YUKJ - BACSU - GREMLIN Contacts

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YUKJ - Uncharacterized protein YukJ

UniProt:	C0SPB1	Sequences: MAVQQYGVLKGIVLDMKRETDDDSPHFQVKMLGEENTYYRCAINVMSSSEESEVLYLADDQFDSGSITILPNMPYGYTRINEANREVALDYVRGNLFDPREMKPLPHEITGPDNDLNDFIETYMKKAQDEKTPVYIFGSKFGPEQAADKIFGFTPTNGMHNIHMNQGNAMDTRWKKDNGSWHDGGILIQFADQWAAVFLAFLSQSWCTDENGNPVRDCDHTQTSA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	225 (202)
Sequences:	238 (186)
Seq/√Len:	13.1

BACSU - YUKJ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
178_N	213_N	5.257	1.00
29_V	43_I	5.207	1.00
3_V	139_S	4.400	1.00
77_Y	159_M	3.862	0.99
178_N	214_P	3.760	0.99
40_R	141_F	3.384	0.98
55_L	200_A	3.186	0.98
7_G	77_Y	2.939	0.96
92_V	207_C	2.750	0.94
89_L	185_G	2.709	0.94
55_L	102_M	2.673	0.94
13_V	128_Q	2.665	0.93
111_G	115_D	2.497	0.91
137_F	186_I	2.352	0.88
30_K	38_Y	2.288	0.87
136_I	161_N	2.213	0.85
140_K	157_N	2.180	0.84
41_C	136_I	2.065	0.80
31_M	41_C	2.028	0.79
116_L	202_L	1.956	0.76
11_G	31_M	1.841	0.72
208_T	212_G	1.762	0.68
199_L	213_N	1.757	0.68
9_L	116_L	1.747	0.67
62_F	196_A	1.747	0.67
58_A	196_A	1.740	0.67
123_Y	197_V	1.722	0.66
168_N	177_D	1.707	0.66
161_N	177_D	1.659	0.63
80_I	87_V	1.631	0.62
172_T	178_N	1.628	0.62
69_I	73_M	1.626	0.62
37_T	157_N	1.620	0.61
121_E	125_K	1.607	0.61
51_E	161_N	1.599	0.60
28_Q	40_R	1.551	0.58
75_Y	133_P	1.500	0.55
41_C	141_F	1.486	0.55
175_K	178_N	1.483	0.54
41_C	161_N	1.456	0.53
80_I	84_N	1.454	0.53
41_C	162_I	1.443	0.52
127_A	132_T	1.433	0.52
188_I	197_V	1.424	0.51
27_F	117_N	1.420	0.51
139_S	161_N	1.413	0.51
41_C	159_M	1.405	0.50
42_A	160_H	1.401	0.50
26_H	47_S	1.401	0.50
136_I	141_F	1.396	0.50
22_D	78_T	1.374	0.49
56_Y	164_M	1.351	0.48
55_L	206_W	1.338	0.47
51_E	203_S	1.308	0.45
141_F	161_N	1.292	0.44
1_M	179_G	1.291	0.44
143_P	156_T	1.281	0.44
16_M	27_F	1.268	0.43
134_V	188_I	1.254	0.42
11_G	161_N	1.211	0.40
124_M	215_V	1.205	0.40
60_D	214_P	1.187	0.39
9_L	202_L	1.183	0.39
95_N	207_C	1.181	0.39
50_E	98_D	1.181	0.39
45_V	64_S	1.179	0.39
52_S	105_L	1.166	0.38
3_V	181_W	1.163	0.38
10_K	135_Y	1.140	0.37
9_L	57_L	1.124	0.36
158_G	163_H	1.123	0.36
59_D	75_Y	1.123	0.36
140_K	178_N	1.118	0.36
25_P	44_N	1.113	0.35
169_A	214_P	1.111	0.35
92_V	210_E	1.097	0.35
5_Q	43_I	1.092	0.34
19_E	118_D	1.084	0.34
91_Y	137_F	1.080	0.34
25_P	106_P	1.080	0.34
97_F	207_C	1.079	0.34
54_V	111_G	1.079	0.34
2_A	14_L	1.075	0.34
9_L	31_M	1.074	0.34
26_H	158_G	1.069	0.33
44_N	168_N	1.068	0.33
43_I	173_R	1.065	0.33
10_K	133_P	1.065	0.33
46_M	108_E	1.055	0.33
175_K	180_S	1.053	0.33
90_D	184_G	1.032	0.32
90_D	183_D	1.032	0.32
44_N	164_M	1.024	0.31
135_Y	189_Q	1.016	0.31
40_R	143_P	1.016	0.31
102_M	202_L	1.008	0.31
14_L	92_V	0.985	0.30
187_L	195_A	0.983	0.30
63_D	134_V	0.980	0.29
72_N	84_N	0.971	0.29
34_E	39_Y	0.967	0.29
90_D	138_G	0.953	0.28
168_N	181_W	0.938	0.28
169_A	178_N	0.936	0.27
27_F	97_F	0.927	0.27
18_R	45_V	0.926	0.27
2_A	58_A	0.925	0.27
13_V	124_M	0.920	0.27
42_A	156_T	0.919	0.27
90_D	201_F	0.918	0.27
194_W	198_F	0.910	0.26
54_V	70_L	0.908	0.26
22_D	168_N	0.906	0.26
20_T	185_G	0.904	0.26
57_L	116_L	0.903	0.26
116_L	136_I	0.894	0.26
184_G	201_F	0.892	0.26
183_D	201_F	0.892	0.26
199_L	214_P	0.886	0.25
175_K	196_A	0.882	0.25
187_L	194_W	0.876	0.25
54_V	189_Q	0.873	0.25
22_D	48_S	0.866	0.25
3_V	48_S	0.864	0.25
99_P	206_W	0.861	0.24
30_K	40_R	0.859	0.24
168_N	178_N	0.858	0.24
3_V	156_T	0.850	0.24
163_H	166_Q	0.844	0.24
64_S	180_S	0.838	0.24
73_M	185_G	0.838	0.24
29_V	143_P	0.838	0.24
10_K	73_M	0.831	0.23
55_L	60_D	0.830	0.23
140_K	161_N	0.824	0.23
64_S	159_M	0.822	0.23
9_L	13_V	0.815	0.23
94_G	181_W	0.812	0.23
138_G	183_D	0.808	0.22
138_G	184_G	0.808	0.22
162_I	176_K	0.806	0.22
67_I	207_C	0.805	0.22
209_D	212_G	0.795	0.22
66_S	73_M	0.790	0.22
64_S	207_C	0.787	0.22
42_A	186_I	0.786	0.22
67_I	123_Y	0.780	0.21
1_M	8_V	0.779	0.21
80_I	120_I	0.779	0.21
114_N	194_W	0.778	0.21
188_I	196_A	0.777	0.21
48_S	107_H	0.775	0.21
80_I	216_R	0.774	0.21
58_A	168_N	0.770	0.21
97_F	181_W	0.768	0.21
31_M	178_N	0.765	0.21
174_W	178_N	0.762	0.21
16_M	83_A	0.762	0.21
207_C	215_V	0.761	0.21
28_Q	42_A	0.758	0.21
39_Y	200_A	0.757	0.21
23_D	169_A	0.753	0.21
11_G	134_V	0.749	0.20
7_G	159_M	0.748	0.20
111_G	114_N	0.745	0.20
159_M	194_W	0.745	0.20
7_G	80_I	0.744	0.20
23_D	141_F	0.743	0.20
57_L	202_L	0.739	0.20
53_E	57_L	0.737	0.20
121_E	174_W	0.736	0.20
203_S	210_E	0.733	0.20
214_P	217_D	0.731	0.20
125_K	217_D	0.727	0.20
5_Q	121_E	0.723	0.20
104_P	177_D	0.723	0.20
134_V	214_P	0.721	0.19
9_L	55_L	0.720	0.19
19_E	117_N	0.716	0.19
124_M	207_C	0.714	0.19
67_I	185_G	0.713	0.19
59_D	96_L	0.712	0.19
43_I	128_Q	0.712	0.19
110_T	208_T	0.709	0.19
12_I	78_T	0.709	0.19
137_F	141_F	0.708	0.19
74_P	195_A	0.708	0.19
167_G	208_T	0.706	0.19
94_G	182_H	0.705	0.19
19_E	103_K	0.704	0.19
36_N	175_K	0.703	0.19
139_S	181_W	0.703	0.19
3_V	185_G	0.701	0.19
18_R	117_N	0.701	0.19
101_E	120_I	0.697	0.19
130_E	169_A	0.695	0.19
18_R	77_Y	0.693	0.19
138_G	201_F	0.688	0.18
189_Q	211_N	0.687	0.18
51_E	202_L	0.685	0.18
38_Y	172_T	0.680	0.18
31_M	162_I	0.676	0.18
105_L	119_F	0.676	0.18
31_M	136_I	0.675	0.18
132_T	190_F	0.671	0.18
104_P	141_F	0.670	0.18
97_F	186_I	0.670	0.18
194_W	199_L	0.668	0.18
26_H	203_S	0.663	0.18
92_V	97_F	0.660	0.18
1_M	174_W	0.660	0.18
8_V	179_G	0.658	0.17
17_K	62_F	0.658	0.17
108_E	168_N	0.654	0.17
64_S	186_I	0.652	0.17
123_Y	178_N	0.648	0.17
40_R	156_T	0.648	0.17
9_L	53_E	0.646	0.17
48_S	51_E	0.644	0.17
78_T	213_N	0.643	0.17
24_S	91_Y	0.640	0.17
57_L	102_M	0.637	0.17
11_G	34_E	0.631	0.17
163_H	167_G	0.623	0.16
3_V	182_H	0.621	0.16
26_H	163_H	0.619	0.16
30_K	213_N	0.619	0.16
19_E	28_Q	0.617	0.16
27_F	55_L	0.617	0.16
34_E	120_I	0.611	0.16
4_Q	176_K	0.609	0.16
124_M	186_I	0.608	0.16
158_G	166_Q	0.607	0.16
38_Y	54_V	0.606	0.16
162_I	178_N	0.603	0.16
47_S	106_P	0.601	0.16
166_Q	204_Q	0.601	0.16
16_M	121_E	0.601	0.16
41_C	118_D	0.601	0.16
2_A	185_G	0.599	0.16
43_I	104_P	0.599	0.16
77_Y	110_T	0.595	0.16
132_T	168_N	0.594	0.16
59_D	97_F	0.594	0.16
127_A	204_Q	0.593	0.16
10_K	41_C	0.591	0.16
112_P	190_F	0.590	0.16
104_P	133_P	0.587	0.15
45_V	199_L	0.587	0.15
59_D	74_P	0.582	0.15
29_V	120_I	0.580	0.15
82_E	121_E	0.579	0.15
96_L	196_A	0.578	0.15
136_I	202_L	0.578	0.15
141_F	158_G	0.576	0.15
15_D	196_A	0.574	0.15
7_G	46_M	0.573	0.15
110_T	207_C	0.568	0.15
67_I	126_K	0.567	0.15
44_N	202_L	0.564	0.15
17_K	206_W	0.561	0.15
92_V	205_S	0.558	0.15
52_S	159_M	0.554	0.15
34_E	58_A	0.550	0.14
50_E	131_K	0.549	0.14
11_G	41_C	0.547	0.14
74_P	175_K	0.545	0.14
156_T	159_M	0.545	0.14
2_A	213_N	0.543	0.14
12_I	217_D	0.543	0.14
85_R	180_S	0.540	0.14
83_A	88_A	0.540	0.14
102_M	136_I	0.537	0.14
143_P	157_N	0.534	0.14
29_V	122_T	0.533	0.14
127_A	194_W	0.531	0.14
7_G	93_R	0.531	0.14
120_I	197_V	0.531	0.14
189_Q	203_S	0.528	0.14
110_T	191_A	0.527	0.14
73_M	107_H	0.527	0.14
188_I	217_D	0.527	0.14
10_K	43_I	0.524	0.14
42_A	185_G	0.519	0.14
29_V	215_V	0.519	0.14
11_G	54_V	0.516	0.14
41_C	121_E	0.516	0.14
107_H	185_G	0.515	0.14
90_D	204_Q	0.514	0.14
178_N	196_A	0.512	0.13
7_G	140_K	0.512	0.13
159_M	197_V	0.511	0.13
157_N	199_L	0.509	0.13
15_D	186_I	0.507	0.13
52_S	197_V	0.506	0.13
91_Y	192_D	0.503	0.13
28_Q	142_G	0.503	0.13
39_Y	195_A	0.503	0.13
19_E	97_F	0.503	0.13
15_D	177_D	0.502	0.13
119_F	123_Y	0.501	0.13
92_V	186_I	0.501	0.13
116_L	206_W	0.500	0.13

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
4ccdA	1	0.6267	36.2	0.962	Contact Map
2nt0A	4	0.8578	17.9	0.967	Contact Map
2je2A	2	0.4178	11.2	0.97	Contact Map
2y24A	1	0.6	8.6	0.972	Contact Map
3lazA	2	0.1422	6.3	0.974	Contact Map
4qawA	3	0.5956	5.6	0.974	Contact Map
2khrA	1	0.3244	4.9	0.975	Contact Map
2yy0A	6	0.2356	4.7	0.975	Contact Map
1vbvA	3	0.2889	3.7	0.976	Contact Map
3hwuA	3	0.3378	3.4	0.977	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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