SDHB - ECOLI - GREMLIN Contacts

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SDHB - Succinate dehydrogenase iron-sulfur subunit

UniProt:	P07014	Sequences: MRLEFSIYRYNPDVDDAPRMQDYTLEADEGRDMMLLDALIQLKEKDPSLSFRRSCREGVCGSDGLNMNGKNGLACITPISALNQPGKKIVIRPLPGLPVIRDLVVDMGQFYAQYEKIKPYLLNNGQNPPAREHLQMPEQREKLDGLYECILCACCSTSCPSFWWNPDKFIGPAGLLAAYRFLIDSRDTETDSRLDGLSDAFSVFRCHSIMNCVSVCPKGLNPTRAIGHIKSMLLQRNA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10932
Length:	238 (223)
Sequences:	2533 (1035)
Seq/√Len:	69.3

ECOLI - SDHB FRDB
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
4_E	24_T	4.248	1.00
41_Q	44_E	4.056	1.00
6_S	90_V	3.708	1.00
50_S	104_V	3.705	1.00
40_I	51_F	3.631	1.00
5_F	38_A	3.525	1.00
118_K	122_L	3.521	1.00
6_S	22_D	3.484	1.00
6_S	88_K	3.152	1.00
5_F	42_L	2.844	1.00
38_A	79_I	2.750	1.00
175_L	229_I	2.641	1.00
65_L	74_A	2.515	1.00
146_L	225_A	2.491	1.00
21_Q	46_D	2.480	1.00
123_N	188_T	2.341	1.00
11_N	14_V	2.324	1.00
25_L	42_L	2.259	1.00
182_L	229_I	2.193	1.00
26_E	41_Q	2.190	1.00
110_F	153_A	2.148	1.00
171_G	225_A	2.103	1.00
35_L	67_M	2.072	1.00
176_L	220_L	2.061	1.00
160_P	209_I	2.053	1.00
72_G	77_T	2.012	1.00
71_N	158_S	1.980	1.00
41_Q	45_K	1.957	1.00
137_P	141_E	1.948	1.00
4_E	88_K	1.934	1.00
228_H	231_S	1.906	1.00
118_K	192_S	1.883	1.00
67_M	72_G	1.876	1.00
64_G	154_C	1.813	1.00
210_M	222_P	1.789	1.00
33_M	41_Q	1.784	1.00
125_G	188_T	1.763	1.00
112_A	115_E	1.745	1.00
70_K	215_V	1.675	1.00
8_Y	18_P	1.668	0.99
4_E	22_D	1.643	0.99
66_N	157_T	1.635	0.99
6_S	20_M	1.629	0.99
184_D	187_D	1.624	0.99
135_Q	185_S	1.612	0.99
64_G	94_L	1.586	0.99
197_L	201_F	1.569	0.99
5_F	89_I	1.554	0.99
8_Y	92_R	1.522	0.99
20_M	90_V	1.513	0.99
112_A	201_F	1.466	0.99
160_P	171_G	1.437	0.98
83_N	87_K	1.430	0.98
70_K	214_S	1.426	0.98
139_Q	185_S	1.416	0.98
124_N	188_T	1.375	0.98
26_E	44_E	1.373	0.98
8_Y	20_M	1.365	0.98
42_L	49_L	1.354	0.98
30_G	33_M	1.343	0.98
122_L	189_E	1.335	0.97
169_F	183_I	1.319	0.97
7_I	49_L	1.317	0.97
182_L	232_M	1.290	0.97
147_Y	153_A	1.288	0.97
179_Y	183_I	1.285	0.97
197_L	200_A	1.261	0.96
15_D	19_R	1.259	0.96
213_V	221_N	1.251	0.96
28_D	79_I	1.250	0.96
213_V	223_T	1.244	0.96
140_R	144_D	1.235	0.96
11_N	19_R	1.234	0.96
179_Y	228_H	1.229	0.96
82_L	87_K	1.208	0.95
52_R	62_S	1.195	0.95
191_D	195_D	1.190	0.95
123_N	133_H	1.188	0.95
136_M	139_Q	1.183	0.95
12_P	16_D	1.154	0.94
195_D	198_S	1.137	0.94
97_L	157_T	1.094	0.92
127_N	130_A	1.088	0.92
66_N	71_N	1.081	0.92
66_N	95_P	1.072	0.92
170_I	174_G	1.071	0.92
176_L	225_A	1.067	0.91
56_R	59_V	1.056	0.91
16_D	19_R	1.055	0.91
25_L	41_Q	1.054	0.91
107_M	110_F	1.054	0.91
178_A	232_M	1.043	0.90
175_L	178_A	1.031	0.90
176_L	222_P	1.031	0.90
62_S	65_L	1.024	0.90
189_E	192_S	1.022	0.90
36_L	56_R	1.020	0.89
20_M	92_R	1.019	0.89
25_L	38_A	1.016	0.89
98_P	109_Q	1.015	0.89
65_L	91_I	1.011	0.89
59_V	76_I	1.005	0.89
129_P	132_E	1.003	0.89
23_Y	46_D	0.996	0.88
154_C	215_V	0.985	0.88
178_A	185_S	0.979	0.87
82_L	89_I	0.978	0.87
22_D	88_K	0.976	0.87
65_L	89_I	0.970	0.87
43_K	50_S	0.970	0.87
21_Q	45_K	0.955	0.86
206_C	212_C	0.955	0.86
72_G	82_L	0.940	0.85
211_N	215_V	0.937	0.85
139_Q	142_K	0.936	0.85
35_L	79_I	0.933	0.85
145_G	148_E	0.912	0.83
76_I	146_L	0.911	0.83
56_R	63_D	0.897	0.82
165_N	229_I	0.895	0.82
97_L	107_M	0.893	0.82
94_L	171_G	0.888	0.82
142_K	224_R	0.887	0.82
77_T	82_L	0.883	0.81
35_L	38_A	0.881	0.81
23_Y	50_S	0.881	0.81
27_A	33_M	0.880	0.81
34_M	56_R	0.880	0.81
213_V	222_P	0.877	0.81
25_L	49_L	0.876	0.81
107_M	153_A	0.865	0.80
107_M	111_Y	0.860	0.80
189_E	193_R	0.844	0.78
148_E	220_L	0.840	0.78
110_F	173_A	0.839	0.78
190_T	232_M	0.839	0.78
124_N	189_E	0.838	0.78
175_L	197_L	0.835	0.78
7_I	91_I	0.827	0.77
28_D	33_M	0.825	0.77
125_G	130_A	0.823	0.77
15_D	18_P	0.817	0.76
158_S	215_V	0.809	0.75
113_Q	162_F	0.809	0.75
214_S	223_T	0.809	0.75
89_I	191_D	0.808	0.75
49_L	103_L	0.808	0.75
5_F	35_L	0.807	0.75
83_N	88_K	0.803	0.75
42_L	227_G	0.796	0.74
210_M	214_S	0.793	0.74
73_L	187_D	0.788	0.73
10_Y	14_V	0.787	0.73
39_L	65_L	0.779	0.73
140_R	143_L	0.777	0.72
100_I	104_V	0.777	0.72
125_G	128_P	0.773	0.72
35_L	91_I	0.772	0.72
135_Q	139_Q	0.770	0.72
63_D	96_G	0.769	0.72
95_P	157_T	0.768	0.71
17_A	21_Q	0.767	0.71
142_K	179_Y	0.766	0.71
68_N	82_L	0.765	0.71
50_S	101_R	0.764	0.71
198_S	233_L	0.760	0.71
12_P	15_D	0.757	0.70
208_S	227_G	0.756	0.70
51_F	56_R	0.755	0.70
14_V	17_A	0.752	0.70
210_M	213_V	0.751	0.70
21_Q	68_N	0.748	0.69
227_G	231_S	0.746	0.69
66_N	209_I	0.743	0.69
17_A	101_R	0.743	0.69
226_I	229_I	0.741	0.69
39_L	51_F	0.739	0.69
20_M	169_F	0.737	0.68
138_E	189_E	0.737	0.68
174_G	229_I	0.734	0.68
83_N	100_I	0.734	0.68
35_L	77_T	0.732	0.68
143_L	147_Y	0.731	0.68
128_P	133_H	0.730	0.68
129_P	133_H	0.729	0.68
110_F	156_S	0.721	0.67
221_N	224_R	0.721	0.67
62_S	73_L	0.720	0.67
112_A	197_L	0.715	0.66
160_P	211_N	0.712	0.66
20_M	99_V	0.711	0.66
140_R	148_E	0.710	0.65
16_D	81_A	0.704	0.65
46_D	184_D	0.700	0.64
110_F	147_Y	0.699	0.64
220_L	223_T	0.696	0.64
161_S	209_I	0.695	0.64
97_L	153_A	0.691	0.63
10_Y	15_D	0.691	0.63
144_D	148_E	0.687	0.63
71_N	154_C	0.686	0.63
114_Y	207_H	0.682	0.62
143_L	176_L	0.681	0.62
122_L	192_S	0.680	0.62
72_G	111_Y	0.678	0.62
79_I	169_F	0.677	0.62
54_S	173_A	0.677	0.62
67_M	89_I	0.675	0.62
123_N	189_E	0.674	0.61
29_E	116_K	0.672	0.61
7_I	42_L	0.671	0.61
177_A	181_F	0.671	0.61
106_D	109_Q	0.668	0.61
145_G	222_P	0.667	0.61
104_V	167_D	0.662	0.60
109_Q	162_F	0.660	0.60
71_N	211_N	0.659	0.60
7_I	25_L	0.658	0.60
73_L	180_R	0.658	0.60
34_M	78_P	0.657	0.59
92_R	215_V	0.656	0.59
118_K	196_G	0.654	0.59
197_L	229_I	0.653	0.59
14_V	22_D	0.650	0.59
195_D	200_A	0.649	0.59
144_D	151_L	0.648	0.58
17_A	98_P	0.648	0.58
95_P	218_K	0.647	0.58
109_Q	113_Q	0.646	0.58
148_E	222_P	0.644	0.58
28_D	41_Q	0.642	0.58
12_P	18_P	0.641	0.58
26_E	87_K	0.638	0.57
7_I	127_N	0.636	0.57
82_L	88_K	0.635	0.57
112_A	116_K	0.631	0.56
53_R	154_C	0.631	0.56
8_Y	99_V	0.630	0.56
184_D	232_M	0.626	0.56
121_L	181_F	0.625	0.56
159_C	212_C	0.624	0.56
109_Q	112_A	0.615	0.55
28_D	38_A	0.611	0.54
34_M	57_E	0.611	0.54
81_A	89_I	0.610	0.54
193_R	218_K	0.608	0.54
4_E	203_V	0.608	0.54
117_I	174_G	0.607	0.54
138_E	141_E	0.606	0.53
25_L	44_E	0.605	0.53
152_C	159_C	0.598	0.52
224_R	227_G	0.597	0.52
6_S	21_Q	0.597	0.52
43_K	59_V	0.595	0.52
187_D	193_R	0.593	0.52
206_C	216_C	0.592	0.52
112_A	233_L	0.590	0.52
63_D	181_F	0.590	0.52
59_V	63_D	0.590	0.52
139_Q	193_R	0.588	0.51
11_N	15_D	0.586	0.51
165_N	226_I	0.578	0.50
27_A	30_G	0.576	0.50
10_Y	18_P	0.576	0.50
160_P	215_V	0.574	0.50
52_R	73_L	0.571	0.49
167_D	224_R	0.571	0.49
112_A	191_D	0.570	0.49
68_N	89_I	0.569	0.49
37_D	52_R	0.569	0.49
175_L	225_A	0.565	0.48
158_S	162_F	0.563	0.48
146_L	183_I	0.563	0.48
7_I	65_L	0.562	0.48
83_N	89_I	0.562	0.48
190_T	195_D	0.561	0.48
63_D	223_T	0.561	0.48
65_L	72_G	0.560	0.48
137_P	169_F	0.558	0.48
33_M	38_A	0.557	0.48
90_V	192_S	0.557	0.48
55_C	75_C	0.557	0.48
71_N	205_R	0.555	0.47
24_T	138_E	0.555	0.47
178_A	196_G	0.554	0.47
26_E	45_K	0.554	0.47
78_P	81_A	0.554	0.47
55_C	60_C	0.554	0.47
123_N	129_P	0.552	0.47
159_C	206_C	0.552	0.47
60_C	75_C	0.552	0.47
149_C	159_C	0.551	0.47
15_D	112_A	0.551	0.47
172_P	175_L	0.550	0.47
34_M	153_A	0.550	0.47
160_P	225_A	0.549	0.47
58_G	76_I	0.549	0.47
33_M	64_G	0.548	0.46
72_G	91_I	0.546	0.46
161_S	164_W	0.545	0.46
145_G	225_A	0.544	0.46
154_C	163_W	0.543	0.46
58_G	150_I	0.541	0.46
19_R	22_D	0.540	0.45
156_S	173_A	0.538	0.45
160_P	177_A	0.538	0.45
195_D	199_D	0.537	0.45
212_C	216_C	0.536	0.45
57_E	151_L	0.535	0.45
183_I	232_M	0.534	0.45
111_Y	177_A	0.531	0.44
165_N	205_R	0.528	0.44
96_G	145_G	0.526	0.44
67_M	74_A	0.526	0.44
152_C	155_C	0.526	0.44
194_L	233_L	0.521	0.43
176_L	229_I	0.520	0.43
6_S	101_R	0.520	0.43
15_D	20_M	0.518	0.43
5_F	88_K	0.517	0.43
142_K	192_S	0.517	0.43
63_D	207_H	0.515	0.43
169_F	208_S	0.514	0.42
136_M	185_S	0.514	0.42
159_C	171_G	0.513	0.42
110_F	170_I	0.513	0.42
82_L	125_G	0.512	0.42
14_V	101_R	0.510	0.42
163_W	211_N	0.509	0.42
119_P	135_Q	0.506	0.41
9_R	21_Q	0.505	0.41
66_N	160_P	0.503	0.41
87_K	196_G	0.502	0.41
140_R	147_Y	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	0.8277	100	0.359	Contact Map
2h88B	1	0.979	100	0.419	Contact Map
2wdqB	1	0.9916	100	0.419	Contact Map
4ysxB	1	0.9832	100	0.421	Contact Map
1kf6B	1	0.9748	100	0.434	Contact Map
2bs2B	1	0.9748	100	0.455	Contact Map
3c8yA	1	0.8613	99.9	0.751	Contact Map
1ffvA	1	0.6471	99.9	0.755	Contact Map
3i9v3	1	0.8193	99.8	0.762	Contact Map
1t3qA	1	0.6681	99.8	0.768	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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