TSR3 - SULSO - GREMLIN Contacts

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TSR3 - Probable ribosome biogenesis protein SSO0551

UniProt:	Q9UWV6	Sequences: MKVYIIDYHKDDPKRCTGKKLVKLKIAEFTRVGKGVVLDPFAQITLSNKDKDIVRRIGITIVDTSWNNTSQSEFKNIRGEHRRIPILFAGNPIHYGIAYKLSSIEALIATLYIVDEVEEAIKLSNVVKWGHTFIELNKELLEAYKNKTEEDIKKIEREIIEKILEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	166 (160)
Sequences:	500 (320)
Seq/√Len:	25.3

HALSA - TSR3
SULSO - TSR3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
17_T	102_S	4.016	1.00
104_I	124_S	3.412	1.00
15_R	93_I	3.112	1.00
54_V	114_V	3.104	1.00
90_G	136_L	3.039	1.00
68_N	71_Q	2.998	1.00
61_I	103_S	2.993	1.00
147_K	151_D	2.596	0.99
46_L	110_T	2.497	0.99
3_V	107_L	2.200	0.97
94_H	100_K	2.176	0.97
111_L	119_E	2.160	0.97
131_H	135_E	2.131	0.97
104_I	127_V	2.096	0.96
3_V	111_L	2.081	0.96
5_I	18_G	2.062	0.96
45_T	153_K	2.019	0.95
39_D	62_V	1.914	0.94
148_T	151_D	1.887	0.93
12_D	15_R	1.785	0.91
142_E	145_K	1.755	0.90
59_I	110_T	1.755	0.90
37_V	79_G	1.711	0.89
141_L	145_K	1.695	0.89
112_Y	117_V	1.675	0.88
108_I	124_S	1.674	0.88
118_E	150_E	1.670	0.88
158_E	162_K	1.649	0.87
30_T	60_T	1.594	0.85
39_D	42_A	1.589	0.85
11_D	16_C	1.553	0.84
59_I	107_L	1.548	0.84
132_T	135_E	1.548	0.84
4_Y	30_T	1.521	0.83
32_V	77_I	1.420	0.78
154_K	158_E	1.387	0.76
27_A	107_L	1.384	0.76
117_V	142_E	1.379	0.76
83_R	103_S	1.373	0.76
45_T	156_E	1.355	0.75
120_A	134_I	1.342	0.74
153_K	156_E	1.337	0.74
50_D	82_R	1.325	0.73
20_K	126_V	1.306	0.72
63_D	128_K	1.305	0.72
112_Y	141_L	1.303	0.72
6_I	30_T	1.278	0.70
131_H	138_K	1.261	0.69
11_D	18_G	1.250	0.68
86_I	99_Y	1.243	0.68
88_F	97_I	1.240	0.68
126_V	131_H	1.230	0.67
104_I	126_V	1.215	0.66
6_I	11_D	1.206	0.65
3_V	129_W	1.194	0.65
36_V	152_I	1.188	0.64
20_K	104_I	1.188	0.64
20_K	23_K	1.169	0.63
20_K	24_L	1.161	0.62
7_D	35_G	1.155	0.62
10_K	68_N	1.139	0.61
60_T	103_S	1.138	0.61
77_I	97_I	1.137	0.61
138_K	154_K	1.135	0.61
69_T	74_F	1.113	0.59
45_T	149_E	1.103	0.58
51_K	55_R	1.101	0.58
122_K	126_V	1.095	0.58
117_V	145_K	1.091	0.58
44_I	49_K	1.090	0.58
7_D	18_G	1.081	0.57
131_H	136_L	1.078	0.57
48_N	51_K	1.073	0.56
112_Y	134_I	1.058	0.55
59_I	143_A	1.052	0.55
49_K	148_T	1.052	0.55
35_G	103_S	1.040	0.54
19_K	63_D	1.009	0.52
92_P	129_W	1.008	0.52
157_R	161_E	1.006	0.51
16_C	63_D	1.002	0.51
47_S	149_E	0.993	0.51
55_R	160_I	0.989	0.50
64_T	156_E	0.980	0.50
55_R	116_E	0.980	0.50
27_A	103_S	0.955	0.48
11_D	103_S	0.954	0.48
16_C	64_T	0.951	0.47
5_I	27_A	0.940	0.47
38_L	78_R	0.937	0.46
97_I	135_E	0.937	0.46
92_P	126_V	0.933	0.46
38_L	63_D	0.926	0.46
17_T	76_N	0.925	0.46
8_Y	32_V	0.919	0.45
5_I	11_D	0.912	0.45
138_K	159_I	0.907	0.44
138_K	147_K	0.905	0.44
21_L	107_L	0.903	0.44
93_I	100_K	0.900	0.44
138_K	142_E	0.899	0.44
39_D	103_S	0.897	0.44
52_D	55_R	0.888	0.43
11_D	27_A	0.886	0.43
35_G	60_T	0.886	0.43
36_V	99_Y	0.879	0.42
37_V	95_Y	0.870	0.42
142_E	150_E	0.865	0.41
150_E	153_K	0.862	0.41
104_I	123_L	0.859	0.41
51_K	116_E	0.858	0.41
3_V	123_L	0.856	0.41
108_I	129_W	0.854	0.40
114_V	123_L	0.848	0.40
7_D	11_D	0.843	0.40
87_L	113_I	0.841	0.40
153_K	157_R	0.838	0.39
46_L	59_I	0.837	0.39
89_A	130_G	0.832	0.39
53_I	57_I	0.825	0.38
21_L	108_I	0.825	0.38
112_Y	158_E	0.822	0.38
154_K	157_R	0.810	0.37
24_L	126_V	0.803	0.37
45_T	83_R	0.797	0.37
52_D	146_N	0.792	0.36
139_E	162_K	0.791	0.36
49_K	102_S	0.788	0.36
8_Y	35_G	0.771	0.35
48_N	148_T	0.770	0.35
86_I	149_E	0.768	0.35
42_A	52_D	0.760	0.34
150_E	161_E	0.759	0.34
18_G	39_D	0.758	0.34
86_I	98_A	0.756	0.34
71_Q	93_I	0.754	0.34
64_T	69_T	0.754	0.34
10_K	72_S	0.739	0.33
143_A	155_I	0.737	0.33
45_T	102_S	0.736	0.33
18_G	103_S	0.735	0.32
146_N	155_I	0.729	0.32
4_Y	62_V	0.723	0.32
108_I	152_I	0.719	0.31
150_E	156_E	0.717	0.31
143_A	159_I	0.716	0.31
22_V	27_A	0.713	0.31
39_D	160_I	0.712	0.31
26_I	126_V	0.712	0.31
64_T	103_S	0.706	0.31
23_K	52_D	0.704	0.31
149_E	153_K	0.703	0.30
17_T	38_L	0.701	0.30
83_R	156_E	0.700	0.30
80_E	102_S	0.697	0.30
115_D	145_K	0.696	0.30
88_F	160_I	0.696	0.30
47_S	152_I	0.692	0.30
97_I	121_I	0.691	0.30
37_V	157_R	0.682	0.29
114_V	134_I	0.679	0.29
35_G	58_G	0.678	0.29
99_Y	160_I	0.678	0.29
5_I	103_S	0.676	0.29
136_L	158_E	0.675	0.29
6_I	10_K	0.674	0.29
40_P	63_D	0.674	0.29
124_S	151_D	0.664	0.28
31_R	92_P	0.656	0.28
90_G	124_S	0.652	0.27
22_V	62_V	0.651	0.27
90_G	132_T	0.651	0.27
26_I	104_I	0.651	0.27
7_D	62_V	0.651	0.27
70_S	158_E	0.644	0.27
38_L	59_I	0.644	0.27
13_P	48_N	0.643	0.27
61_I	69_T	0.640	0.27
127_V	130_G	0.629	0.26
23_K	125_N	0.629	0.26
11_D	83_R	0.629	0.26
36_V	159_I	0.628	0.26
51_K	145_K	0.628	0.26
93_I	140_L	0.625	0.26
104_I	130_G	0.623	0.26
7_D	16_C	0.617	0.25
128_K	140_L	0.607	0.25
10_K	75_K	0.599	0.24
69_T	73_E	0.597	0.24
16_C	40_P	0.589	0.24
17_T	129_W	0.588	0.24
58_G	68_N	0.582	0.24
63_D	153_K	0.580	0.23
21_L	152_I	0.580	0.23
78_R	148_T	0.580	0.23
20_K	77_I	0.578	0.23
62_V	68_N	0.577	0.23
21_L	130_G	0.574	0.23
36_V	148_T	0.574	0.23
149_E	156_E	0.570	0.23
90_G	131_H	0.570	0.23
42_A	136_L	0.569	0.23
15_R	107_L	0.566	0.23
125_N	162_K	0.560	0.22
48_N	156_E	0.557	0.22
128_K	157_R	0.557	0.22
129_W	132_T	0.556	0.22
25_K	68_N	0.554	0.22
146_N	152_I	0.548	0.22
99_Y	119_E	0.548	0.22
46_L	55_R	0.548	0.22
36_V	162_K	0.542	0.22
7_D	103_S	0.542	0.22
104_I	115_D	0.539	0.21
63_D	77_I	0.537	0.21
19_K	22_V	0.534	0.21
46_L	117_V	0.534	0.21
87_L	109_A	0.534	0.21
9_H	79_G	0.533	0.21
107_L	110_T	0.530	0.21
20_K	162_K	0.530	0.21
44_I	149_E	0.524	0.21
141_L	147_K	0.524	0.21
92_P	128_K	0.523	0.21
27_A	33_G	0.522	0.21
149_E	152_I	0.520	0.20
18_G	58_G	0.518	0.20
21_L	62_V	0.515	0.20
36_V	135_E	0.515	0.20
6_I	18_G	0.515	0.20
51_K	114_V	0.513	0.20
98_A	156_E	0.510	0.20
63_D	72_S	0.510	0.20
121_I	131_H	0.507	0.20
20_K	124_S	0.507	0.20
83_R	95_Y	0.506	0.20
11_D	15_R	0.506	0.20
8_Y	72_S	0.503	0.20
64_T	82_R	0.500	0.20
142_E	147_K	0.500	0.20

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
3j16B	1	0.6807	36.3	0.955	Contact Map
1yrtA	1	0.512	17.4	0.962	Contact Map
3bk7A	1	0.9157	14.5	0.963	Contact Map
2yyvA	2	0.3253	11.9	0.964	Contact Map
2d28C	1	0.6988	11.2	0.965	Contact Map
4uerb	1	0.1807	7.6	0.967	Contact Map
1zlpA	4	0.8795	7.6	0.967	Contact Map
4gvfA	1	0.759	6.5	0.968	Contact Map
2nugA	2	0.6988	5.8	0.969	Contact Map
2p8tA	1	0.8494	5.1	0.97	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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