UPP - ECOLI - GREMLIN Contacts

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UPP - Uracil phosphoribosyltransferase

UniProt:	P0A8F0	Sequences: MKIVEVKHPLVKHKLGLMREQDISTKRFRELASEVGSLLTYEATADLETEKVTIEGWNGPVEIDQIKGKKITVVPILRAGLGMMDGVLENVPSARISVVGMYRNEETLEPVPYFQKLVSNIDERMALIVDPMLATGGSVIATIDLLKKAGCSSIKVLVLVAAPEGIAALEKAHPDVELYTASIDQGLNEHGYIIPGLGDAGDKIFGTK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11332
Length:	208 (203)
Sequences:	3067 (1609)
Seq/√Len:	113.0

ECOLI - UPP
BACSU - UPP
HALSA - UPP
SULSO - UPP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
21_Q	55_E	4.089	1.00
108_L	191_G	3.821	1.00
167_A	171_K	3.641	1.00
161_A	180_T	3.409	1.00
53_T	60_P	3.367	1.00
51_K	62_E	3.185	1.00
139_V	156_V	2.782	1.00
16_G	63_I	2.770	1.00
33_S	89_E	2.746	1.00
166_I	183_I	2.651	1.00
140_I	172_A	2.541	1.00
140_I	168_A	2.479	1.00
143_I	169_L	2.415	1.00
26_K	30_E	2.395	1.00
59_G	185_Q	2.357	1.00
53_T	62_E	2.246	1.00
51_K	64_D	2.236	1.00
168_A	172_A	2.195	1.00
73_V	129_V	2.159	1.00
144_D	148_K	2.154	1.00
163_P	167_A	2.145	1.00
50_E	65_Q	2.114	1.00
40_T	87_V	2.070	1.00
52_V	65_Q	1.982	1.00
87_V	157_L	1.901	1.00
147_K	173_H	1.856	1.00
55_E	60_P	1.834	1.00
156_V	169_L	1.796	1.00
102_Y	111_V	1.777	1.00
24_S	27_R	1.775	1.00
18_M	32_A	1.760	1.00
58_N	194_I	1.758	1.00
33_S	85_D	1.755	1.00
59_G	194_I	1.739	1.00
144_D	172_A	1.737	1.00
12_K	64_D	1.718	1.00
104_N	111_V	1.686	1.00
125_M	153_S	1.636	1.00
11_V	35_V	1.636	1.00
188_N	194_I	1.627	1.00
50_E	67_K	1.607	1.00
46_D	155_K	1.571	1.00
163_P	185_Q	1.556	1.00
167_A	170_E	1.556	1.00
166_I	178_L	1.542	1.00
74_V	97_S	1.525	1.00
42_E	45_A	1.504	1.00
75_P	81_L	1.482	1.00
146_L	151_C	1.464	1.00
36_G	83_M	1.444	1.00
5_E	183_I	1.439	1.00
14_K	34_E	1.431	1.00
37_S	89_E	1.422	1.00
88_L	96_I	1.404	1.00
141_A	144_D	1.380	1.00
15_L	181_A	1.367	1.00
32_A	159_L	1.311	1.00
43_A	157_L	1.297	0.99
158_V	180_T	1.294	0.99
140_I	144_D	1.273	0.99
147_K	175_D	1.270	0.99
145_L	149_A	1.265	0.99
73_V	87_V	1.265	0.99
47_L	71_I	1.260	0.99
185_Q	194_I	1.249	0.99
54_I	61_V	1.237	0.99
186_G	194_I	1.236	0.99
110_P	137_G	1.235	0.99
70_K	124_R	1.227	0.99
44_T	91_V	1.214	0.99
155_K	177_E	1.202	0.99
143_I	154_I	1.193	0.99
23_I	203_K	1.180	0.99
29_R	88_L	1.177	0.99
39_L	43_A	1.177	0.99
18_M	31_L	1.167	0.99
72_T	121_I	1.166	0.99
144_D	173_H	1.158	0.99
99_V	142_T	1.127	0.99
126_A	151_C	1.116	0.98
105_E	190_H	1.115	0.98
115_Q	145_L	1.115	0.98
101_M	138_S	1.103	0.98
39_L	157_L	1.086	0.98
115_Q	149_A	1.079	0.98
145_L	148_K	1.076	0.98
97_S	118_V	1.075	0.98
6_V	11_V	1.070	0.98
152_S	175_D	1.065	0.98
18_M	35_V	1.063	0.98
112_P	115_Q	1.054	0.98
48_E	67_K	1.049	0.98
71_I	124_R	1.043	0.98
35_V	181_A	1.043	0.98
109_E	168_A	1.042	0.98
72_T	126_A	1.038	0.97
164_E	186_G	1.035	0.97
110_P	113_Y	1.026	0.97
44_T	47_L	1.008	0.97
169_L	178_L	1.005	0.97
184_D	193_I	0.999	0.97
163_P	186_G	0.999	0.97
27_R	30_E	0.998	0.97
125_M	155_K	0.976	0.96
40_T	86_G	0.973	0.96
128_I	146_L	0.967	0.96
110_P	116_K	0.964	0.96
17_L	65_Q	0.946	0.96
20_E	54_I	0.943	0.96
40_T	73_V	0.942	0.96
186_G	189_E	0.942	0.96
112_P	145_L	0.940	0.95
11_V	38_L	0.930	0.95
7_K	12_K	0.928	0.95
114_F	118_V	0.916	0.95
81_L	98_V	0.913	0.95
107_T	110_P	0.912	0.95
141_A	145_L	0.869	0.93
82_G	204_I	0.864	0.93
37_S	90_N	0.862	0.93
143_I	176_V	0.857	0.93
113_Y	116_K	0.856	0.93
14_K	31_L	0.855	0.93
121_I	151_C	0.849	0.92
155_K	179_Y	0.845	0.92
153_S	177_E	0.841	0.92
49_T	64_D	0.841	0.92
40_T	90_N	0.840	0.92
73_V	91_V	0.837	0.92
140_I	169_L	0.837	0.92
4_V	179_Y	0.824	0.91
120_N	124_R	0.818	0.91
168_A	171_K	0.808	0.90
111_V	116_K	0.806	0.90
121_I	126_A	0.801	0.90
114_F	117_L	0.800	0.90
128_I	143_I	0.797	0.90
111_V	117_L	0.792	0.89
15_L	160_V	0.785	0.89
84_M	98_V	0.785	0.89
132_M	193_I	0.784	0.89
17_L	27_R	0.783	0.89
113_Y	117_L	0.783	0.89
52_V	63_I	0.779	0.89
33_S	37_S	0.778	0.89
16_G	65_Q	0.777	0.89
43_A	127_L	0.771	0.88
6_V	39_L	0.771	0.88
112_P	116_K	0.766	0.88
74_V	117_L	0.762	0.88
164_E	167_A	0.762	0.88
170_E	177_E	0.762	0.88
127_L	155_K	0.761	0.87
40_T	43_A	0.759	0.87
79_A	132_M	0.757	0.87
104_N	109_E	0.755	0.87
103_R	201_G	0.752	0.87
180_T	183_I	0.747	0.86
104_N	107_T	0.747	0.86
117_L	149_A	0.746	0.86
95_R	124_R	0.742	0.86
7_K	45_A	0.741	0.86
72_T	97_S	0.741	0.86
103_R	132_M	0.739	0.86
127_L	157_L	0.736	0.86
160_V	182_S	0.734	0.86
32_A	35_V	0.726	0.85
38_L	41_Y	0.725	0.85
71_I	125_M	0.725	0.85
84_M	96_I	0.725	0.85
15_L	182_S	0.725	0.85
184_D	195_P	0.724	0.85
165_G	187_L	0.724	0.85
110_P	114_F	0.723	0.85
23_I	27_R	0.721	0.85
103_R	131_P	0.720	0.84
170_E	178_L	0.716	0.84
73_V	84_M	0.711	0.84
169_L	176_V	0.711	0.84
137_G	168_A	0.709	0.84
75_P	129_V	0.706	0.83
17_L	23_I	0.701	0.83
16_G	54_I	0.692	0.82
36_G	86_G	0.690	0.82
128_I	142_T	0.683	0.81
166_I	170_E	0.682	0.81
17_L	31_L	0.681	0.81
110_P	118_V	0.680	0.81
128_I	169_L	0.679	0.81
19_R	184_D	0.676	0.81
103_R	138_S	0.676	0.81
97_S	117_L	0.676	0.81
132_M	192_Y	0.671	0.80
33_S	36_G	0.670	0.80
103_R	134_A	0.669	0.80
110_P	117_L	0.662	0.79
59_G	186_G	0.657	0.79
81_L	84_M	0.655	0.78
132_M	138_S	0.653	0.78
32_A	36_G	0.653	0.78
112_P	117_L	0.650	0.78
125_M	152_S	0.650	0.78
103_R	199_D	0.650	0.78
126_A	146_L	0.646	0.77
4_V	177_E	0.645	0.77
111_V	114_F	0.641	0.77
144_D	147_K	0.640	0.77
71_I	91_V	0.639	0.77
132_M	197_L	0.639	0.77
23_I	57_W	0.639	0.77
158_V	161_A	0.638	0.77
38_L	90_N	0.637	0.76
32_A	204_I	0.634	0.76
173_H	176_V	0.633	0.76
56_G	61_V	0.630	0.76
19_R	195_P	0.629	0.76
18_M	43_A	0.625	0.75
48_E	69_K	0.624	0.75
32_A	200_A	0.622	0.75
54_I	60_P	0.622	0.75
34_E	41_Y	0.620	0.75
101_M	141_A	0.613	0.74
164_E	185_Q	0.611	0.73
192_Y	200_A	0.610	0.73
46_D	177_E	0.609	0.73
143_I	147_K	0.609	0.73
101_M	145_L	0.607	0.73
20_E	52_V	0.607	0.73
105_E	137_G	0.605	0.73
11_V	181_A	0.602	0.72
193_I	197_L	0.601	0.72
10_L	38_L	0.600	0.72
109_E	141_A	0.598	0.72
195_P	198_G	0.597	0.72
118_V	203_K	0.597	0.72
6_V	180_T	0.595	0.71
79_A	192_Y	0.593	0.71
108_L	190_H	0.592	0.71
184_D	196_G	0.589	0.71
90_N	93_S	0.588	0.71
57_W	203_K	0.584	0.70
22_D	55_E	0.583	0.70
84_M	129_V	0.581	0.70
24_S	93_S	0.580	0.70
54_I	63_I	0.580	0.70
158_V	166_I	0.576	0.69
146_L	150_G	0.574	0.69
27_R	155_K	0.573	0.69
14_K	38_L	0.572	0.69
140_I	173_H	0.564	0.67
193_I	199_D	0.563	0.67
85_D	89_E	0.560	0.67
99_V	115_Q	0.560	0.67
31_L	34_E	0.557	0.66
147_K	176_V	0.557	0.66
30_E	89_E	0.554	0.66
138_S	141_A	0.553	0.66
28_F	200_A	0.553	0.66
37_S	40_T	0.553	0.66
40_T	157_L	0.553	0.66
16_G	32_A	0.552	0.66
131_P	134_A	0.552	0.66
10_L	90_N	0.551	0.66
41_Y	86_G	0.551	0.66
72_T	117_L	0.549	0.65
16_G	20_E	0.542	0.64
83_M	159_L	0.541	0.64
79_A	200_A	0.539	0.64
142_T	207_T	0.538	0.64
12_K	182_S	0.538	0.64
166_I	180_T	0.537	0.64
100_G	113_Y	0.537	0.64
25_T	29_R	0.536	0.64
28_F	57_W	0.535	0.63
32_A	83_M	0.535	0.63
33_S	204_I	0.534	0.63
79_A	201_G	0.532	0.63
24_S	95_R	0.532	0.63
43_A	126_A	0.530	0.63
13_H	17_L	0.530	0.63
48_E	65_Q	0.529	0.63
69_K	123_E	0.529	0.63
79_A	193_I	0.529	0.63
4_V	7_K	0.526	0.62
33_S	40_T	0.524	0.62
107_T	137_G	0.524	0.62
110_P	141_A	0.523	0.62
84_M	87_V	0.522	0.62
12_K	49_T	0.521	0.61
103_R	202_D	0.521	0.61
112_P	149_A	0.518	0.61
13_H	34_E	0.514	0.60
72_T	124_R	0.514	0.60
86_G	94_A	0.514	0.60
46_D	179_Y	0.513	0.60
23_I	118_V	0.513	0.60
131_P	138_S	0.512	0.60
45_A	90_N	0.511	0.60
164_E	191_G	0.511	0.60
19_R	196_G	0.508	0.59
75_P	100_G	0.507	0.59
24_S	91_V	0.506	0.59
26_K	83_M	0.503	0.59
33_S	180_T	0.500	0.58

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
1xttA	3	0.9856	100	0.23	Contact Map
3dmpA	4	0.9808	100	0.267	Contact Map
2ehjA	3	1	100	0.27	Contact Map
1o5oA	3	1	100	0.273	Contact Map
1bd3D	3	0.9952	100	0.276	Contact Map
1v9sA	3	1	100	0.276	Contact Map
2e55A	3	0.9904	100	0.295	Contact Map
1i5eA	2	1	100	0.348	Contact Map
3s5jB	2	0.9135	99.8	0.738	Contact Map
1qb7A	2	0.9087	99.7	0.763	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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