YTLR - BACSU - GREMLIN Contacts

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YTLR - Putative lipid kinase YtlR

UniProt:	O34799	Sequences: MSHWFFIINPTAGHRNGLRVWKSIQKELIKRKVEHRSFLTEHPGHAEVLARQISTIQEYKLKRLIVIGGDGTMHEVVNGLKDVDDIELSFVPAGAYNDFSRGFSIKKIDLIQEIKKVKRPLTRTFHLGSVNFLQDKSQILYFMNHIGIGFDAYVNKKAMEFPLRRVFLFLRLRFLVYPLSHLHASATFKPFTLACTTEDETREFHDVWFAVVSNHPFYGGGMKAAPLANPREKTFDIVIVENQPFLKKYWLLCLMAFGKHTKMDGVTMFKAKDITFYTKDKIPFHADGEIMGTTPFRLASSPSPLRIKT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	309 (285)
Sequences:	6971 (5172)
Seq/√Len:	306.3

ECOLI - YEGS
BACSU - YTLR DAGK BMRU

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
128_G	142_F	4.182	1.00
275_T	297_R	3.802	1.00
273_D	297_R	3.631	1.00
196_T	275_T	3.548	1.00
129_S	299_A	3.341	1.00
273_D	299_A	3.340	1.00
194_A	277_Y	3.148	1.00
124_T	306_R	2.948	1.00
129_S	301_S	2.925	1.00
66_V	76_V	2.921	1.00
196_T	277_Y	2.593	1.00
42_H	45_H	2.500	1.00
126_H	233_K	2.493	1.00
122_T	306_R	2.451	1.00
271_A	274_I	2.447	1.00
25_Q	29_I	2.436	1.00
241_E	267_T	2.418	1.00
234_T	272_K	2.392	1.00
236_D	270_K	2.385	1.00
234_T	270_K	2.325	1.00
194_A	203_E	2.296	1.00
81_K	127_L	2.263	1.00
128_G	235_F	2.235	1.00
197_T	271_A	2.231	1.00
67_I	93_A	2.203	1.00
146_I	298_L	2.148	1.00
277_Y	295_P	2.136	1.00
63_R	87_E	2.118	1.00
275_T	295_P	2.076	1.00
194_A	201_T	2.026	1.00
87_E	122_T	1.982	1.00
127_L	304_P	1.958	1.00
247_K	265_G	1.947	1.00
123_R	231_R	1.918	1.00
213_S	225_A	1.888	1.00
157_K	184_A	1.834	1.00
147_G	285_H	1.829	1.00
196_T	201_T	1.799	1.00
99_F	125_F	1.785	1.00
109_D	112_Q	1.737	1.00
301_S	304_P	1.719	1.00
27_E	115_K	1.711	1.00
126_H	232_E	1.698	1.00
40_T	46_A	1.674	1.00
73_M	90_F	1.672	1.00
45_H	49_L	1.670	1.00
198_E	272_K	1.660	1.00
207_V	239_I	1.649	1.00
5_F	61_L	1.632	1.00
106_K	116_K	1.625	1.00
237_I	271_A	1.618	1.00
129_S	132_F	1.608	1.00
237_I	274_I	1.601	1.00
44_G	75_E	1.596	1.00
45_H	48_V	1.587	1.00
147_G	151_D	1.561	1.00
103_F	307_I	1.554	1.00
105_I	113_E	1.550	1.00
78_N	141_Y	1.513	1.00
124_T	303_S	1.473	1.00
129_S	141_Y	1.459	1.00
51_R	82_D	1.453	1.00
193_L	207_V	1.451	1.00
81_K	141_Y	1.441	1.00
192_T	206_D	1.423	1.00
40_T	75_E	1.421	1.00
212_V	235_F	1.398	1.00
239_I	269_F	1.394	1.00
153_Y	184_A	1.391	1.00
74_H	78_N	1.389	1.00
254_L	263_M	1.372	1.00
272_K	302_P	1.371	1.00
41_E	45_H	1.361	1.00
74_H	140_L	1.359	1.00
50_A	54_S	1.345	1.00
52_Q	59_Y	1.344	1.00
75_E	79_G	1.341	1.00
5_F	38_F	1.338	1.00
197_T	200_E	1.329	1.00
64_L	80_L	1.313	1.00
77_V	143_M	1.301	1.00
278_T	282_I	1.284	1.00
4_W	63_R	1.284	1.00
244_P	247_K	1.271	1.00
23_S	111_I	1.261	1.00
22_K	25_Q	1.261	1.00
128_G	298_L	1.250	1.00
247_K	250_W	1.248	1.00
50_A	79_G	1.246	1.00
148_I	276_F	1.246	1.00
74_H	289_E	1.237	1.00
48_V	52_Q	1.226	1.00
212_V	274_I	1.214	1.00
48_V	51_R	1.213	1.00
36_R	61_L	1.213	1.00
156_K	283_P	1.202	1.00
235_F	300_S	1.184	1.00
26_K	30_K	1.182	1.00
112_Q	115_K	1.178	1.00
102_G	216_P	1.164	1.00
98_D	144_N	1.161	1.00
54_S	83_V	1.157	1.00
237_I	269_F	1.145	1.00
46_A	50_A	1.141	1.00
130_V	298_L	1.127	1.00
284_F	296_F	1.124	1.00
239_I	267_T	1.122	1.00
4_W	65_I	1.116	1.00
110_L	114_I	1.109	1.00
159_M	162_P	1.109	1.00
99_F	144_N	1.108	1.00
106_K	112_Q	1.107	1.00
8_I	39_L	1.106	1.00
6_F	65_I	1.095	1.00
140_L	291_M	1.085	1.00
142_F	146_I	1.084	1.00
65_I	89_S	1.074	1.00
66_V	88_L	1.073	1.00
127_L	141_Y	1.070	1.00
115_K	119_R	1.069	1.00
199_D	273_D	1.067	1.00
47_E	79_G	1.066	1.00
141_Y	301_S	1.065	1.00
198_E	271_A	1.058	1.00
98_D	220_G	1.055	1.00
192_T	203_E	1.052	1.00
206_D	242_N	1.045	1.00
180_S	183_H	1.043	1.00
212_V	298_L	1.037	1.00
155_N	285_H	1.035	1.00
77_V	305_L	1.031	1.00
85_D	124_T	1.025	1.00
50_A	53_I	1.025	1.00
46_A	75_E	1.012	1.00
150_F	154_V	1.011	1.00
157_K	180_S	1.011	1.00
225_A	228_A	1.008	1.00
232_E	236_D	1.007	1.00
27_E	30_K	1.003	1.00
204_F	207_V	1.000	1.00
281_K	293_T	0.996	1.00
77_V	88_L	0.995	1.00
196_T	199_D	0.992	1.00
156_K	290_I	0.990	1.00
8_I	37_S	0.987	1.00
27_E	114_I	0.981	1.00
130_V	286_A	0.978	1.00
67_I	91_V	0.974	1.00
66_V	72_T	0.974	1.00
99_F	103_F	0.973	1.00
54_S	79_G	0.969	1.00
91_V	113_E	0.966	1.00
144_N	215_H	0.965	1.00
179_L	183_H	0.958	1.00
91_V	110_L	0.953	1.00
238_V	268_M	0.953	1.00
236_D	268_M	0.951	1.00
38_F	49_L	0.951	1.00
180_S	184_A	0.950	1.00
100_S	105_I	0.944	1.00
286_A	291_M	0.943	1.00
42_H	75_E	0.940	1.00
40_T	45_H	0.937	1.00
47_E	51_R	0.934	1.00
145_H	211_V	0.930	1.00
65_I	117_V	0.930	1.00
127_L	143_M	0.924	1.00
130_V	146_I	0.923	1.00
210_A	239_I	0.921	1.00
101_R	217_F	0.920	1.00
98_D	219_G	0.918	1.00
27_E	111_I	0.916	1.00
200_E	269_F	0.911	1.00
197_T	269_F	0.908	1.00
38_F	52_Q	0.901	1.00
283_P	290_I	0.898	1.00
172_L	179_L	0.898	1.00
31_R	115_K	0.897	1.00
85_D	306_R	0.896	1.00
83_V	86_I	0.890	1.00
151_D	218_Y	0.884	1.00
73_M	99_F	0.883	1.00
7_I	50_A	0.880	1.00
87_E	306_R	0.867	1.00
21_W	25_Q	0.864	1.00
125_F	230_P	0.859	1.00
151_D	285_H	0.854	1.00
231_R	303_S	0.845	1.00
90_F	99_F	0.845	1.00
162_P	176_V	0.845	1.00
222_M	255_M	0.844	1.00
145_H	213_S	0.843	1.00
51_R	79_G	0.843	1.00
192_T	279_K	0.839	1.00
55_T	59_Y	0.838	1.00
66_V	73_M	0.834	1.00
106_K	113_E	0.830	1.00
131_N	297_R	0.830	1.00
96_Y	177_Y	0.830	1.00
51_R	55_T	0.829	1.00
8_I	17_G	0.828	1.00
250_W	254_L	0.826	1.00
198_E	273_D	0.826	1.00
131_N	299_A	0.825	1.00
23_S	26_K	0.824	1.00
47_E	78_N	0.822	1.00
51_R	83_V	0.820	1.00
99_F	143_M	0.819	1.00
98_D	221_G	0.815	1.00
218_Y	224_A	0.814	1.00
100_S	107_K	0.813	1.00
55_T	83_V	0.813	1.00
197_T	274_I	0.810	1.00
254_L	259_K	0.808	1.00
112_Q	116_K	0.807	1.00
142_F	286_A	0.807	1.00
228_A	236_D	0.805	1.00
61_L	86_I	0.805	1.00
216_P	223_K	0.803	1.00
163_L	172_L	0.797	1.00
80_L	83_V	0.797	1.00
44_G	48_V	0.797	1.00
29_I	35_H	0.795	1.00
109_D	113_E	0.793	1.00
130_V	296_F	0.793	1.00
157_K	183_H	0.789	1.00
92_P	113_E	0.788	1.00
173_R	177_Y	0.788	1.00
125_F	307_I	0.784	0.99
132_F	140_L	0.784	0.99
158_A	176_V	0.784	0.99
113_E	118_K	0.783	0.99
214_N	236_D	0.782	0.99
253_C	257_F	0.782	0.99
31_R	118_K	0.780	0.99
163_L	176_V	0.779	0.99
278_T	294_T	0.777	0.99
8_I	21_W	0.771	0.99
215_H	230_P	0.770	0.99
199_D	202_R	0.761	0.99
130_V	140_L	0.760	0.99
96_Y	151_D	0.759	0.99
116_K	120_P	0.757	0.99
190_P	242_N	0.756	0.99
54_S	86_I	0.756	0.99
63_R	117_V	0.754	0.99
77_V	141_Y	0.748	0.99
66_V	90_F	0.746	0.99
126_H	214_N	0.746	0.99
188_F	208_W	0.741	0.99
50_A	76_V	0.739	0.99
8_I	67_I	0.739	0.99
105_I	116_K	0.737	0.99
212_V	237_I	0.735	0.99
222_M	256_A	0.734	0.99
68_G	72_T	0.730	0.99
199_D	204_F	0.728	0.99
111_I	114_I	0.726	0.99
22_K	26_K	0.726	0.99
202_R	267_T	0.723	0.99
63_R	89_S	0.721	0.99
147_G	211_V	0.719	0.99
146_I	286_A	0.719	0.99
27_E	31_R	0.716	0.99
193_L	278_T	0.715	0.99
5_F	36_R	0.714	0.99
102_G	230_P	0.702	0.99
252_L	260_H	0.701	0.99
211_V	218_Y	0.701	0.99
284_F	293_T	0.697	0.99
127_L	301_S	0.696	0.99
194_A	279_K	0.696	0.99
156_K	160_E	0.695	0.99
38_F	45_H	0.690	0.99
50_A	64_L	0.685	0.99
7_I	76_V	0.685	0.99
98_D	145_H	0.684	0.99
150_F	208_W	0.683	0.99
176_V	180_S	0.681	0.99
44_G	47_E	0.680	0.99
78_N	140_L	0.672	0.98
29_I	32_K	0.671	0.98
283_P	293_T	0.667	0.98
18_L	22_K	0.667	0.98
111_I	115_K	0.666	0.98
204_F	239_I	0.664	0.98
49_L	53_I	0.663	0.98
110_L	113_E	0.660	0.98
80_L	88_L	0.659	0.98
42_H	48_V	0.659	0.98
184_A	188_F	0.658	0.98
64_L	76_V	0.657	0.98
98_D	101_R	0.655	0.98
103_F	230_P	0.652	0.98
224_A	238_V	0.650	0.98
144_N	285_H	0.650	0.98
148_I	210_A	0.648	0.98
101_R	107_K	0.648	0.98
47_E	82_D	0.648	0.98
40_T	79_G	0.646	0.98
204_F	267_T	0.646	0.98
35_H	38_F	0.645	0.98
89_S	116_K	0.643	0.98
250_W	264_D	0.643	0.98
175_L	178_P	0.639	0.98
102_G	215_H	0.639	0.98
7_I	46_A	0.638	0.98
117_V	120_P	0.637	0.98
74_H	141_Y	0.637	0.98
99_F	214_N	0.637	0.98
213_S	236_D	0.634	0.98
26_K	29_I	0.634	0.98
126_H	231_R	0.633	0.98
259_K	262_K	0.632	0.98
40_T	44_G	0.632	0.98
197_T	202_R	0.632	0.98
95_A	144_N	0.630	0.98
182_L	186_A	0.630	0.98
173_R	176_V	0.629	0.98
10_P	40_T	0.628	0.98
89_S	113_E	0.628	0.98
44_G	79_G	0.627	0.98
171_R	175_L	0.626	0.98
274_I	298_L	0.624	0.98
250_W	263_M	0.621	0.97
98_D	102_G	0.620	0.97
73_M	307_I	0.620	0.97
284_F	294_T	0.619	0.97
155_N	159_M	0.615	0.97
81_K	304_P	0.614	0.97
125_F	305_L	0.613	0.97
281_K	294_T	0.612	0.97
232_E	270_K	0.612	0.97
114_I	118_K	0.610	0.97
144_N	155_N	0.610	0.97
153_Y	283_P	0.607	0.97
89_S	117_V	0.606	0.97
212_V	276_F	0.605	0.97
81_K	301_S	0.602	0.97
89_S	118_K	0.601	0.97
145_H	285_H	0.600	0.97
90_F	100_S	0.598	0.97
96_Y	221_G	0.598	0.97
46_A	79_G	0.595	0.97
245_F	248_K	0.595	0.97
200_E	203_E	0.590	0.97
126_H	236_D	0.589	0.96
116_K	119_R	0.587	0.96
46_A	49_L	0.586	0.96
13_G	95_A	0.584	0.96
98_D	155_N	0.583	0.96
221_G	224_A	0.581	0.96
40_T	43_P	0.580	0.96
152_A	285_H	0.579	0.96
49_L	52_Q	0.574	0.96
227_L	261_T	0.574	0.96
46_A	76_V	0.573	0.96
38_F	53_I	0.573	0.96
195_C	276_F	0.572	0.96
103_F	215_H	0.570	0.96
21_W	39_L	0.569	0.96
209_F	213_S	0.569	0.96
21_W	35_H	0.567	0.96
54_S	60_K	0.566	0.96
183_H	187_T	0.561	0.95
155_N	158_A	0.560	0.95
146_I	284_F	0.558	0.95
194_A	202_R	0.557	0.95
18_L	39_L	0.556	0.95
148_I	284_F	0.555	0.95
80_L	86_I	0.555	0.95
74_H	77_V	0.555	0.95
153_Y	156_K	0.554	0.95
45_H	50_A	0.554	0.95
249_Y	257_F	0.554	0.95
43_P	75_E	0.554	0.95
72_T	76_V	0.553	0.95
148_I	282_I	0.551	0.95
191_F	282_I	0.550	0.95
6_F	67_I	0.550	0.95
62_K	87_E	0.549	0.95
16_N	20_V	0.549	0.95
157_K	187_T	0.548	0.95
42_H	46_A	0.548	0.95
255_M	260_H	0.548	0.95
17_G	20_V	0.547	0.95
162_P	172_L	0.546	0.95
183_H	186_A	0.546	0.95
225_A	238_V	0.545	0.95
250_W	253_C	0.545	0.95
163_L	173_R	0.543	0.95
207_V	210_A	0.540	0.94
77_V	81_K	0.539	0.94
223_K	226_P	0.538	0.94
72_T	147_G	0.538	0.94
5_F	62_K	0.538	0.94
243_Q	247_K	0.536	0.94
243_Q	251_L	0.535	0.94
144_N	219_G	0.535	0.94
127_L	305_L	0.532	0.94
151_D	154_V	0.531	0.94
99_F	217_F	0.528	0.94
158_A	172_L	0.527	0.94
140_L	286_A	0.526	0.94
145_H	215_H	0.525	0.93
290_I	293_T	0.524	0.93
144_N	217_F	0.523	0.93
260_H	266_V	0.522	0.93
238_V	260_H	0.521	0.93
173_R	220_G	0.521	0.93
43_P	46_A	0.520	0.93
98_D	285_H	0.520	0.93
252_L	256_A	0.517	0.93
109_D	116_K	0.516	0.93
247_K	251_L	0.516	0.93
227_L	268_M	0.515	0.93
154_V	158_A	0.515	0.93
28_L	114_I	0.514	0.93
158_A	162_P	0.514	0.93
251_L	265_G	0.512	0.93
177_Y	219_G	0.512	0.93
123_R	230_P	0.512	0.93
203_E	206_D	0.511	0.93
241_E	265_G	0.505	0.92
52_Q	55_T	0.504	0.92
28_L	118_K	0.502	0.92
247_K	263_M	0.500	0.92
41_E	44_G	0.500	0.92

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
4v24A	1	0.9579	100	0.171	Contact Map
4werA	2	0.8997	100	0.188	Contact Map
2qv7A	2	0.8997	100	0.194	Contact Map
3s40A	3	0.932	100	0.211	Contact Map
2bonA	1	0.8867	100	0.222	Contact Map
1u0tA	4	0.7573	100	0.577	Contact Map
2an1A	4	0.7799	100	0.585	Contact Map
1z0sA	4	0.7087	100	0.593	Contact Map
1yt5A	4	0.7249	100	0.602	Contact Map
2i2cA	3	0.7605	100	0.607	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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