XKDQ - BACSU - GREMLIN Contacts

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XKDQ - Phage-like element PBSX protein XkdQ

UniProt:	P54336	Sequences: MIELFVIKDTEWLELVAESVSLEGHRYQAPRSIEATIVTKQGDQTYYSVSEGDTVLFKWKGKELFRGIVFARTPDEHTLAFSAYDMLQYLVKNQDMYVFSNQRADQIIRRIASDFQIPTTSIANTGHTIKSLVIKNDTTLYDIILKALKQTKSQTGRHYQLYSEKGKLGLRAWPDPSEVWVLETGVNITGYQYSTSINDTATRVVLRRQKDNKTYKASAKDSSGLNKYGVLQYTETVTDDINQAQLQQRADVRLAEKKGVKKELKNIQAVGIPEVQSGLPVYISIPEAGIKKTYWVDTDRHEFKGTKHTMTIDVVEKNTMPEGVS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	325 (297)
Sequences:	368 (320)
Seq/√Len:	18.6

BACSU - XKDQ YQBQ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_Y	114_D	5.949	1.00
275_V	296_V	5.232	1.00
203_R	220_K	4.699	1.00
63_E	66_R	3.861	1.00
104_A	148_L	3.722	1.00
157_R	172_A	3.720	1.00
94_Q	233_Y	3.205	0.99
247_Q	251_D	3.087	0.99
271_G	308_H	3.076	0.99
105_D	122_I	2.948	0.99
71_A	194_S	2.921	0.99
33_I	57_F	2.827	0.98
115_F	140_L	2.807	0.98
95_D	205_V	2.772	0.98
99_F	107_I	2.767	0.98
70_F	88_Q	2.540	0.97
118_P	167_K	2.518	0.97
95_D	143_I	2.485	0.96
24_G	299_D	2.462	0.96
224_G	258_K	2.430	0.96
123_A	175_D	2.393	0.96
107_I	147_A	2.361	0.95
24_G	31_R	2.336	0.95
220_K	225_L	2.314	0.95
36_T	80_A	2.214	0.93
94_Q	139_T	2.109	0.91
112_A	168_L	2.078	0.91
125_T	151_T	2.065	0.91
162_Y	279_L	1.960	0.88
205_V	232_Q	1.951	0.88
93_N	235_E	1.932	0.87
20_V	57_F	1.907	0.87
104_A	129_I	1.865	0.85
285_I	288_A	1.862	0.85
99_F	110_R	1.856	0.85
106_Q	128_T	1.843	0.85
51_E	195_T	1.839	0.84
203_R	225_L	1.812	0.84
209_Q	213_K	1.803	0.83
34_E	290_I	1.766	0.82
75_D	190_G	1.742	0.81
151_T	170_L	1.733	0.81
49_V	69_V	1.723	0.80
207_R	236_T	1.723	0.80
35_A	55_V	1.701	0.79
115_F	230_V	1.697	0.79
182_L	188_I	1.671	0.78
105_D	124_N	1.667	0.78
203_R	230_V	1.664	0.78
199_D	261_K	1.664	0.78
69_V	81_F	1.646	0.77
117_I	168_L	1.633	0.76
14_E	69_V	1.620	0.76
269_A	310_M	1.600	0.75
191_Y	285_I	1.597	0.75
102_Q	110_R	1.583	0.74
21_S	302_E	1.572	0.74
103_R	124_N	1.560	0.73
268_Q	311_T	1.549	0.72
88_Q	198_N	1.547	0.72
183_E	186_V	1.542	0.72
264_L	285_I	1.540	0.72
70_F	89_Y	1.531	0.72
297_D	315_V	1.518	0.71
101_N	196_S	1.512	0.71
105_D	125_T	1.482	0.69
22_L	299_D	1.423	0.66
200_T	228_Y	1.421	0.66
73_T	194_S	1.406	0.65
250_A	254_L	1.405	0.65
124_N	151_T	1.401	0.65
241_I	246_L	1.388	0.64
65_F	83_A	1.387	0.64
111_I	140_L	1.377	0.63
298_T	313_D	1.376	0.63
89_Y	278_G	1.374	0.63
279_L	296_V	1.367	0.63
296_V	310_M	1.367	0.63
105_D	126_G	1.356	0.62
110_R	114_D	1.354	0.62
283_I	311_T	1.345	0.61
97_Y	143_I	1.339	0.61
105_D	151_T	1.315	0.59
103_R	216_K	1.314	0.59
89_Y	231_L	1.311	0.59
183_E	187_N	1.310	0.59
35_A	81_F	1.309	0.59
163_S	228_Y	1.288	0.58
157_R	174_P	1.284	0.58
129_I	147_A	1.283	0.58
194_S	263_E	1.267	0.57
31_R	299_D	1.247	0.55
94_Q	137_D	1.237	0.55
283_I	287_E	1.237	0.55
206_L	246_L	1.231	0.54
102_Q	107_I	1.230	0.54
206_L	237_V	1.227	0.54
140_L	143_I	1.227	0.54
108_I	148_L	1.225	0.54
97_Y	140_L	1.220	0.54
51_E	260_V	1.207	0.53
123_A	137_D	1.205	0.53
84_Y	87_L	1.205	0.53
17_A	69_V	1.203	0.53
23_E	300_R	1.196	0.52
201_A	257_K	1.185	0.51
84_Y	310_M	1.181	0.51
108_I	122_I	1.169	0.50
58_K	63_E	1.167	0.50
23_E	32_S	1.164	0.50
93_N	141_Y	1.155	0.50
72_R	250_A	1.155	0.50
8_K	28_Q	1.145	0.49
255_A	305_G	1.144	0.49
284_S	291_K	1.142	0.49
120_T	167_K	1.132	0.48
70_F	197_I	1.126	0.48
127_H	130_K	1.121	0.47
36_T	269_A	1.119	0.47
170_L	205_V	1.116	0.47
176_P	202_T	1.109	0.47
119_T	290_I	1.097	0.46
177_S	293_T	1.097	0.46
74_P	195_T	1.092	0.46
223_S	226_N	1.087	0.45
141_Y	259_G	1.074	0.45
133_V	146_K	1.072	0.44
89_Y	229_G	1.070	0.44
225_L	230_V	1.068	0.44
191_Y	264_L	1.065	0.44
202_T	224_G	1.065	0.44
16_V	35_A	1.063	0.44
86_M	163_S	1.054	0.43
152_K	256_E	1.037	0.42
144_I	148_L	1.025	0.42
241_I	249_R	1.017	0.41
74_P	79_L	1.009	0.41
37_I	51_E	1.009	0.41
73_T	192_Q	0.994	0.40
63_E	165_K	0.986	0.39
25_H	138_T	0.978	0.39
9_D	17_A	0.977	0.39
35_A	88_Q	0.972	0.38
74_P	287_E	0.968	0.38
206_L	233_Y	0.967	0.38
215_Y	218_S	0.963	0.38
136_N	236_T	0.958	0.38
129_I	132_L	0.953	0.37
166_G	197_I	0.951	0.37
70_F	84_Y	0.951	0.37
138_T	175_D	0.950	0.37
131_S	305_G	0.949	0.37
276_Q	299_D	0.947	0.37
210_K	213_K	0.945	0.37
178_E	274_E	0.944	0.37
139_T	142_D	0.942	0.37
114_D	119_T	0.942	0.37
141_Y	145_L	0.940	0.37
203_R	227_K	0.938	0.36
169_G	283_I	0.936	0.36
59_W	303_F	0.931	0.36
96_M	205_V	0.922	0.35
109_R	119_T	0.918	0.35
84_Y	166_G	0.916	0.35
20_V	33_I	0.916	0.35
150_Q	199_D	0.916	0.35
26_R	151_T	0.916	0.35
99_F	132_L	0.912	0.35
27_Y	250_A	0.901	0.34
127_H	154_Q	0.901	0.34
92_K	141_Y	0.900	0.34
32_S	289_G	0.898	0.34
151_T	205_V	0.889	0.34
277_S	299_D	0.885	0.33
100_S	211_D	0.884	0.33
69_V	83_A	0.883	0.33
221_D	224_G	0.877	0.33
210_K	238_T	0.871	0.33
97_Y	111_I	0.868	0.32
57_F	102_Q	0.867	0.32
250_A	312_I	0.867	0.32
160_Q	171_R	0.865	0.32
31_R	141_Y	0.864	0.32
9_D	13_L	0.857	0.32
104_A	262_K	0.846	0.31
35_A	261_K	0.846	0.31
76_E	190_G	0.845	0.31
93_N	140_L	0.838	0.31
89_Y	277_S	0.837	0.31
269_A	309_T	0.837	0.31
296_V	299_D	0.834	0.31
23_E	34_E	0.834	0.31
107_I	143_I	0.832	0.31
92_K	139_T	0.830	0.30
103_R	122_I	0.827	0.30
155_T	303_F	0.827	0.30
77_H	281_V	0.826	0.30
99_F	114_D	0.820	0.30
70_F	87_L	0.818	0.30
229_G	250_A	0.818	0.30
225_L	268_Q	0.815	0.30
68_I	228_Y	0.815	0.30
211_D	298_T	0.815	0.30
181_V	281_V	0.813	0.30
19_S	36_T	0.813	0.30
93_N	115_F	0.808	0.29
68_I	86_M	0.808	0.29
199_D	266_N	0.808	0.29
200_T	206_L	0.807	0.29
262_K	286_P	0.805	0.29
119_T	122_I	0.804	0.29
189_T	267_I	0.804	0.29
206_L	234_T	0.799	0.29
301_H	308_H	0.799	0.29
93_N	246_L	0.798	0.29
29_A	141_Y	0.797	0.29
229_G	278_G	0.797	0.29
229_G	254_L	0.795	0.29
200_T	224_G	0.787	0.28
80_A	101_N	0.785	0.28
152_K	158_H	0.785	0.28
47_Y	55_V	0.784	0.28
188_I	260_V	0.776	0.28
275_V	310_M	0.775	0.28
159_Y	206_L	0.775	0.28
68_I	83_A	0.774	0.28
34_E	82_S	0.771	0.27
202_T	258_K	0.767	0.27
302_E	306_T	0.766	0.27
106_Q	170_L	0.761	0.27
33_I	207_R	0.753	0.27
68_I	186_V	0.751	0.26
120_T	169_G	0.750	0.26
97_Y	281_V	0.748	0.26
206_L	235_E	0.746	0.26
291_K	296_V	0.745	0.26
149_K	209_Q	0.744	0.26
109_R	113_S	0.743	0.26
236_T	283_I	0.742	0.26
217_A	239_D	0.739	0.26
75_D	238_T	0.733	0.26
17_A	114_D	0.733	0.26
123_A	234_T	0.732	0.25
38_V	263_E	0.731	0.25
271_G	299_D	0.731	0.25
26_R	297_D	0.729	0.25
272_I	314_V	0.726	0.25
189_T	311_T	0.720	0.25
13_L	34_E	0.720	0.25
25_H	298_T	0.720	0.25
217_A	228_Y	0.717	0.25
20_V	48_S	0.716	0.25
105_D	148_L	0.713	0.25
110_R	309_T	0.713	0.25
15_L	313_D	0.713	0.25
203_R	218_S	0.713	0.25
37_I	262_K	0.711	0.25
39_T	49_V	0.705	0.24
204_V	207_R	0.704	0.24
275_V	281_V	0.704	0.24
113_S	192_Q	0.701	0.24
95_D	151_T	0.698	0.24
210_K	215_Y	0.696	0.24
36_T	78_T	0.694	0.24
113_S	129_I	0.693	0.24
22_L	283_I	0.691	0.24
97_Y	110_R	0.689	0.24
201_A	233_Y	0.686	0.23
281_V	314_V	0.684	0.23
171_R	176_P	0.684	0.23
102_Q	106_Q	0.683	0.23
77_H	107_I	0.683	0.23
14_E	17_A	0.683	0.23
49_V	72_R	0.681	0.23
24_G	224_G	0.678	0.23
32_S	299_D	0.678	0.23
17_A	238_T	0.676	0.23
111_I	168_L	0.675	0.23
31_R	224_G	0.674	0.23
25_H	106_Q	0.673	0.23
209_Q	214_T	0.671	0.23
115_F	174_P	0.669	0.23
127_H	151_T	0.669	0.23
129_I	154_Q	0.666	0.22
114_D	140_L	0.666	0.22
303_F	308_H	0.664	0.22
19_S	189_T	0.663	0.22
95_D	140_L	0.663	0.22
13_L	182_L	0.658	0.22
25_H	145_L	0.656	0.22
295_W	299_D	0.656	0.22
198_N	272_I	0.654	0.22
80_A	161_L	0.654	0.22
96_M	290_I	0.653	0.22
84_Y	155_T	0.653	0.22
162_Y	170_L	0.649	0.22
193_Y	262_K	0.649	0.22
189_T	309_T	0.648	0.22
210_K	214_T	0.648	0.22
20_V	37_I	0.644	0.22
30_P	162_Y	0.641	0.21
87_L	231_L	0.641	0.21
297_D	313_D	0.640	0.21
254_L	263_E	0.639	0.21
219_A	250_A	0.637	0.21
50_S	53_D	0.637	0.21
55_V	254_L	0.636	0.21
80_A	192_Q	0.636	0.21
222_S	226_N	0.635	0.21
18_E	78_T	0.634	0.21
275_V	279_L	0.631	0.21
237_V	240_D	0.631	0.21
78_T	159_Y	0.630	0.21
96_M	129_I	0.629	0.21
199_D	304_K	0.629	0.21
21_S	34_E	0.627	0.21
159_Y	216_K	0.625	0.21
149_K	226_N	0.623	0.21
151_T	200_T	0.623	0.21
211_D	255_A	0.622	0.21
98_V	131_S	0.621	0.21
210_K	217_A	0.619	0.21
149_K	153_S	0.618	0.20
38_V	62_K	0.614	0.20
92_K	235_E	0.613	0.20
142_D	197_I	0.613	0.20
24_G	228_Y	0.613	0.20
24_G	276_Q	0.613	0.20
283_I	315_V	0.611	0.20
299_D	303_F	0.610	0.20
25_H	33_I	0.609	0.20
103_R	106_Q	0.608	0.20
195_T	260_V	0.608	0.20
138_T	146_K	0.607	0.20
19_S	108_I	0.607	0.20
266_N	269_A	0.605	0.20
208_R	279_L	0.603	0.20
83_A	142_D	0.603	0.20
10_T	75_D	0.599	0.20
22_L	150_Q	0.596	0.20
187_N	313_D	0.596	0.20
142_D	191_Y	0.594	0.20
192_Q	313_D	0.594	0.20
71_A	204_V	0.593	0.19
142_D	162_Y	0.592	0.19
131_S	148_L	0.590	0.19
10_T	179_V	0.590	0.19
129_I	269_A	0.584	0.19
59_W	62_K	0.584	0.19
98_V	190_G	0.583	0.19
71_A	198_N	0.583	0.19
33_I	55_V	0.583	0.19
188_I	191_Y	0.582	0.19
70_F	166_G	0.582	0.19
106_Q	109_R	0.581	0.19
277_S	310_M	0.581	0.19
83_A	144_I	0.581	0.19
16_V	212_N	0.579	0.19
99_F	267_I	0.578	0.19
126_G	151_T	0.578	0.19
52_G	190_G	0.573	0.19
90_L	269_A	0.571	0.19
203_R	226_N	0.569	0.19
73_T	188_I	0.569	0.19
84_Y	130_K	0.568	0.19
80_A	311_T	0.568	0.19
176_P	281_V	0.565	0.18
37_I	49_V	0.565	0.18
211_D	215_Y	0.564	0.18
102_Q	108_I	0.561	0.18
32_S	84_Y	0.561	0.18
211_D	259_G	0.561	0.18
25_H	299_D	0.561	0.18
263_E	304_K	0.558	0.18
51_E	57_F	0.557	0.18
14_E	19_S	0.557	0.18
268_Q	291_K	0.556	0.18
24_G	277_S	0.556	0.18
109_R	122_I	0.550	0.18
273_P	303_F	0.549	0.18
22_L	281_V	0.548	0.18
53_D	227_K	0.548	0.18
196_S	199_D	0.545	0.18
22_L	294_Y	0.545	0.18
162_Y	171_R	0.545	0.18
176_P	308_H	0.543	0.18
20_V	108_I	0.543	0.18
71_A	126_G	0.543	0.18
22_L	35_A	0.543	0.18
97_Y	297_D	0.542	0.18
117_I	123_A	0.542	0.18
182_L	291_K	0.539	0.17
164_E	276_Q	0.536	0.17
182_L	303_F	0.535	0.17
87_L	141_Y	0.534	0.17
138_T	193_Y	0.532	0.17
36_T	212_N	0.532	0.17
75_D	139_T	0.531	0.17
137_D	294_Y	0.531	0.17
93_N	145_L	0.529	0.17
68_I	250_A	0.527	0.17
37_I	260_V	0.527	0.17
103_R	128_T	0.527	0.17
21_S	267_I	0.527	0.17
13_L	77_H	0.526	0.17
192_Q	200_T	0.526	0.17
16_V	29_A	0.525	0.17
81_F	119_T	0.524	0.17
22_L	31_R	0.524	0.17
72_R	287_E	0.522	0.17
17_A	296_V	0.522	0.17
23_E	48_S	0.521	0.17
163_S	201_A	0.520	0.17
57_F	130_K	0.520	0.17
99_F	248_Q	0.519	0.17
105_D	170_L	0.519	0.17
10_T	182_L	0.518	0.17
188_I	204_V	0.516	0.17
19_S	57_F	0.516	0.17
24_G	295_W	0.516	0.17
233_Y	253_R	0.516	0.17
104_A	251_D	0.516	0.17
143_I	207_R	0.515	0.17
68_I	119_T	0.513	0.17
207_R	215_Y	0.513	0.17
175_D	197_I	0.512	0.16
180_W	272_I	0.510	0.16
202_T	272_I	0.509	0.16
128_T	247_Q	0.509	0.16
109_R	116_Q	0.507	0.16
162_Y	169_G	0.507	0.16
69_V	73_T	0.506	0.16
164_E	169_G	0.506	0.16
278_G	301_H	0.506	0.16
212_N	242_N	0.506	0.16
87_L	163_S	0.506	0.16
55_V	144_I	0.505	0.16
277_S	303_F	0.504	0.16
170_L	200_T	0.504	0.16
240_D	296_V	0.504	0.16
45_T	262_K	0.504	0.16
35_A	133_V	0.503	0.16
99_F	260_V	0.503	0.16
73_T	255_A	0.501	0.16
90_L	129_I	0.500	0.16
96_M	139_T	0.500	0.16

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
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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
3d37A	5	0.9262	100	0.663	Contact Map
3cddA	3	0.9477	100	0.665	Contact Map
1wruA	3	0.9354	100	0.673	Contact Map
3gs9A	3	0.8523	99.8	0.774	Contact Map
2p5zX	3	0.7969	99.3	0.851	Contact Map
4mtkA	4	0.9569	99.2	0.854	Contact Map
2e5pA	1	0.2092	35.4	0.963	Contact Map
2m0oA	1	0.2431	35.3	0.963	Contact Map
2eqjA	1	0.2031	31.4	0.964	Contact Map
2e5qA	1	0.1938	24.3	0.966	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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