UPP - BACSU - GREMLIN Contacts

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UPP - Uracil phosphoribosyltransferase

UniProt:	P39149	Sequences: MGKVYVFDHPLIQHKLTYIRNENTGTKDFRELVDEVATLMAFEITRDLPLEEVDINTPVQAAKSKVISGKKLGVVPILRAGLGMVDGILKLIPAAKVGHVGLYRDPETLKPVEYYVKLPSDVEEREFIVVDPMLATGGSAVEAIHSLKKRGAKNIRFMCLVAAPEGVEELQKHHSDVDIYIAALDEKLNEKGYIVPGLGDAGDRMFGTK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	209 (204)
Sequences:	3063 (1610)
Seq/√Len:	112.7

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
22_E	56_N	4.322	1.00
109_L	192_G	4.122	1.00
168_E	172_K	3.950	1.00
162_A	181_I	3.549	1.00
140_A	157_F	2.960	1.00
52_E	63_K	2.894	1.00
167_V	184_L	2.879	1.00
34_D	90_K	2.868	1.00
141_V	173_H	2.676	1.00
141_V	169_E	2.653	1.00
54_D	61_A	2.561	1.00
60_Q	186_E	2.545	1.00
144_I	170_L	2.517	1.00
27_K	31_E	2.461	1.00
17_T	64_S	2.389	1.00
74_V	130_V	2.308	1.00
145_H	149_K	2.268	1.00
169_E	173_H	2.249	1.00
164_P	168_E	2.225	1.00
52_E	65_K	2.209	1.00
41_A	88_I	2.203	1.00
88_I	158_M	1.984	1.00
54_D	63_K	1.961	1.00
157_F	170_L	1.941	1.00
148_K	174_H	1.922	1.00
25_G	28_D	1.908	1.00
103_Y	112_V	1.873	1.00
19_I	33_V	1.849	1.00
59_V	195_V	1.843	1.00
34_D	86_D	1.831	1.00
145_H	173_H	1.819	1.00
60_Q	195_V	1.763	1.00
12_I	36_V	1.723	1.00
126_E	154_N	1.687	1.00
105_D	112_V	1.686	1.00
164_P	186_E	1.664	1.00
13_Q	65_K	1.662	1.00
189_N	195_V	1.660	1.00
56_N	61_A	1.642	1.00
168_E	171_Q	1.634	1.00
47_D	156_R	1.626	1.00
167_V	179_I	1.619	1.00
75_V	98_G	1.591	1.00
147_L	152_A	1.578	1.00
43_E	46_R	1.547	1.00
76_P	82_L	1.544	1.00
37_A	84_M	1.533	1.00
111_P	138_G	1.497	1.00
38_T	90_K	1.486	1.00
89_L	97_V	1.478	1.00
15_K	35_E	1.477	1.00
142_E	145_H	1.466	1.00
6_V	184_L	1.440	1.00
51_E	66_V	1.418	1.00
16_L	182_A	1.417	1.00
148_K	176_D	1.409	1.00
51_E	68_S	1.366	1.00
53_V	66_V	1.352	1.00
33_V	160_L	1.336	1.00
74_V	88_I	1.330	1.00
141_V	145_H	1.325	1.00
44_I	158_M	1.321	1.00
159_C	181_I	1.320	1.00
186_E	195_V	1.316	1.00
146_S	150_R	1.309	1.00
45_T	92_I	1.264	0.99
156_R	178_D	1.264	0.99
40_M	44_I	1.263	0.99
187_K	195_V	1.247	0.99
144_I	155_I	1.241	0.99
30_R	89_L	1.241	0.99
24_T	204_R	1.239	0.99
48_L	72_L	1.232	0.99
116_V	146_S	1.203	0.99
100_V	143_A	1.192	0.99
102_L	139_S	1.186	0.99
116_V	150_R	1.182	0.99
98_G	119_P	1.182	0.99
19_I	32_L	1.172	0.99
145_H	174_H	1.155	0.99
127_F	152_A	1.138	0.99
153_K	176_D	1.136	0.99
98_G	118_L	1.133	0.99
106_P	191_K	1.106	0.98
40_M	158_M	1.098	0.98
7_F	12_I	1.091	0.98
71_K	125_R	1.088	0.98
146_S	149_K	1.087	0.98
19_I	36_V	1.083	0.98
170_L	179_I	1.077	0.98
72_L	125_R	1.070	0.98
165_E	187_K	1.070	0.98
73_G	122_V	1.069	0.98
73_G	127_F	1.063	0.98
164_P	187_K	1.060	0.98
36_V	182_A	1.042	0.98
113_E	146_S	1.026	0.97
28_D	31_E	1.023	0.97
185_D	194_I	1.019	0.97
75_V	118_L	1.011	0.97
110_K	169_E	0.992	0.97
49_P	68_S	0.989	0.97
129_V	147_L	0.985	0.97
41_A	87_G	0.975	0.96
41_A	74_V	0.974	0.96
5_Y	180_Y	0.974	0.96
45_T	48_L	0.966	0.96
82_L	99_H	0.964	0.96
12_I	39_L	0.958	0.96
126_E	156_R	0.954	0.96
122_V	152_A	0.943	0.96
55_I	62_A	0.927	0.95
187_K	190_E	0.926	0.95
21_N	55_I	0.922	0.95
156_R	180_Y	0.920	0.95
154_N	178_D	0.897	0.94
38_T	91_L	0.895	0.94
8_D	13_Q	0.886	0.94
121_D	125_R	0.879	0.93
141_V	170_L	0.879	0.93
15_K	32_L	0.875	0.93
63_K	67_I	0.873	0.93
108_T	111_P	0.873	0.93
111_P	114_Y	0.872	0.93
83_G	205_M	0.868	0.93
165_E	168_E	0.853	0.92
144_I	177_V	0.841	0.92
142_E	146_S	0.836	0.92
74_V	92_I	0.832	0.91
129_V	144_I	0.825	0.91
18_Y	66_V	0.823	0.91
105_D	110_K	0.822	0.91
26_T	96_K	0.820	0.91
7_F	40_M	0.820	0.91
16_L	161_V	0.816	0.91
41_A	91_L	0.813	0.91
53_V	67_I	0.813	0.91
85_V	99_H	0.808	0.90
54_D	62_A	0.807	0.90
17_T	66_V	0.798	0.90
33_V	36_V	0.783	0.89
44_I	128_I	0.780	0.89
18_Y	28_D	0.779	0.89
169_E	172_K	0.777	0.88
133_M	194_I	0.774	0.88
104_R	133_M	0.773	0.88
103_Y	115_Y	0.771	0.88
171_Q	178_D	0.771	0.88
122_V	127_F	0.770	0.88
73_G	98_G	0.762	0.87
170_L	177_V	0.761	0.87
104_R	202_G	0.758	0.87
34_D	38_T	0.751	0.87
171_Q	179_I	0.748	0.87
8_D	46_R	0.747	0.86
128_I	156_R	0.739	0.86
80_A	133_M	0.739	0.86
105_D	108_T	0.738	0.86
127_F	147_L	0.731	0.85
16_L	183_A	0.728	0.85
118_L	150_R	0.727	0.85
24_T	28_D	0.725	0.85
41_A	44_I	0.722	0.85
72_L	126_E	0.721	0.84
39_L	42_F	0.721	0.84
128_I	158_M	0.716	0.84
74_V	85_V	0.715	0.84
166_G	188_L	0.714	0.84
181_I	184_L	0.713	0.84
18_Y	24_T	0.713	0.84
85_V	97_V	0.712	0.84
69_G	125_R	0.707	0.83
185_D	196_P	0.704	0.83
37_A	87_G	0.698	0.82
126_E	153_K	0.698	0.82
76_P	130_V	0.698	0.82
174_H	177_V	0.696	0.82
55_I	61_A	0.687	0.81
104_R	132_P	0.684	0.81
138_G	169_E	0.682	0.81
129_V	143_A	0.680	0.81
104_R	135_A	0.680	0.81
104_R	139_S	0.677	0.81
17_T	55_I	0.674	0.80
133_M	139_S	0.673	0.80
104_R	200_D	0.671	0.80
101_G	114_Y	0.670	0.80
161_V	183_A	0.667	0.80
96_K	125_R	0.666	0.79
133_M	193_Y	0.665	0.79
20_R	185_D	0.663	0.79
159_C	162_A	0.662	0.79
52_E	64_S	0.662	0.79
72_L	92_I	0.658	0.79
34_D	37_A	0.656	0.78
65_K	68_S	0.651	0.78
60_Q	187_K	0.647	0.77
51_E	67_I	0.647	0.77
57_T	62_A	0.645	0.77
82_L	85_V	0.642	0.77
133_M	198_L	0.638	0.77
7_F	181_I	0.638	0.77
33_V	205_M	0.633	0.76
5_Y	8_D	0.631	0.76
18_Y	32_L	0.628	0.75
53_V	64_S	0.627	0.75
144_I	148_K	0.627	0.75
21_N	53_V	0.626	0.75
165_E	186_E	0.622	0.75
109_L	191_K	0.621	0.75
129_V	170_L	0.620	0.74
73_G	118_L	0.618	0.74
102_L	142_E	0.616	0.74
50_L	65_K	0.616	0.74
33_V	37_A	0.614	0.74
11_L	39_L	0.613	0.74
49_P	70_K	0.608	0.73
20_R	196_P	0.605	0.73
33_V	201_A	0.604	0.73
102_L	146_S	0.602	0.72
167_V	171_Q	0.600	0.72
64_S	67_I	0.599	0.72
39_L	91_L	0.598	0.72
145_H	148_K	0.595	0.71
85_V	130_V	0.595	0.71
185_D	197_G	0.592	0.71
147_L	151_G	0.590	0.71
193_Y	201_A	0.590	0.71
35_E	42_F	0.587	0.70
100_V	116_V	0.587	0.70
26_T	30_R	0.585	0.70
167_V	181_I	0.583	0.70
25_G	94_A	0.582	0.70
58_P	204_R	0.581	0.70
110_K	142_E	0.580	0.70
44_I	127_F	0.578	0.69
196_P	199_G	0.574	0.69
24_T	58_P	0.571	0.68
47_D	178_D	0.570	0.68
15_K	39_L	0.570	0.68
141_V	174_H	0.569	0.68
113_E	150_R	0.568	0.68
80_A	193_Y	0.568	0.68
28_D	156_R	0.567	0.68
91_L	94_A	0.563	0.67
102_L	113_E	0.559	0.67
32_L	35_E	0.554	0.66
38_T	41_A	0.553	0.66
19_I	44_I	0.552	0.66
5_Y	178_D	0.552	0.66
194_I	198_L	0.551	0.66
111_P	142_E	0.551	0.66
85_V	88_I	0.550	0.65
25_G	96_K	0.548	0.65
12_I	182_A	0.547	0.65
14_H	67_I	0.547	0.65
139_S	142_E	0.547	0.65
31_E	90_K	0.547	0.65
17_T	33_V	0.545	0.65
17_T	21_N	0.545	0.65
106_P	138_G	0.544	0.65
155_I	177_V	0.543	0.64
29_F	58_P	0.542	0.64
80_A	202_G	0.542	0.64
148_K	177_V	0.542	0.64
34_D	205_M	0.541	0.64
194_I	200_D	0.540	0.64
86_D	90_K	0.540	0.64
34_D	41_A	0.540	0.64
11_L	91_L	0.538	0.64
42_F	87_G	0.535	0.63
140_A	179_I	0.534	0.63
14_H	18_Y	0.534	0.63
22_E	61_A	0.533	0.63
159_C	167_V	0.533	0.63
58_P	119_P	0.531	0.63
111_P	139_S	0.530	0.63
140_A	159_C	0.528	0.62
84_M	160_L	0.525	0.62
132_P	135_A	0.525	0.62
47_D	180_Y	0.524	0.62
13_Q	50_L	0.523	0.62
100_V	129_V	0.521	0.61
80_A	194_I	0.519	0.61
174_H	179_I	0.519	0.61
13_Q	183_A	0.519	0.61
41_A	158_M	0.519	0.61
23_N	56_N	0.517	0.61
165_E	192_G	0.515	0.60
160_L	182_A	0.514	0.60
14_H	35_E	0.511	0.60
178_D	181_I	0.511	0.60
62_A	65_K	0.511	0.60
20_R	197_G	0.510	0.60
143_A	208_T	0.508	0.59
51_E	69_G	0.508	0.59
17_T	65_K	0.506	0.59
104_R	203_D	0.506	0.59
113_E	142_E	0.506	0.59
29_F	201_A	0.505	0.59
80_A	201_A	0.505	0.59
132_P	139_S	0.504	0.59
148_K	153_K	0.504	0.59
27_K	84_M	0.503	0.59
73_G	125_R	0.501	0.58
33_V	84_M	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	0.9809	100	0.236	Contact Map
1o5oA	3	1	100	0.26	Contact Map
1bd3D	3	1	100	0.266	Contact Map
2ehjA	3	0.9904	100	0.269	Contact Map
3dmpA	4	0.9761	100	0.27	Contact Map
1v9sA	3	0.9952	100	0.284	Contact Map
2e55A	3	0.9809	100	0.296	Contact Map
1i5eA	2	0.9904	100	0.348	Contact Map
3s5jB	2	0.9426	99.8	0.733	Contact Map
1qb7A	2	0.9187	99.7	0.761	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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