YYCO - BACSU - GREMLIN Contacts

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YYCO - Uncharacterized protein YycO

UniProt:	Q45607	Sequences: MKLKKRVSMFLVALTMCGGLFVTPAKAVKTTNYAEEIAALQPGTTPEEIMKSASQIAKQQHVKQDVILKQFYKEITADKAEGDRLAKESGMSIMGGSSGTKKLPTSAKGNIYYTNSYTAYYNHGHVGMYSAADKIVESVPSDGVRQIAYNARDVEDNSIVQTVSVSSSQKTAAADWAVSKVGDPYSFNFVNNRNTGHDGAKNCSKLLWSAFLLKAGIDIDSNGGLGVYPRDITSSSYTTTIMTIY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	245 (228)
Sequences:	116 (106)
Seq/√Len:	7.0

BACSU - YYCO

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
186_S	205_K	6.018	1.00
113_Y	126_V	3.085	0.85
144_V	182_G	3.073	0.85
201_K	205_K	3.058	0.85
220_D	224_G	2.801	0.79
224_G	227_V	2.719	0.77
193_R	220_D	2.718	0.77
136_V	206_L	2.518	0.71
124_G	177_A	2.319	0.64
128_M	207_L	2.316	0.64
140_P	143_G	2.262	0.62
193_R	223_G	2.234	0.61
112_Y	202_N	2.222	0.61
138_S	176_W	2.198	0.60
224_G	231_D	2.168	0.59
220_D	227_V	2.124	0.57
189_F	226_G	2.118	0.57
138_S	201_K	2.114	0.57
223_G	231_D	2.070	0.55
206_L	215_A	2.033	0.54
112_Y	154_V	1.971	0.51
232_I	235_S	1.970	0.51
123_H	202_N	1.908	0.49
207_L	241_I	1.880	0.48
139_V	143_G	1.872	0.47
27_A	31_T	1.849	0.46
186_S	201_K	1.848	0.46
154_V	202_N	1.804	0.45
129_Y	228_Y	1.804	0.45
12_V	15_T	1.711	0.41
170_K	211_F	1.707	0.41
126_V	202_N	1.702	0.41
226_G	232_I	1.634	0.38
143_G	182_G	1.627	0.38
128_M	173_A	1.621	0.38
222_N	231_D	1.605	0.37
126_V	232_I	1.597	0.37
177_A	185_Y	1.591	0.37
99_G	135_I	1.577	0.36
121_Y	226_G	1.555	0.36
180_K	201_K	1.554	0.36
109_G	125_H	1.536	0.35
125_H	203_C	1.512	0.34
118_T	123_H	1.510	0.34
21_F	26_K	1.506	0.34
203_C	229_P	1.487	0.33
107_A	110_N	1.475	0.33
220_D	223_G	1.475	0.33
15_T	73_K	1.472	0.33
201_K	209_S	1.460	0.32
114_T	186_S	1.459	0.32
138_S	185_Y	1.448	0.32
112_Y	126_V	1.432	0.31
22_V	26_K	1.429	0.31
103_L	215_A	1.421	0.31
127_G	154_V	1.400	0.30
222_N	227_V	1.398	0.30
45_T	48_E	1.392	0.30
138_S	206_L	1.386	0.30
10_F	26_K	1.377	0.30
37_I	72_Y	1.363	0.29
11_L	21_F	1.360	0.29
202_N	228_Y	1.348	0.29
107_A	170_K	1.345	0.29
117_Y	120_Y	1.329	0.28
129_Y	202_N	1.323	0.28
180_K	183_D	1.315	0.28
173_A	207_L	1.310	0.27
162_T	241_I	1.307	0.27
112_Y	129_Y	1.302	0.27
25_A	31_T	1.302	0.27
129_Y	215_A	1.297	0.27
183_D	209_S	1.286	0.27
160_V	241_I	1.285	0.27
109_G	203_C	1.278	0.27
137_E	206_L	1.273	0.26
151_A	202_N	1.271	0.26
130_S	134_K	1.271	0.26
161_Q	240_T	1.234	0.25
185_Y	210_A	1.232	0.25
178_V	219_I	1.227	0.25
176_W	181_V	1.226	0.25
138_S	188_N	1.219	0.25
173_A	204_S	1.218	0.25
11_L	25_A	1.193	0.24
129_Y	149_Y	1.185	0.24
16_M	19_G	1.180	0.24
20_L	68_L	1.176	0.24
140_P	144_V	1.175	0.24
211_F	217_I	1.163	0.23
190_V	228_Y	1.163	0.23
127_G	176_W	1.159	0.23
113_Y	230_R	1.155	0.23
109_G	173_A	1.153	0.23
12_V	31_T	1.150	0.23
188_N	195_T	1.150	0.23
125_H	229_P	1.143	0.23
110_N	241_I	1.142	0.23
18_G	29_K	1.140	0.23
53_A	68_L	1.140	0.23
110_N	128_M	1.129	0.22
217_I	235_S	1.125	0.22
208_W	229_P	1.121	0.22
149_Y	232_I	1.111	0.22
68_L	172_A	1.107	0.22
110_N	211_F	1.104	0.22
108_K	175_D	1.103	0.22
11_L	17_C	1.099	0.21
129_Y	176_W	1.097	0.21
154_V	226_G	1.091	0.21
125_H	185_Y	1.078	0.21
229_P	232_I	1.072	0.21
118_T	202_N	1.055	0.20
109_G	208_W	1.054	0.20
144_V	201_K	1.053	0.20
205_K	209_S	1.046	0.20
165_V	211_F	1.043	0.20
227_V	231_D	1.039	0.20
60_Q	78_D	1.006	0.19
165_V	217_I	0.998	0.19
157_N	207_L	0.992	0.19
127_G	210_A	0.990	0.19
15_T	20_L	0.986	0.19
27_A	33_Y	0.984	0.19
203_C	208_W	0.979	0.19
127_G	202_N	0.973	0.18
112_Y	124_G	0.973	0.18
10_F	18_G	0.965	0.18
18_G	22_V	0.964	0.18
114_T	205_K	0.961	0.18
173_A	177_A	0.954	0.18
218_D	223_G	0.954	0.18
176_W	205_K	0.953	0.18
140_P	214_K	0.943	0.18
137_E	208_W	0.938	0.18
182_G	201_K	0.935	0.18
173_A	208_W	0.932	0.17
67_I	164_S	0.925	0.17
110_N	170_K	0.922	0.17
84_R	166_S	0.912	0.17
10_F	19_G	0.908	0.17
88_E	121_Y	0.907	0.17
202_N	226_G	0.906	0.17
46_P	111_I	0.903	0.17
218_D	231_D	0.900	0.17
143_G	180_K	0.897	0.17
112_Y	228_Y	0.895	0.17
72_Y	222_N	0.894	0.17
185_Y	208_W	0.890	0.17
19_G	35_E	0.884	0.16
12_V	22_V	0.881	0.16
109_G	229_P	0.880	0.16
107_A	211_F	0.879	0.16
112_Y	159_I	0.879	0.16
218_D	222_N	0.876	0.16
172_A	200_A	0.876	0.16
146_Q	209_S	0.872	0.16
23_T	55_Q	0.868	0.16
10_F	25_A	0.867	0.16
14_L	30_T	0.866	0.16
136_V	193_R	0.866	0.16
125_H	204_S	0.861	0.16
148_A	194_N	0.861	0.16
41_Q	205_K	0.860	0.16
151_A	216_G	0.859	0.16
149_Y	154_V	0.855	0.16
10_F	76_T	0.849	0.16
204_S	210_A	0.849	0.16
78_D	82_G	0.847	0.16
203_C	211_F	0.840	0.16
113_Y	147_I	0.834	0.15
56_I	93_I	0.832	0.15
154_V	192_N	0.821	0.15
200_A	206_L	0.816	0.15
193_R	224_G	0.816	0.15
124_G	135_I	0.812	0.15
149_Y	152_R	0.810	0.15
59_Q	174_A	0.810	0.15
112_Y	170_K	0.800	0.15
138_S	200_A	0.800	0.15
116_S	189_F	0.797	0.15
31_T	47_E	0.796	0.15
218_D	227_V	0.786	0.14
185_Y	203_C	0.785	0.14
20_L	27_A	0.783	0.14
85_L	164_S	0.775	0.14
147_I	160_V	0.775	0.14
104_P	165_V	0.766	0.14
196_G	209_S	0.765	0.14
109_G	185_Y	0.764	0.14
128_M	209_S	0.763	0.14
18_G	43_G	0.752	0.14
177_A	210_A	0.752	0.14
150_N	194_N	0.751	0.14
47_E	51_K	0.751	0.14
16_M	23_T	0.750	0.14
163_V	238_T	0.746	0.14
41_Q	114_T	0.745	0.14
138_S	193_R	0.736	0.14
122_N	138_S	0.735	0.14
159_I	231_D	0.734	0.14
121_Y	209_S	0.733	0.13
223_G	227_V	0.732	0.13
167_S	171_T	0.731	0.13
107_A	162_T	0.730	0.13
19_G	32_N	0.729	0.13
119_A	158_S	0.728	0.13
27_A	40_L	0.726	0.13
173_A	210_A	0.723	0.13
29_K	66_V	0.716	0.13
111_I	235_S	0.714	0.13
37_I	58_K	0.712	0.13
136_V	201_K	0.712	0.13
77_A	210_A	0.705	0.13
14_L	24_P	0.705	0.13
107_A	241_I	0.703	0.13
74_E	228_Y	0.700	0.13
98_S	131_A	0.693	0.13
14_L	26_K	0.690	0.13
185_Y	229_P	0.689	0.13
192_N	202_N	0.688	0.13
57_A	96_G	0.685	0.13
17_C	21_F	0.684	0.13
176_W	241_I	0.683	0.13
124_G	206_L	0.682	0.13
11_L	19_G	0.679	0.13
22_V	25_A	0.671	0.12
208_W	220_D	0.670	0.12
129_Y	216_G	0.669	0.12
128_M	177_A	0.667	0.12
140_P	201_K	0.666	0.12
177_A	207_L	0.666	0.12
176_W	209_S	0.665	0.12
45_T	66_V	0.665	0.12
183_D	231_D	0.663	0.12
40_L	45_T	0.659	0.12
124_G	216_G	0.656	0.12
124_G	136_V	0.652	0.12
138_S	232_I	0.650	0.12
36_E	43_G	0.646	0.12
218_D	224_G	0.644	0.12
116_S	150_N	0.641	0.12
144_V	180_K	0.641	0.12
23_T	32_N	0.640	0.12
204_S	229_P	0.640	0.12
109_G	207_L	0.637	0.12
18_G	21_F	0.632	0.12
129_Y	170_K	0.632	0.12
203_C	210_A	0.632	0.12
65_D	81_E	0.630	0.12
12_V	18_G	0.628	0.12
192_N	208_W	0.627	0.12
161_Q	235_S	0.625	0.12
165_V	170_K	0.624	0.12
13_A	19_G	0.621	0.12
232_I	237_Y	0.621	0.12
57_A	112_Y	0.620	0.12
122_N	165_V	0.619	0.12
21_F	111_I	0.618	0.12
138_S	209_S	0.618	0.12
107_A	127_G	0.616	0.12
203_C	207_L	0.615	0.12
73_K	153_D	0.615	0.12
15_T	55_Q	0.611	0.11
24_P	156_D	0.609	0.11
76_T	89_S	0.608	0.11
15_T	52_S	0.602	0.11
149_Y	201_K	0.598	0.11
158_S	182_G	0.598	0.11
69_K	194_N	0.597	0.11
21_F	25_A	0.597	0.11
114_T	147_I	0.596	0.11
165_V	169_Q	0.595	0.11
69_K	179_S	0.595	0.11
11_L	166_S	0.593	0.11
126_V	241_I	0.589	0.11
41_Q	117_Y	0.586	0.11
19_G	27_A	0.585	0.11
218_D	229_P	0.585	0.11
23_T	29_K	0.584	0.11
113_Y	152_R	0.583	0.11
13_A	25_A	0.583	0.11
28_V	50_M	0.581	0.11
15_T	21_F	0.579	0.11
12_V	165_V	0.578	0.11
13_A	65_D	0.576	0.11
35_E	38_A	0.575	0.11
15_T	47_E	0.573	0.11
98_S	118_T	0.572	0.11
204_S	208_W	0.572	0.11
76_T	171_T	0.570	0.11
54_S	101_K	0.570	0.11
138_S	180_K	0.570	0.11
49_I	171_T	0.570	0.11
17_C	30_T	0.569	0.11
140_P	182_G	0.564	0.11
123_H	154_V	0.562	0.11
28_V	44_T	0.560	0.11
45_T	137_E	0.560	0.11
113_Y	222_N	0.559	0.11
125_H	173_A	0.558	0.11
28_V	39_A	0.557	0.11
122_N	129_Y	0.557	0.11
16_M	29_K	0.556	0.11
115_N	122_N	0.554	0.11
25_A	29_K	0.554	0.11
110_N	196_G	0.553	0.11
143_G	224_G	0.553	0.11
124_G	185_Y	0.551	0.11
52_S	181_V	0.551	0.11
109_G	204_S	0.551	0.11
73_K	171_T	0.548	0.10
223_G	226_G	0.547	0.10
53_A	56_I	0.546	0.10
184_P	187_F	0.546	0.10
18_G	27_A	0.544	0.10
23_T	28_V	0.542	0.10
180_K	206_L	0.539	0.10
151_A	160_V	0.539	0.10
196_G	231_D	0.537	0.10
121_Y	166_S	0.536	0.10
122_N	202_N	0.534	0.10
114_T	232_I	0.530	0.10
151_A	166_S	0.528	0.10
52_S	71_F	0.528	0.10
83_D	110_N	0.525	0.10
33_Y	40_L	0.522	0.10
125_H	208_W	0.522	0.10
52_S	239_T	0.522	0.10
176_W	235_S	0.521	0.10
136_V	174_A	0.520	0.10
62_V	111_I	0.516	0.10
114_T	124_G	0.515	0.10
39_A	45_T	0.512	0.10
17_C	28_V	0.510	0.10
78_D	120_Y	0.507	0.10
161_Q	197_H	0.507	0.10
203_C	227_V	0.506	0.10
104_P	238_T	0.506	0.10
110_N	176_W	0.505	0.10
190_V	193_R	0.502	0.10
138_S	210_A	0.500	0.10

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
2if6A	1	0.551	99.9	0.671	Contact Map
3kw0A	3	0.6531	99.9	0.675	Contact Map
4dotA	1	0.3714	97.7	0.882	Contact Map
2lktA	1	0.4082	97	0.896	Contact Map
4q95A	3	0.4408	96.8	0.898	Contact Map
4dpzX	1	0.3755	96.5	0.902	Contact Map
2k1gA	1	0.5102	95.6	0.909	Contact Map
3pbiA	1	0.5673	93.5	0.919	Contact Map
4lj1A	1	0.3102	91.5	0.924	Contact Map
2k3aA	1	0.6082	90.4	0.925	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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