EIID-AGA - PFAM28P - GREMLIN Contacts

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EIID-AGA - PTS system mannose/fructose/sorbose family IID component

PFAM:	PF03613	Sequences: KLTKKDLRKVFWRSFFLQASWNYERMQALGFAYAMIPALKKLYPDDKEELKEALKRHLEFFNTHPYLGSFILGITLAMEEERANGEIDDEAINGVKTGLMGPLAGIGDSLFWGTLRPILAGIGASLALQGNILGPILFLLLFNIIHLLLRYYLFKLGYKLGTKAIEKLSESGLLQKITEAASILGLFVVGALIASYVSISTPLVISSGEVVVTLQDILDSIMPGLLPLLLTLLCYWLLKKKKVSPTKIILGLFVIGIVGSLLGIL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	265 (263)
Sequences:	3310 (2134)
Seq/√Len:	131.6
META:	0.544

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
244_S	247_K	4.034	1.00
46_D	49_E	3.986	1.00
63_T	104_A	3.958	1.00
39_L	50_L	3.937	1.00
6_D	41_K	3.690	1.00
47_K	51_K	3.503	1.00
213_T	216_D	3.285	1.00
3_T	6_D	3.237	1.00
38_A	76_L	3.198	1.00
250_L	254_V	2.891	1.00
31_F	75_T	2.719	1.00
52_E	89_D	2.696	1.00
229_L	233_L	2.672	1.00
40_K	50_L	2.648	1.00
243_V	251_G	2.634	1.00
215_Q	219_D	2.600	1.00
234_C	252_L	2.570	1.00
233_L	236_W	2.455	1.00
255_I	259_G	2.431	1.00
137_L	141_L	2.258	1.00
123_G	134_G	2.257	1.00
259_G	265_L	2.190	1.00
201_T	214_L	2.110	1.00
80_E	158_Y	2.088	1.00
2_L	38_A	2.057	1.00
216_D	219_D	2.007	1.00
151_Y	155_K	1.987	1.00
4_K	155_K	1.985	1.00
13_R	33_Y	1.981	1.00
2_L	76_L	1.949	1.00
3_T	41_K	1.909	1.00
44_P	49_E	1.868	1.00
193_I	231_T	1.844	1.00
156_L	159_K	1.836	1.00
59_E	93_N	1.815	1.00
34_A	72_L	1.811	1.00
132_I	135_P	1.804	1.00
10_V	38_A	1.795	1.00
258_V	262_L	1.784	1.00
119_L	141_L	1.758	1.00
49_E	52_E	1.741	1.00
32_A	54_L	1.736	1.00
44_P	47_K	1.709	1.00
203_L	214_L	1.669	1.00
39_L	53_A	1.659	1.00
222_M	225_L	1.644	1.00
48_E	52_E	1.641	1.00
18_Q	21_W	1.628	1.00
10_V	76_L	1.627	1.00
20_S	29_L	1.607	1.00
243_V	247_K	1.600	1.00
57_H	96_K	1.585	1.00
38_A	42_L	1.583	1.00
160_L	163_K	1.568	1.00
63_T	71_I	1.549	1.00
61_F	68_G	1.541	1.00
204_V	211_V	1.530	1.00
8_R	155_K	1.523	1.00
199_I	265_L	1.519	1.00
7_L	154_F	1.519	1.00
53_A	56_R	1.483	1.00
4_K	8_R	1.470	1.00
7_L	155_K	1.461	1.00
48_E	51_K	1.456	1.00
36_I	54_L	1.452	1.00
51_K	55_K	1.447	1.00
206_S	211_V	1.405	1.00
31_F	35_M	1.383	1.00
45_D	49_E	1.383	1.00
82_R	92_I	1.374	1.00
78_M	91_A	1.374	1.00
230_L	252_L	1.359	1.00
57_H	79_E	1.333	1.00
234_C	248_I	1.330	1.00
136_I	140_L	1.323	1.00
82_R	89_D	1.314	1.00
44_P	50_L	1.310	1.00
9_K	13_R	1.305	1.00
11_F	151_Y	1.288	1.00
235_Y	239_K	1.287	1.00
50_L	54_L	1.279	1.00
201_T	226_L	1.277	1.00
120_A	138_F	1.249	1.00
8_R	151_Y	1.209	1.00
204_V	213_T	1.204	0.99
259_G	264_I	1.202	0.99
135_P	138_F	1.199	0.99
2_L	7_L	1.199	0.99
61_F	71_I	1.199	0.99
227_P	231_T	1.198	0.99
124_A	128_L	1.196	0.99
70_F	153_L	1.194	0.99
145_I	148_L	1.191	0.99
262_L	265_L	1.188	0.99
155_K	159_K	1.187	0.99
115_L	145_I	1.184	0.99
74_I	95_V	1.165	0.99
82_R	87_I	1.160	0.99
57_H	75_T	1.144	0.99
237_L	251_G	1.135	0.99
199_I	230_L	1.134	0.99
32_A	36_I	1.132	0.99
258_V	261_L	1.131	0.99
10_V	154_F	1.125	0.99
13_R	37_P	1.121	0.99
11_F	150_R	1.116	0.99
228_L	232_L	1.106	0.99
61_F	72_L	1.098	0.99
247_K	251_G	1.084	0.99
55_K	58_L	1.083	0.99
139_L	143_N	1.069	0.99
120_A	124_A	1.069	0.99
17_L	68_G	1.065	0.99
126_L	129_Q	1.053	0.99
35_M	39_L	1.049	0.99
160_L	167_K	1.032	0.98
199_I	226_L	1.031	0.98
82_R	85_G	1.028	0.98
16_F	33_Y	1.024	0.98
36_I	50_L	1.020	0.98
71_I	103_L	1.014	0.98
27_Q	63_T	1.012	0.98
132_I	136_I	1.010	0.98
47_K	50_L	1.008	0.98
43_Y	53_A	1.006	0.98
123_G	137_L	1.003	0.98
22_N	25_R	1.000	0.98
8_R	12_W	0.997	0.98
2_L	6_D	0.987	0.98
144_I	148_L	0.981	0.98
148_L	152_Y	0.978	0.98
17_L	27_Q	0.964	0.98
236_W	241_K	0.962	0.98
46_D	51_K	0.956	0.97
115_L	119_L	0.953	0.97
72_L	75_T	0.952	0.97
25_R	28_A	0.950	0.97
93_N	97_T	0.949	0.97
225_L	229_L	0.946	0.97
71_I	104_A	0.946	0.97
22_N	28_A	0.944	0.97
28_A	58_L	0.943	0.97
40_K	47_K	0.941	0.97
6_D	9_K	0.940	0.97
116_R	138_F	0.940	0.97
251_G	255_I	0.929	0.97
248_I	252_L	0.926	0.97
237_L	243_V	0.923	0.97
257_I	261_L	0.922	0.97
216_D	220_S	0.918	0.97
17_L	30_G	0.916	0.97
63_T	68_G	0.914	0.97
67_L	103_L	0.914	0.97
256_G	260_S	0.905	0.96
76_L	154_F	0.895	0.96
134_G	137_L	0.890	0.96
149_L	153_L	0.886	0.96
251_G	254_V	0.885	0.96
133_L	136_I	0.884	0.96
7_L	76_L	0.882	0.96
230_L	255_I	0.881	0.96
5_K	9_K	0.881	0.96
71_I	75_T	0.880	0.96
156_L	160_L	0.877	0.96
215_Q	218_L	0.876	0.96
180_A	184_L	0.869	0.95
243_V	248_I	0.862	0.95
91_A	94_G	0.855	0.95
16_F	19_A	0.853	0.95
233_L	255_I	0.852	0.95
217_I	220_S	0.845	0.95
214_L	218_L	0.838	0.94
28_A	32_A	0.837	0.94
18_Q	27_Q	0.832	0.94
29_L	58_L	0.831	0.94
56_R	96_K	0.826	0.94
81_E	85_G	0.819	0.94
259_G	262_L	0.819	0.94
253_F	257_I	0.817	0.94
237_L	248_I	0.811	0.93
119_L	140_L	0.804	0.93
118_I	134_G	0.804	0.93
166_E	170_E	0.801	0.93
10_V	13_R	0.800	0.93
14_S	20_S	0.797	0.93
42_L	83_A	0.795	0.93
254_V	258_V	0.792	0.93
32_A	58_L	0.787	0.92
236_W	239_K	0.785	0.92
163_K	166_E	0.783	0.92
68_G	72_L	0.783	0.92
94_G	98_G	0.781	0.92
64_H	69_S	0.779	0.92
172_G	181_A	0.776	0.92
131_N	134_G	0.766	0.91
31_F	96_K	0.760	0.91
206_S	209_E	0.758	0.91
120_A	123_G	0.757	0.91
111_F	149_L	0.756	0.91
202_P	213_T	0.753	0.91
21_W	26_M	0.753	0.91
152_Y	156_L	0.752	0.91
236_W	240_K	0.751	0.91
69_S	153_L	0.748	0.90
21_W	28_A	0.745	0.90
245_P	249_I	0.745	0.90
133_L	137_L	0.743	0.90
119_L	145_I	0.737	0.90
182_S	186_L	0.730	0.89
249_I	253_F	0.730	0.89
226_L	230_L	0.730	0.89
127_A	131_N	0.729	0.89
119_L	142_F	0.727	0.89
18_Q	23_Y	0.726	0.89
69_S	154_F	0.722	0.89
202_P	265_L	0.718	0.89
199_I	227_P	0.710	0.88
153_L	156_L	0.709	0.88
35_M	75_T	0.708	0.88
15_F	147_L	0.707	0.88
5_K	8_R	0.707	0.88
25_R	58_L	0.704	0.88
170_E	173_L	0.702	0.87
64_H	111_F	0.701	0.87
49_E	82_R	0.700	0.87
219_D	227_P	0.698	0.87
18_Q	65_P	0.697	0.87
143_N	146_H	0.696	0.87
197_V	231_T	0.694	0.87
229_L	236_W	0.690	0.86
17_L	65_P	0.688	0.86
204_V	216_D	0.683	0.86
212_V	224_G	0.683	0.86
4_K	159_K	0.682	0.86
31_F	57_H	0.682	0.86
56_R	89_D	0.680	0.86
252_L	256_G	0.677	0.85
192_L	196_Y	0.675	0.85
31_F	72_L	0.674	0.85
230_L	253_F	0.671	0.85
51_K	54_L	0.671	0.85
66_Y	146_H	0.671	0.85
124_A	127_A	0.670	0.85
10_V	33_Y	0.668	0.85
201_T	265_L	0.667	0.85
212_V	217_I	0.667	0.85
246_T	250_L	0.666	0.84
10_V	34_A	0.665	0.84
204_V	209_E	0.662	0.84
43_Y	49_E	0.660	0.84
64_H	67_L	0.659	0.84
233_L	237_L	0.657	0.84
31_F	34_A	0.657	0.84
194_A	224_G	0.654	0.83
7_L	158_Y	0.653	0.83
119_L	137_L	0.653	0.83
198_S	224_G	0.652	0.83
224_G	227_P	0.650	0.83
14_S	150_R	0.649	0.83
78_M	95_V	0.648	0.83
199_I	202_P	0.648	0.83
232_L	235_Y	0.647	0.83
257_I	260_S	0.647	0.83
127_A	134_G	0.647	0.83
123_G	133_L	0.646	0.83
78_M	92_I	0.643	0.82
232_L	236_W	0.643	0.82
60_F	101_G	0.642	0.82
71_I	99_L	0.641	0.82
126_L	137_L	0.641	0.82
48_E	209_E	0.641	0.82
253_F	256_G	0.640	0.82
74_I	78_M	0.637	0.82
214_L	217_I	0.637	0.82
33_Y	36_I	0.636	0.82
137_L	140_L	0.634	0.81
129_Q	225_L	0.634	0.81
49_E	53_A	0.633	0.81
160_L	164_A	0.632	0.81
34_A	103_L	0.632	0.81
238_L	248_I	0.631	0.81
149_L	152_Y	0.628	0.81
109_S	177_I	0.627	0.81
70_F	74_I	0.627	0.81
200_S	260_S	0.624	0.80
200_S	215_Q	0.623	0.80
241_K	244_S	0.622	0.80
212_V	216_D	0.620	0.80
67_L	111_F	0.619	0.80
201_T	218_L	0.619	0.80
164_A	174_L	0.617	0.80
56_R	79_E	0.615	0.80
77_A	181_A	0.613	0.79
29_L	32_A	0.612	0.79
20_S	33_Y	0.611	0.79
230_L	233_L	0.609	0.79
18_Q	26_M	0.609	0.79
6_D	42_L	0.601	0.78
210_V	213_T	0.598	0.78
64_H	104_A	0.597	0.77
81_E	86_E	0.597	0.77
203_L	264_I	0.593	0.77
112_W	116_R	0.593	0.77
233_L	251_G	0.593	0.77
6_D	38_A	0.593	0.77
9_K	76_L	0.591	0.77
35_M	42_L	0.590	0.77
143_N	147_L	0.590	0.77
100_M	130_G	0.589	0.77
20_S	110_L	0.587	0.76
116_R	142_F	0.585	0.76
173_L	177_I	0.585	0.76
162_T	174_L	0.585	0.76
36_I	40_K	0.583	0.76
95_V	99_L	0.580	0.75
59_E	90_E	0.580	0.75
10_V	61_F	0.578	0.75
42_L	50_L	0.576	0.75
66_Y	112_W	0.576	0.75
12_W	15_F	0.574	0.75
117_P	145_I	0.574	0.75
215_Q	227_P	0.571	0.74
21_W	212_V	0.571	0.74
173_L	176_K	0.569	0.74
5_K	41_K	0.566	0.74
119_L	123_G	0.565	0.74
39_L	42_L	0.565	0.74
128_L	171_S	0.565	0.74
66_Y	142_F	0.564	0.73
106_I	109_S	0.564	0.73
140_L	144_I	0.564	0.73
199_I	259_G	0.563	0.73
164_A	169_S	0.563	0.73
188_V	191_A	0.561	0.73
2_L	41_K	0.560	0.73
112_W	142_F	0.559	0.73
226_L	259_G	0.557	0.73
152_Y	155_K	0.557	0.73
42_L	84_N	0.555	0.72
162_T	165_I	0.555	0.72
229_L	232_L	0.554	0.72
206_S	210_V	0.553	0.72
14_S	17_L	0.553	0.72
122_I	137_L	0.552	0.72
27_Q	104_A	0.551	0.72
80_E	84_N	0.547	0.71
201_T	215_Q	0.546	0.71
246_T	253_F	0.546	0.71
205_I	211_V	0.545	0.71
18_Q	62_N	0.544	0.71
219_D	223_P	0.542	0.70
42_L	80_E	0.541	0.70
9_K	37_P	0.541	0.70
25_R	29_L	0.540	0.70
66_Y	69_S	0.539	0.70
218_L	225_L	0.537	0.70
6_D	80_E	0.535	0.70
201_T	213_T	0.532	0.69
65_P	146_H	0.532	0.69
34_A	154_F	0.532	0.69
109_S	189_V	0.531	0.69
250_L	253_F	0.530	0.69
218_L	226_L	0.529	0.69
21_W	27_Q	0.528	0.69
17_L	66_Y	0.527	0.68
95_V	204_V	0.527	0.68
207_S	210_V	0.526	0.68
95_V	210_V	0.526	0.68
28_A	156_L	0.525	0.68
206_S	213_T	0.524	0.68
42_L	76_L	0.523	0.68
14_S	98_G	0.523	0.68
229_L	237_L	0.523	0.68
52_E	82_R	0.521	0.68
69_S	146_H	0.518	0.67
118_I	121_G	0.516	0.67
174_L	178_T	0.516	0.67
73_G	154_F	0.515	0.67
21_W	112_W	0.511	0.66
254_V	259_G	0.509	0.66
23_Y	113_G	0.509	0.66
64_H	68_G	0.506	0.65
248_I	253_F	0.506	0.65
45_D	52_E	0.506	0.65
201_T	249_I	0.506	0.65
30_G	37_P	0.505	0.65
27_Q	61_F	0.504	0.65
153_L	160_L	0.503	0.65
111_F	119_L	0.502	0.65
178_T	186_L	0.502	0.65
82_R	88_D	0.501	0.65
180_A	183_I	0.501	0.65
16_F	20_S	0.500	0.64
42_L	49_E	0.500	0.64

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
1tu9A	1	0.4642	8.2	0.97	Contact Map
3g06A	1	0.4226	6.8	0.971	Contact Map
2dlaA	2	0.2264	5.6	0.972	Contact Map
2kbwB	1	0.117	4.9	0.973	Contact Map
4hygA	3	0.317	4.6	0.973	Contact Map
3wcaA	1	0.2264	4.4	0.973	Contact Map
4pj6A	2	0.3509	4.4	0.973	Contact Map
1p2xA	1	0.3321	3.7	0.975	Contact Map
4afiA	2	0.2415	3.5	0.975	Contact Map
2jttC	1	0.117	3.5	0.975	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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