.77
68_M	89_M	0.813	0.76
158_A	214_V	0.813	0.76
173_A	228_G	0.813	0.76
37_L	80_T	0.811	0.76
65_S	76_L	0.806	0.76
118_K	195_Q	0.804	0.76
89_M	190_K	0.804	0.76
9_I	37_L	0.804	0.76
7_L	89_M	0.798	0.75
74_P	210_Y	0.797	0.75
209_G	213_E	0.797	0.75
8_K	87_D	0.793	0.75
85_Y	89_M	0.792	0.75
29_V	52_L	0.790	0.74
29_V	47_N	0.788	0.74
52_L	103_L	0.786	0.74
140_M	143_Y	0.781	0.74
205_C	211_C	0.779	0.73
209_G	212_S	0.774	0.73
21_A	25_A	0.767	0.72
25_A	71_N	0.763	0.72
143_Y	147_S	0.763	0.72
66_C	96_N	0.759	0.71
110_F	147_S	0.758	0.71
42_G	46_D	0.757	0.71
127_T	130_Q	0.755	0.71
19_D	22_P	0.754	0.71
49_A	183_D	0.753	0.71
186_D	192_R	0.750	0.70
71_N	85_Y	0.745	0.70
161_Q	208_V	0.741	0.70
176_L	180_Y	0.741	0.70
54_Y	59_R	0.740	0.69
75_K	111_I	0.736	0.69
80_T	85_Y	0.736	0.69
53_S	101_R	0.735	0.69
207_F	226_Q	0.734	0.69
15_N	19_D	0.734	0.69
26_F	84_D	0.729	0.68
160_P	210_Y	0.728	0.68
166_P	228_G	0.728	0.68
74_P	154_L	0.728	0.68
197_N	232_S	0.723	0.68
18_V	21_A	0.720	0.67
142_K	178_H	0.720	0.67
110_F	156_Y	0.719	0.67
18_V	25_A	0.712	0.66
7_L	31_Y	0.711	0.66
138_A	188_G	0.711	0.66
106_D	109_H	0.710	0.66
32_D	43_Y	0.706	0.66
57_S	172_A	0.702	0.65
220_D	223_A	0.699	0.65
194_A	197_N	0.699	0.65
24_S	168_F	0.698	0.65
41_L	68_M	0.697	0.65
128_A	133_N	0.696	0.65
12_V	99_I	0.696	0.65
27_Y	48_L	0.696	0.65
167_E	199_Q	0.692	0.64
37_L	91_V	0.691	0.64
97_F	153_G	0.687	0.64
7_L	40_A	0.684	0.63
144_H	148_G	0.683	0.63
143_Y	175_T	0.683	0.63
122_I	191_E	0.681	0.63
36_S	60_M	0.681	0.63
43_Y	46_D	0.680	0.63
7_L	32_D	0.676	0.62
146_F	182_E	0.675	0.62
126_R	187_H	0.667	0.61
219_V	222_A	0.665	0.61
226_Q	230_V	0.662	0.61
65_S	186_D	0.659	0.60
159_C	211_C	0.658	0.60
41_L	54_Y	0.656	0.60
113_S	162_F	0.656	0.60
121_I	180_Y	0.648	0.59
117_I	173_A	0.646	0.59
95_A	217_K	0.645	0.59
21_A	101_R	0.644	0.59
135_Q	139_Q	0.642	0.58
121_I	184_S	0.642	0.58
82_L	168_F	0.641	0.58
193_M	232_S	0.639	0.58
15_N	20_T	0.638	0.58
56_W	154_L	0.633	0.57
76_L	179_R	0.631	0.57
11_V	44_I	0.628	0.57
123_G	126_R	0.626	0.57
36_S	81_F	0.622	0.56
21_A	98_P	0.621	0.56
63_C	78_C	0.621	0.56
109_H	162_F	0.620	0.56
119_P	135_Q	0.620	0.56
35_T	46_D	0.618	0.56
195_Q	201_G	0.617	0.56
124_N	141_A	0.616	0.55
148_G	221_P	0.611	0.55
181_N	193_M	0.609	0.55
145_Q	221_P	0.608	0.54
44_I	47_N	0.606	0.54
18_V	26_F	0.605	0.54
189_K	231_E	0.605	0.54
44_I	226_Q	0.603	0.54
39_D	55_R	0.602	0.54
24_S	99_I	0.599	0.53
154_L	163_G	0.598	0.53
144_H	151_N	0.598	0.53
159_C	205_C	0.597	0.53
13_R	41_L	0.595	0.53
11_V	29_V	0.595	0.53
182_E	231_E	0.592	0.52
138_A	234_K	0.591	0.52
145_Q	224_A	0.587	0.52
32_D	99_I	0.586	0.52
123_G	129_D	0.582	0.51
45_K	62_I	0.580	0.51
9_I	86_T	0.580	0.51
223_A	226_Q	0.578	0.51
61_A	79_K	0.577	0.51
92_E	214_V	0.574	0.50
70_V	77_A	0.572	0.50
7_L	82_L	0.571	0.50
8_K	202_V	0.571	0.50
163_G	210_Y	0.570	0.50
156_Y	172_A	0.568	0.50
197_N	201_G	0.566	0.49
135_Q	177_A	0.564	0.49
160_P	214_V	0.563	0.49
198_S	208_V	0.562	0.49
6_N	44_I	0.562	0.49
73_V	116_A	0.561	0.49
123_G	128_A	0.560	0.49
165_N	225_I	0.559	0.48
112_E	128_A	0.556	0.48
65_S	192_R	0.556	0.48
161_Q	164_L	0.555	0.48
21_A	90_K	0.554	0.48
139_Q	192_R	0.554	0.48
81_F	84_D	0.553	0.48
122_I	126_R	0.552	0.48
71_N	89_M	0.550	0.47
194_A	199_Q	0.550	0.47
160_P	224_A	0.548	0.47
36_S	153_G	0.547	0.47
96_N	145_Q	0.544	0.47
66_C	180_Y	0.543	0.47
69_M	160_P	0.542	0.46
13_R	25_A	0.537	0.46
62_I	66_C	0.537	0.46
88_G	130_Q	0.536	0.46
171_P	174_I	0.535	0.46
66_C	206_T	0.535	0.46
26_F	86_T	0.532	0.45
10_E	25_A	0.530	0.45
11_V	68_M	0.525	0.44
23_H	26_F	0.523	0.44
41_L	160_P	0.522	0.44
60_M	151_N	0.521	0.44
129_D	132_T	0.521	0.44
8_K	90_K	0.520	0.44
179_R	183_D	0.519	0.44
58_C	78_C	0.518	0.43
66_C	222_A	0.518	0.43
55_R	192_R	0.517	0.43
19_D	112_E	0.517	0.43
166_P	173_A	0.515	0.43
55_R	221_P	0.515	0.43
204_S	229_K	0.514	0.43
58_C	63_C	0.514	0.43
170_G	214_V	0.513	0.43
174_I	224_A	0.513	0.43
183_D	231_E	0.513	0.43
55_R	76_L	0.511	0.43
116_A	169_I	0.510	0.43
60_M	161_Q	0.508	0.42
112_E	116_A	0.508	0.42
114_L	206_T	0.508	0.42
136_T	184_S	0.507	0.42
168_F	207_F	0.507	0.42
84_D	89_M	0.506	0.42
84_D	87_D	0.505	0.42
70_V	89_M	0.505	0.42
61_A	150_I	0.505	0.42
15_N	26_F	0.504	0.42
70_V	111_I	0.504	0.42
152_C	155_C	0.504	0.42
45_K	56_W	0.504	0.42
110_F	169_I	0.503	0.42
67_G	116_A	0.503	0.42
168_F	173_A	0.503	0.42
65_S	77_A	0.502	0.42
211_C	215_C	0.501	0.41
224_A	227_Q	0.501	0.41
117_I	192_R	0.500	0.41

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
3kwlA	1	0.832	100	0.384	Contact Map
1kf6B	1	0.9959	100	0.429	Contact Map
2h88B	1	0.959	100	0.444	Contact Map
4ysxB	1	0.9959	100	0.445	Contact Map
2wdqB	1	0.9508	100	0.451	Contact Map
2bs2B	1	0.959	100	0.464	Contact Map
3c8yA	1	0.8566	99.9	0.754	Contact Map
1ffvA	1	0.627	99.9	0.763	Contact Map
3i9v3	1	0.8279	99.8	0.766	Contact Map
1t3qA	1	0.6475	99.8	0.777	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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