UPPP - SULSO - GREMLIN Contacts

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UPPP - Undecaprenyl-diphosphatase

UniProt:	Q97X94	Sequences: MNYILIGVILGIVQGISEWIPISSKTQVLIVSSTLLGLSFNVAYSFGLFMEIGTIAAAIFYFRSEISGLLKALVRMSSRREDYLLLKFLVIVTIITGLVGVPLYLFVISLPILGLPMTVLGVVLLIDGIVIYLSRKNYFPRKGLHDLKLRDIIIVGIAQGLAALPGVSRSGMTTSALILLGVKPEEAFKLSFISLIPAALGAISVTVLFSKHEVSQAVHSVSLSGLLISIVVATFVSIFFINALLRFARTNKVVLLVIILGIMAIISGILSDIAKGFY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	278 (259)
Sequences:	4107 (2716)
Seq/√Len:	168.8

ECOLI - UPPP
BACSU - UPPP
SULSO - UPPP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
65_E	189_K	3.603	1.00
92_V	190_L	3.352	1.00
158_A	176_A	3.011	1.00
13_V	31_V	2.834	1.00
66_I	196_I	2.751	1.00
97_G	201_G	2.699	1.00
3_Y	6_I	2.655	1.00
136_K	254_V	2.579	1.00
8_V	232_V	2.545	1.00
125_L	264_A	2.456	1.00
108_I	206_T	2.382	1.00
129_I	133_L	2.373	1.00
183_K	186_E	2.366	1.00
14_Q	54_T	2.340	1.00
93_T	198_A	2.326	1.00
177_L	182_V	2.325	1.00
128_G	261_G	2.259	1.00
246_R	250_T	2.242	1.00
204_S	208_L	2.211	1.00
96_T	198_A	2.078	1.00
12_I	236_V	2.035	1.00
205_V	209_F	1.955	1.00
104_Y	206_T	1.952	1.00
153_I	157_I	1.950	1.00
264_A	268_G	1.857	1.00
11_G	232_V	1.854	1.00
121_G	264_A	1.822	1.00
91_I	149_L	1.815	1.00
58_A	241_I	1.809	1.00
63_R	67_S	1.803	1.00
122_V	126_I	1.791	1.00
246_R	249_R	1.783	1.00
4_I	228_I	1.778	1.00
96_T	160_G	1.758	1.00
28_V	47_G	1.728	1.00
99_V	160_G	1.718	1.00
201_G	205_V	1.706	1.00
92_V	194_S	1.703	1.00
7_G	11_G	1.692	1.00
54_T	237_S	1.688	1.00
56_A	234_T	1.662	1.00
116_P	119_V	1.657	1.00
30_I	267_S	1.646	1.00
26_T	120_L	1.639	1.00
185_E	249_R	1.630	1.00
150_R	154_I	1.628	1.00
258_I	262_I	1.625	1.00
142_K	146_D	1.616	1.00
121_G	267_S	1.600	1.00
68_G	82_D	1.597	1.00
148_K	151_D	1.595	1.00
232_V	236_V	1.573	1.00
10_L	28_V	1.564	1.00
61_Y	242_N	1.548	1.00
103_L	106_F	1.543	1.00
10_L	31_V	1.524	1.00
123_V	164_L	1.512	1.00
265_I	269_I	1.508	1.00
52_I	203_I	1.504	1.00
133_L	137_N	1.503	1.00
69_L	86_L	1.471	1.00
121_G	268_G	1.461	1.00
132_Y	254_V	1.451	1.00
84_L	88_F	1.445	1.00
71_K	75_R	1.427	1.00
200_L	204_S	1.426	1.00
254_V	258_I	1.424	1.00
266_I	270_L	1.404	1.00
97_G	101_V	1.402	1.00
104_Y	108_I	1.387	1.00
142_K	151_D	1.380	1.00
103_L	107_V	1.373	1.00
67_S	71_K	1.362	1.00
206_T	209_F	1.346	1.00
90_V	94_I	1.342	1.00
60_F	234_T	1.326	1.00
205_V	208_L	1.316	1.00
132_Y	257_V	1.299	1.00
43_A	47_G	1.298	1.00
151_D	180_L	1.291	1.00
125_L	268_G	1.287	1.00
130_V	175_S	1.285	1.00
247_F	251_N	1.278	1.00
45_S	210_S	1.277	1.00
7_G	46_F	1.277	1.00
123_V	126_I	1.275	1.00
236_V	240_F	1.269	1.00
88_F	149_L	1.263	1.00
17_S	22_I	1.245	1.00
118_T	268_G	1.245	1.00
235_F	239_F	1.242	1.00
45_S	49_F	1.203	1.00
118_T	271_S	1.198	1.00
7_G	225_G	1.198	1.00
143_G	146_D	1.182	1.00
119_V	123_V	1.181	1.00
151_D	182_V	1.180	1.00
4_I	224_S	1.180	1.00
97_G	100_G	1.178	1.00
104_Y	209_F	1.175	1.00
51_E	199_A	1.175	1.00
62_F	245_L	1.174	1.00
173_T	191_S	1.171	1.00
167_V	172_M	1.170	1.00
8_V	12_I	1.167	1.00
118_T	122_V	1.163	1.00
93_T	97_G	1.162	1.00
106_F	109_S	1.158	1.00
7_G	228_I	1.149	1.00
99_V	103_L	1.144	1.00
234_T	238_I	1.142	1.00
223_L	227_L	1.139	1.00
83_Y	87_K	1.138	1.00
242_N	246_R	1.130	1.00
135_R	184_P	1.125	1.00
154_I	176_A	1.123	1.00
247_F	255_L	1.122	1.00
227_L	231_V	1.113	1.00
9_I	13_V	1.112	1.00
154_I	180_L	1.103	1.00
27_Q	259_I	1.100	1.00
88_F	152_I	1.100	1.00
122_V	268_G	1.085	1.00
132_Y	136_K	1.078	1.00
201_G	204_S	1.071	1.00
30_I	117_M	1.063	1.00
64_S	68_G	1.061	0.99
149_L	153_I	1.052	0.99
60_F	63_R	1.052	0.99
155_V	182_V	1.046	0.99
91_I	153_I	1.044	0.99
64_S	67_S	1.043	0.99
4_I	225_G	1.036	0.99
188_F	248_A	1.035	0.99
61_Y	245_L	1.026	0.99
255_L	258_I	1.017	0.99
52_I	199_A	1.017	0.99
147_L	182_V	1.004	0.99
19_W	237_S	0.999	0.99
208_L	212_H	0.998	0.99
222_S	225_G	0.993	0.99
244_L	251_N	0.992	0.99
98_L	102_P	0.986	0.99
12_I	16_I	0.984	0.99
121_G	271_S	0.983	0.99
4_I	8_V	0.981	0.99
188_F	245_L	0.980	0.99
127_D	161_L	0.973	0.99
50_M	229_S	0.973	0.99
177_L	187_A	0.972	0.99
48_L	206_T	0.967	0.99
6_I	36_L	0.964	0.99
64_S	71_K	0.963	0.99
219_H	222_S	0.962	0.99
220_S	224_S	0.951	0.99
160_G	163_A	0.947	0.99
29_L	120_L	0.946	0.99
59_I	66_I	0.940	0.99
101_V	201_G	0.939	0.99
85_L	193_I	0.933	0.99
30_I	124_L	0.931	0.99
22_I	244_L	0.925	0.99
240_F	243_A	0.924	0.99
32_S	38_L	0.921	0.99
245_L	248_A	0.920	0.99
119_V	164_L	0.920	0.99
157_I	161_L	0.915	0.98
48_L	202_A	0.914	0.98
73_L	86_L	0.911	0.98
151_D	177_L	0.904	0.98
80_R	83_Y	0.903	0.98
151_D	154_I	0.900	0.98
228_I	232_V	0.893	0.98
73_L	87_K	0.892	0.98
127_D	260_L	0.890	0.98
53_G	230_I	0.886	0.98
96_T	163_A	0.885	0.98
107_V	163_A	0.881	0.98
7_G	232_V	0.880	0.98
8_V	228_I	0.876	0.98
99_V	163_A	0.874	0.98
261_G	265_I	0.869	0.98
130_V	134_S	0.869	0.98
134_S	179_L	0.862	0.98
31_V	36_L	0.861	0.98
34_T	117_M	0.859	0.98
117_M	267_S	0.857	0.98
143_G	186_E	0.852	0.98
62_F	189_K	0.851	0.98
155_V	194_S	0.851	0.98
188_F	244_L	0.850	0.98
78_S	83_Y	0.846	0.97
38_L	43_A	0.845	0.97
61_Y	238_I	0.841	0.97
224_S	227_L	0.840	0.97
238_I	242_N	0.838	0.97
117_M	271_S	0.835	0.97
30_I	263_M	0.831	0.97
86_L	90_V	0.831	0.97
125_L	261_G	0.824	0.97
175_S	257_V	0.817	0.97
144_L	186_E	0.813	0.97
155_V	177_L	0.812	0.97
16_I	22_I	0.811	0.97
262_I	266_I	0.810	0.97
206_T	210_S	0.802	0.97
239_F	242_N	0.799	0.96
132_Y	261_G	0.797	0.96
136_K	139_F	0.795	0.96
137_N	141_R	0.792	0.96
224_S	228_I	0.791	0.96
157_I	160_G	0.787	0.96
222_S	226_L	0.776	0.96
49_F	203_I	0.774	0.96
134_S	175_S	0.771	0.96
72_A	82_D	0.768	0.96
96_T	100_G	0.764	0.95
120_L	123_V	0.761	0.95
17_S	27_Q	0.758	0.95
25_K	55_I	0.754	0.95
80_R	84_L	0.750	0.95
99_V	157_I	0.749	0.95
28_V	233_A	0.748	0.95
131_I	135_R	0.748	0.95
131_I	171_G	0.747	0.95
99_V	102_P	0.744	0.95
221_V	224_S	0.743	0.95
131_I	175_S	0.743	0.95
260_L	267_S	0.743	0.95
98_L	101_V	0.740	0.95
25_K	51_E	0.740	0.95
119_V	122_V	0.739	0.95
81_E	84_L	0.738	0.95
5_L	9_I	0.736	0.94
55_I	196_I	0.727	0.94
113_L	119_V	0.726	0.94
44_Y	47_G	0.724	0.94
87_K	90_V	0.724	0.94
127_D	167_V	0.723	0.94
59_I	200_L	0.722	0.94
76_M	83_Y	0.719	0.94
49_F	230_I	0.718	0.94
194_S	198_A	0.714	0.93
105_L	108_I	0.713	0.93
9_I	31_V	0.712	0.93
171_G	178_I	0.711	0.93
154_I	157_I	0.710	0.93
7_G	229_S	0.709	0.93
44_Y	51_E	0.708	0.93
135_R	253_V	0.708	0.93
39_S	43_A	0.707	0.93
147_L	186_E	0.706	0.93
9_I	36_L	0.704	0.93
124_L	260_L	0.699	0.93
125_L	129_I	0.696	0.93
66_I	70_L	0.692	0.92
88_F	92_V	0.690	0.92
85_L	144_L	0.682	0.92
14_Q	25_K	0.679	0.92
263_M	266_I	0.675	0.91
25_K	28_V	0.675	0.91
207_V	211_K	0.674	0.91
39_S	42_V	0.672	0.91
89_L	193_I	0.672	0.91
208_L	211_K	0.670	0.91
84_L	87_K	0.665	0.91
50_M	233_A	0.665	0.91
73_L	83_Y	0.657	0.90
189_K	193_I	0.657	0.90
195_L	199_A	0.656	0.90
147_L	151_D	0.652	0.90
81_E	145_H	0.651	0.90
12_I	232_V	0.646	0.90
128_G	132_Y	0.640	0.89
235_F	238_I	0.636	0.89
252_K	255_L	0.636	0.89
154_I	158_A	0.635	0.89
55_I	195_L	0.635	0.89
161_L	172_M	0.632	0.89
60_F	238_I	0.630	0.88
70_L	73_L	0.630	0.88
190_L	194_S	0.628	0.88
175_S	178_I	0.627	0.88
220_S	223_L	0.624	0.88
126_I	167_V	0.624	0.88
45_S	48_L	0.622	0.88
16_I	244_L	0.620	0.88
97_G	205_V	0.619	0.88
51_E	54_T	0.618	0.87
46_F	229_S	0.617	0.87
252_K	260_L	0.617	0.87
41_N	115_L	0.617	0.87
15_G	236_V	0.617	0.87
44_Y	108_I	0.616	0.87
135_R	241_I	0.614	0.87
185_E	189_K	0.613	0.87
105_L	109_S	0.613	0.87
97_G	102_P	0.612	0.87
70_L	74_V	0.610	0.87
32_S	37_G	0.609	0.87
135_R	254_V	0.607	0.87
10_L	43_A	0.605	0.86
233_A	236_V	0.604	0.86
129_I	132_Y	0.604	0.86
72_A	80_R	0.603	0.86
19_W	28_V	0.603	0.86
35_L	270_L	0.602	0.86
227_L	230_I	0.600	0.86
126_I	130_V	0.594	0.85
263_M	267_S	0.593	0.85
51_E	55_I	0.592	0.85
163_A	198_A	0.591	0.85
73_L	90_V	0.588	0.85
254_V	257_V	0.587	0.85
45_S	206_T	0.585	0.84
22_I	124_L	0.583	0.84
14_Q	50_M	0.582	0.84
43_A	115_L	0.581	0.84
125_L	265_I	0.578	0.84
87_K	91_I	0.577	0.84
136_K	140_P	0.575	0.83
257_V	261_G	0.572	0.83
177_L	180_L	0.572	0.83
69_L	89_L	0.572	0.83
32_S	43_A	0.571	0.83
251_N	255_L	0.567	0.83
170_S	192_F	0.566	0.82
107_V	164_L	0.566	0.82
247_F	252_K	0.564	0.82
14_Q	55_I	0.564	0.82
142_K	183_K	0.564	0.82
55_I	58_A	0.563	0.82
158_A	161_L	0.559	0.82
83_Y	86_L	0.558	0.82
137_N	140_P	0.558	0.82
86_L	89_L	0.557	0.81
22_I	120_L	0.557	0.81
129_I	261_G	0.556	0.81
96_T	107_V	0.556	0.81
147_L	152_I	0.556	0.81
155_V	190_L	0.555	0.81
167_V	260_L	0.554	0.81
171_G	175_S	0.553	0.81
257_V	260_L	0.551	0.81
14_Q	51_E	0.550	0.81
175_S	194_S	0.549	0.81
243_A	246_R	0.549	0.81
230_I	233_A	0.548	0.80
135_R	178_I	0.548	0.80
75_R	79_R	0.547	0.80
56_A	230_I	0.545	0.80
164_L	167_V	0.538	0.79
67_S	70_L	0.533	0.79
29_L	117_M	0.531	0.78
143_G	183_K	0.531	0.78
131_I	253_V	0.530	0.78
127_D	164_L	0.529	0.78
34_T	39_S	0.528	0.78
172_M	176_A	0.527	0.78
32_S	47_G	0.527	0.78
115_L	164_L	0.527	0.78
25_K	54_T	0.526	0.78
203_I	207_V	0.525	0.78
84_L	149_L	0.524	0.77
11_G	233_A	0.521	0.77
10_L	36_L	0.519	0.77
212_H	218_V	0.518	0.77
93_T	201_G	0.518	0.77
34_T	270_L	0.516	0.76
6_I	38_L	0.515	0.76
120_L	124_L	0.514	0.76
128_G	257_V	0.514	0.76
132_Y	135_R	0.513	0.76
94_I	97_G	0.513	0.76
26_T	30_I	0.511	0.76
92_V	147_L	0.511	0.76
98_L	157_I	0.510	0.76
135_R	252_K	0.510	0.76
101_V	205_V	0.508	0.75
32_S	36_L	0.508	0.75
75_R	80_R	0.508	0.75
62_F	65_E	0.507	0.75
50_M	199_A	0.506	0.75
184_P	248_A	0.505	0.75
162_A	230_I	0.504	0.75
127_D	172_M	0.502	0.74
160_G	164_L	0.501	0.74
131_I	252_K	0.500	0.74

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
4w252	1	0.223	13.1	0.966	Contact Map
3mp7B	1	0.1942	10.7	0.968	Contact Map
3ux4A	3	0.3921	9.5	0.968	Contact Map
4x5mA	2	0.3381	8	0.969	Contact Map
2ww9B	1	0.2158	7.3	0.97	Contact Map
1jb0M	1	0.1115	4.9	0.972	Contact Map
1fdmA	1	0.1799	4.1	0.973	Contact Map
1iflA	10	0.1906	3.8	0.974	Contact Map
1ifkA	9	0.1835	2.7	0.976	Contact Map
2a65A	2	0.4856	2.7	0.976	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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