TYW3 - SULSO - GREMLIN Contacts

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TYW3 - tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase

UniProt:	Q9UX16	Sequences: MLVWEELREKALNKIYHDKEIGYLDPDILGFLLAFYRNRNDVYTQSSCSGRITIVDAEMPWDRKNSTIIFKNHLRITEQDLEDVLSKNQVRRLWLIVQGPIIHIYAKNIETGWDILKIAREAGFKHSGILATNQKGVLVELRTGIRMVHLLRESNTERVDKDKIKTLVNVCNEVLARGKQKMNLLKDLLSSSSNNSMELGKNSKLKTPI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	209 (191)
Sequences:	382 (275)
Seq/√Len:	19.9

SULSO - TYW3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
11_A	43_Y	3.266	1.00
34_A	186_K	3.157	0.99
85_L	151_L	3.147	0.99
41_D	107_K	3.137	0.99
15_I	24_L	3.092	0.99
60_P	63_R	3.076	0.99
177_R	180_Q	2.977	0.99
27_D	179_K	2.948	0.99
124_F	181_K	2.939	0.99
103_H	116_L	2.829	0.99
27_D	49_S	2.716	0.98
159_V	163_K	2.642	0.98
106_A	112_G	2.430	0.97
149_H	167_L	2.426	0.97
9_E	13_N	2.302	0.96
95_L	171_C	2.257	0.95
116_L	127_S	2.197	0.94
100_P	174_V	2.183	0.94
18_D	141_L	2.130	0.93
34_A	185_L	2.116	0.93
106_A	115_I	2.107	0.93
66_S	126_H	2.037	0.91
68_I	163_K	2.035	0.91
4_W	8_R	1.998	0.91
185_L	189_L	1.987	0.90
42_V	115_I	1.848	0.87
98_Q	178_G	1.801	0.85
17_H	21_I	1.757	0.84
19_K	178_G	1.756	0.84
5_E	107_K	1.754	0.84
64_K	174_V	1.726	0.83
17_H	22_G	1.690	0.81
5_E	9_E	1.682	0.81
17_H	178_G	1.679	0.81
168_V	172_N	1.658	0.80
104_I	115_I	1.657	0.80
41_D	129_I	1.643	0.79
53_T	152_R	1.629	0.79
184_L	189_L	1.611	0.78
49_S	150_L	1.566	0.76
126_H	144_G	1.545	0.75
68_I	142_R	1.538	0.75
97_V	113_W	1.500	0.73
20_E	68_I	1.462	0.71
28_I	31_F	1.451	0.70
96_I	103_H	1.446	0.70
71_K	125_K	1.431	0.69
19_K	98_Q	1.375	0.66
97_V	178_G	1.369	0.66
96_I	136_G	1.368	0.66
21_I	140_E	1.357	0.65
68_I	125_K	1.337	0.64
142_R	178_G	1.316	0.62
75_R	179_K	1.316	0.62
100_P	140_E	1.305	0.62
118_I	122_A	1.297	0.61
45_Q	159_V	1.252	0.58
76_I	171_C	1.248	0.58
4_W	178_G	1.240	0.58
74_L	80_D	1.238	0.58
71_K	140_E	1.207	0.56
19_K	22_G	1.206	0.56
76_I	172_N	1.206	0.56
43_Y	175_L	1.205	0.55
81_L	168_V	1.165	0.53
169_N	187_D	1.165	0.53
41_D	111_T	1.162	0.53
79_Q	83_D	1.160	0.53
42_V	111_T	1.148	0.52
48_C	51_R	1.142	0.51
100_P	106_A	1.132	0.51
128_G	142_R	1.131	0.51
59_M	63_R	1.122	0.50
175_L	178_G	1.120	0.50
11_A	14_K	1.118	0.50
103_H	143_T	1.104	0.49
140_E	178_G	1.085	0.48
47_S	181_K	1.077	0.47
55_V	99_G	1.075	0.47
94_W	120_R	1.075	0.47
94_W	130_L	1.071	0.47
38_N	110_E	1.060	0.46
78_E	164_I	1.059	0.46
28_I	32_L	1.058	0.46
20_E	125_K	1.054	0.46
165_K	169_N	1.052	0.46
6_E	10_K	1.051	0.46
95_L	168_V	1.012	0.43
108_N	111_T	1.010	0.43
53_T	66_S	1.000	0.42
49_S	185_L	0.976	0.41
122_A	135_K	0.961	0.40
118_I	154_S	0.961	0.40
46_S	50_G	0.955	0.40
46_S	51_R	0.955	0.40
69_I	152_R	0.954	0.39
4_W	68_I	0.952	0.39
96_I	130_L	0.951	0.39
126_H	145_I	0.951	0.39
71_K	178_G	0.946	0.39
187_D	191_S	0.938	0.38
88_N	108_N	0.935	0.38
96_I	105_Y	0.922	0.37
17_H	71_K	0.918	0.37
8_R	37_R	0.915	0.37
119_A	127_S	0.913	0.37
106_A	137_V	0.910	0.37
18_D	61_W	0.899	0.36
30_G	102_I	0.899	0.36
17_H	142_R	0.891	0.36
101_I	134_Q	0.875	0.35
44_T	47_S	0.875	0.35
61_W	99_G	0.868	0.34
96_I	120_R	0.867	0.34
84_V	155_N	0.864	0.34
56_D	125_K	0.862	0.34
17_H	98_Q	0.861	0.34
19_K	142_R	0.861	0.34
116_L	130_L	0.860	0.34
9_E	160_D	0.859	0.34
53_T	68_I	0.858	0.34
3_V	6_E	0.858	0.34
3_V	193_S	0.857	0.34
17_H	66_S	0.857	0.34
20_E	126_H	0.843	0.33
117_K	164_I	0.843	0.33
147_M	170_V	0.840	0.33
98_Q	174_V	0.831	0.32
13_N	40_N	0.830	0.32
71_K	175_L	0.828	0.32
86_S	184_L	0.818	0.31
6_E	31_F	0.811	0.31
19_K	97_V	0.807	0.31
165_K	190_S	0.807	0.31
24_L	32_L	0.807	0.31
124_F	139_V	0.805	0.31
52_I	171_C	0.804	0.31
96_I	178_G	0.800	0.30
43_Y	53_T	0.798	0.30
31_F	35_F	0.794	0.30
19_K	128_G	0.794	0.30
72_N	97_V	0.790	0.30
112_G	131_A	0.790	0.30
17_H	20_E	0.789	0.30
85_L	168_V	0.784	0.30
9_E	186_K	0.778	0.29
188_L	191_S	0.773	0.29
42_V	189_L	0.770	0.29
77_T	165_K	0.769	0.29
124_F	138_L	0.768	0.29
40_N	95_L	0.763	0.28
96_I	146_R	0.762	0.28
130_L	141_L	0.758	0.28
176_A	180_Q	0.755	0.28
18_D	99_G	0.755	0.28
190_S	194_N	0.755	0.28
55_V	96_I	0.753	0.28
53_T	126_H	0.752	0.28
72_N	115_I	0.745	0.28
79_Q	165_K	0.745	0.28
28_I	124_F	0.738	0.27
92_R	170_V	0.731	0.27
9_E	169_N	0.730	0.27
97_V	126_H	0.730	0.27
98_Q	128_G	0.729	0.27
101_I	131_A	0.729	0.27
109_I	117_K	0.729	0.27
35_F	59_M	0.721	0.26
19_K	71_K	0.716	0.26
22_G	26_P	0.709	0.26
150_L	177_R	0.705	0.26
93_L	146_R	0.705	0.26
17_H	68_I	0.701	0.25
116_L	143_T	0.696	0.25
11_A	175_L	0.695	0.25
58_E	75_R	0.694	0.25
34_A	106_A	0.690	0.25
165_K	171_C	0.686	0.25
113_W	181_K	0.685	0.25
21_I	142_R	0.682	0.24
80_D	83_D	0.680	0.24
83_D	187_D	0.676	0.24
20_E	32_L	0.674	0.24
21_I	98_Q	0.669	0.24
139_V	152_R	0.668	0.24
10_K	193_S	0.665	0.24
31_F	57_A	0.664	0.24
66_S	125_K	0.660	0.23
154_S	169_N	0.655	0.23
162_D	169_N	0.654	0.23
156_T	191_S	0.653	0.23
143_T	146_R	0.652	0.23
55_V	108_N	0.652	0.23
100_P	178_G	0.650	0.23
42_V	106_A	0.649	0.23
79_Q	156_T	0.648	0.23
34_A	147_M	0.647	0.23
19_K	140_E	0.646	0.23
190_S	193_S	0.646	0.23
173_E	187_D	0.644	0.23
71_K	126_H	0.643	0.23
82_E	155_N	0.643	0.23
136_G	151_L	0.642	0.23
12_L	122_A	0.642	0.23
99_G	104_I	0.641	0.22
72_N	178_G	0.639	0.22
92_R	153_E	0.636	0.22
35_F	188_L	0.634	0.22
183_N	186_K	0.630	0.22
120_R	136_G	0.629	0.22
106_A	150_L	0.629	0.22
126_H	143_T	0.623	0.22
97_V	140_E	0.622	0.22
7_L	11_A	0.621	0.22
156_T	162_D	0.618	0.21
5_E	191_S	0.617	0.21
28_I	95_L	0.614	0.21
84_V	184_L	0.612	0.21
67_T	170_V	0.612	0.21
24_L	135_K	0.612	0.21
148_V	174_V	0.611	0.21
17_H	97_V	0.611	0.21
86_S	134_Q	0.608	0.21
20_E	178_G	0.602	0.21
53_T	93_L	0.602	0.21
109_I	168_V	0.601	0.21
34_A	150_L	0.600	0.21
57_A	152_R	0.597	0.21
183_N	187_D	0.596	0.21
66_S	140_E	0.596	0.21
85_L	157_E	0.595	0.20
162_D	189_L	0.588	0.20
22_G	65_N	0.588	0.20
4_W	98_Q	0.587	0.20
17_H	140_E	0.585	0.20
37_R	68_I	0.583	0.20
4_W	19_K	0.583	0.20
88_N	173_E	0.581	0.20
15_I	41_D	0.581	0.20
54_I	152_R	0.581	0.20
88_N	109_I	0.579	0.20
40_N	138_L	0.575	0.20
70_F	148_V	0.575	0.20
154_S	177_R	0.573	0.20
107_K	133_N	0.566	0.19
4_W	37_R	0.566	0.19
19_K	23_Y	0.563	0.19
31_F	65_N	0.562	0.19
23_Y	140_E	0.562	0.19
108_N	136_G	0.560	0.19
107_K	129_I	0.560	0.19
9_E	86_S	0.559	0.19
10_K	187_D	0.558	0.19
4_W	148_V	0.557	0.19
126_H	175_L	0.555	0.19
102_I	131_A	0.555	0.19
151_L	159_V	0.553	0.19
9_E	85_L	0.553	0.19
45_Q	102_I	0.551	0.19
75_R	181_K	0.550	0.19
23_Y	142_R	0.550	0.19
77_T	191_S	0.546	0.18
108_N	129_I	0.537	0.18
66_S	71_K	0.536	0.18
9_E	79_Q	0.535	0.18
8_R	102_I	0.533	0.18
181_K	185_L	0.533	0.18
154_S	173_E	0.531	0.18
128_G	178_G	0.529	0.18
41_D	108_N	0.529	0.18
39_R	111_T	0.528	0.18
98_Q	142_R	0.526	0.18
94_W	174_V	0.525	0.18
148_V	171_C	0.522	0.18
85_L	187_D	0.518	0.17
16_Y	74_L	0.517	0.17
3_V	160_D	0.517	0.17
47_S	51_R	0.513	0.17
47_S	50_G	0.513	0.17
77_T	83_D	0.510	0.17
89_Q	93_L	0.508	0.17
21_I	178_G	0.507	0.17
52_I	153_E	0.504	0.17
21_I	63_R	0.503	0.17
116_L	120_R	0.502	0.17
45_Q	138_L	0.500	0.17

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
1tljA	2	0.8995	100	0.076	Contact Map
2it2A	2	0.9139	100	0.105	Contact Map
2qg3A	2	0.933	100	0.121	Contact Map
2dvkA	2	0.7895	100	0.141	Contact Map
4idhA	1	0.3971	41.8	0.953	Contact Map
3mv2A	1	0.555	20.5	0.96	Contact Map
2vxzA	1	0.7177	14.8	0.962	Contact Map
1r29A	2	0.5694	8.5	0.966	Contact Map
4qgeA	2	0	6.9	0.967	Contact Map
1qwzA	1	0.2536	6.8	0.968	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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