YOBE - BACSU - GREMLIN Contacts

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YOBE - Putative SOS response-associated peptidase YobE

UniProt:	O34915	Sequences: MCGKFTLFSEFDDIIEQFNIDQFLPEGEYHPSYNVAPSQNILTIINDGSNNRLGKLRWGLIPPCAKDEKIGYKMINARAETLAEKPSFRKPLGSKRCIIPADSFYEWKRLDPKTKIPMRIKLKSSNLFAFAGLYEKWNTLEGNLLYTCTIITIKPSELMEDIHDRMPVILTDENKKEWLNPKNTDPDYLQSLLLPYDADDMEAYQVSSLVNSPELIESH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	219 (202)
Sequences:	3459 (2504)
Seq/√Len:	176.1

ECOLI - YEDK
BACSU - YOBE YOQW YOAM
HALSA - Q9HRI0 O51976

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
101_A	130_F	4.346	1.00
41_I	148_C	4.252	1.00
82_L	151_I	4.143	1.00
43_T	56_L	3.985	1.00
133_L	149_T	3.957	1.00
18_F	129_A	3.395	1.00
98_I	175_K	3.391	1.00
103_S	119_R	2.819	1.00
116_I	205_Q	2.711	1.00
171_T	174_N	2.688	1.00
97_C	132_G	2.493	1.00
79_A	151_I	2.456	1.00
130_F	150_I	2.391	1.00
91_P	135_E	2.389	1.00
45_I	54_G	2.222	1.00
121_K	202_E	2.193	1.00
121_K	204_Y	2.124	1.00
86_P	89_R	2.058	1.00
136_K	146_Y	1.954	1.00
120_I	162_I	1.920	1.00
76_N	163_H	1.845	1.00
106_E	163_H	1.829	1.00
51_N	176_K	1.808	1.00
83_A	92_L	1.782	1.00
98_I	129_A	1.772	1.00
74_M	87_S	1.767	1.00
95_K	135_E	1.737	1.00
104_F	159_M	1.688	1.00
156_S	166_M	1.666	1.00
5_F	41_I	1.660	1.00
77_A	149_T	1.646	1.00
17_Q	175_K	1.624	1.00
129_A	175_K	1.619	1.00
99_I	148_C	1.597	1.00
174_N	177_E	1.593	1.00
10_E	13_D	1.589	1.00
6_T	119_R	1.572	1.00
120_I	159_M	1.572	1.00
61_I	145_L	1.561	1.00
99_I	150_I	1.542	1.00
157_E	160_E	1.518	1.00
110_L	114_T	1.518	1.00
79_A	193_L	1.517	1.00
35_V	41_I	1.483	1.00
32_S	39_Q	1.483	1.00
82_L	92_L	1.469	1.00
9_S	102_D	1.467	1.00
7_L	35_V	1.460	1.00
43_T	148_C	1.452	1.00
196_Y	201_M	1.448	1.00
12_D	16_E	1.424	1.00
83_A	190_Q	1.359	1.00
34_N	117_P	1.357	1.00
122_L	126_N	1.354	1.00
128_F	201_M	1.338	1.00
136_K	144_L	1.308	1.00
5_F	101_A	1.299	1.00
114_T	208_S	1.287	1.00
122_L	128_F	1.272	1.00
108_K	118_M	1.263	1.00
169_I	201_M	1.259	1.00
138_N	144_L	1.249	1.00
153_I	195_P	1.233	1.00
81_T	85_K	1.230	1.00
45_I	52_R	1.230	1.00
99_I	132_G	1.212	1.00
98_I	170_L	1.201	1.00
153_I	168_V	1.198	1.00
119_R	204_Y	1.192	1.00
107_W	115_K	1.187	1.00
158_L	199_D	1.168	1.00
43_T	97_C	1.158	1.00
170_L	174_N	1.143	1.00
118_M	205_Q	1.129	1.00
45_I	134_Y	1.115	1.00
158_L	201_M	1.112	1.00
137_W	140_L	1.108	1.00
131_A	168_V	1.107	1.00
120_I	203_A	1.091	1.00
123_K	202_E	1.091	1.00
80_E	165_R	1.091	1.00
11_F	15_I	1.088	1.00
32_S	35_V	1.087	1.00
95_K	134_Y	1.081	1.00
20_I	53_L	1.074	1.00
81_T	88_F	1.069	1.00
90_K	94_S	1.063	1.00
172_D	175_K	1.062	1.00
128_F	175_K	1.047	1.00
76_N	106_E	1.047	1.00
91_P	95_K	1.045	1.00
90_K	93_G	1.044	1.00
9_S	127_L	1.039	0.99
21_D	50_N	1.021	0.99
198_A	201_M	1.009	0.99
43_T	99_I	1.008	0.99
180_N	183_N	1.005	0.99
3_G	75_I	0.998	0.99
153_I	156_S	0.991	0.99
61_I	147_T	0.991	0.99
47_D	50_N	0.990	0.99
154_K	164_D	0.987	0.99
56_L	146_Y	0.972	0.99
42_L	53_L	0.959	0.99
158_L	203_A	0.954	0.99
153_I	166_M	0.953	0.99
192_L	195_P	0.951	0.99
97_C	134_Y	0.951	0.99
177_E	191_S	0.945	0.99
41_I	99_I	0.934	0.99
157_E	161_D	0.929	0.99
110_L	113_K	0.927	0.99
65_A	70_I	0.927	0.99
38_S	72_Y	0.927	0.99
36_A	39_Q	0.909	0.99
60_L	147_T	0.907	0.99
4_K	107_W	0.907	0.99
5_F	42_L	0.901	0.99
177_E	180_N	0.898	0.99
4_K	34_N	0.896	0.99
61_I	74_M	0.896	0.99
70_I	73_K	0.894	0.98
109_R	115_K	0.893	0.98
108_K	115_K	0.893	0.98
139_T	143_N	0.891	0.98
38_S	57_R	0.885	0.98
122_L	171_T	0.885	0.98
104_F	156_S	0.875	0.98
60_L	135_E	0.873	0.98
67_D	71_G	0.872	0.98
44_I	51_N	0.870	0.98
188_Y	191_S	0.866	0.98
59_G	75_I	0.859	0.98
138_N	143_N	0.858	0.98
107_W	117_P	0.857	0.98
34_N	107_W	0.855	0.98
8_F	102_D	0.854	0.98
158_L	161_D	0.842	0.98
111_D	114_T	0.838	0.98
177_E	188_Y	0.834	0.98
54_G	146_Y	0.826	0.97
110_L	116_I	0.826	0.97
74_M	88_F	0.826	0.97
122_L	201_M	0.819	0.97
150_I	167_P	0.812	0.97
62_P	65_A	0.810	0.97
132_G	149_T	0.808	0.97
104_F	161_D	0.796	0.97
174_N	194_L	0.792	0.97
109_R	114_T	0.786	0.97
151_I	168_V	0.784	0.97
82_L	133_L	0.784	0.97
122_L	200_D	0.783	0.96
2_C	76_N	0.780	0.96
58_W	167_P	0.780	0.96
85_K	88_F	0.777	0.96
61_I	67_D	0.776	0.96
139_T	144_L	0.772	0.96
156_S	161_D	0.769	0.96
58_W	96_R	0.762	0.96
155_P	164_D	0.762	0.96
36_A	107_W	0.759	0.96
92_L	189_L	0.758	0.96
171_T	200_D	0.752	0.96
33_Y	117_P	0.744	0.95
187_D	191_S	0.742	0.95
77_A	88_F	0.739	0.95
94_S	135_E	0.739	0.95
128_F	169_I	0.735	0.95
5_F	35_V	0.729	0.95
3_G	37_P	0.725	0.95
67_D	73_K	0.724	0.95
42_L	55_K	0.717	0.94
138_N	142_G	0.716	0.94
71_G	74_M	0.714	0.94
79_A	153_I	0.711	0.94
121_K	125_S	0.710	0.94
17_Q	126_N	0.704	0.94
2_C	163_H	0.699	0.94
7_L	42_L	0.695	0.93
78_R	106_E	0.690	0.93
63_P	135_E	0.690	0.93
176_K	180_N	0.689	0.93
155_P	160_E	0.689	0.93
196_Y	200_D	0.688	0.93
36_A	117_P	0.687	0.93
137_W	145_L	0.684	0.93
9_S	12_D	0.682	0.93
90_K	135_E	0.682	0.93
81_T	84_E	0.679	0.93
33_Y	36_A	0.672	0.92
5_F	36_A	0.672	0.92
18_F	175_K	0.672	0.92
89_R	93_G	0.669	0.92
174_N	192_L	0.667	0.92
122_L	127_L	0.666	0.92
67_D	70_I	0.665	0.92
132_G	150_I	0.665	0.92
181_P	189_L	0.663	0.92
101_A	150_I	0.662	0.92
9_S	13_D	0.657	0.91
6_T	103_S	0.654	0.91
59_G	71_G	0.653	0.91
34_N	103_S	0.651	0.91
104_F	169_I	0.649	0.91
60_L	87_S	0.647	0.91
40_N	55_K	0.646	0.91
46_N	51_N	0.646	0.91
70_I	74_M	0.644	0.90
5_F	99_I	0.643	0.90
45_I	146_Y	0.642	0.90
103_S	121_K	0.640	0.90
5_F	148_C	0.639	0.90
3_G	107_W	0.639	0.90
19_N	176_K	0.634	0.90
154_K	157_E	0.634	0.90
13_D	16_E	0.633	0.90
106_E	165_R	0.632	0.90
108_K	116_I	0.630	0.89
108_K	161_D	0.630	0.89
37_P	75_I	0.627	0.89
57_R	145_L	0.627	0.89
162_I	203_A	0.623	0.89
151_I	193_L	0.623	0.89
114_T	199_D	0.623	0.89
15_I	20_I	0.607	0.88
189_L	193_L	0.606	0.88
130_F	167_P	0.603	0.87
189_L	192_L	0.602	0.87
22_Q	25_P	0.601	0.87
126_N	172_D	0.598	0.87
5_F	100_P	0.598	0.87
60_L	91_P	0.596	0.87
60_L	74_M	0.595	0.87
183_N	188_Y	0.595	0.87
108_K	111_D	0.594	0.87
156_S	198_A	0.593	0.86
159_M	162_I	0.593	0.86
205_Q	208_S	0.591	0.86
46_N	49_S	0.587	0.86
118_M	162_I	0.586	0.86
12_D	21_D	0.586	0.86
65_A	71_G	0.584	0.86
17_Q	172_D	0.583	0.86
162_I	166_M	0.580	0.85
80_E	154_K	0.580	0.85
61_I	64_C	0.579	0.85
169_I	195_P	0.579	0.85
57_R	68_E	0.578	0.85
104_F	158_L	0.576	0.85
25_P	28_E	0.575	0.85
110_L	118_M	0.574	0.85
2_C	106_E	0.573	0.85
78_R	163_H	0.570	0.84
28_E	55_K	0.569	0.84
63_P	90_K	0.568	0.84
122_L	125_S	0.567	0.84
11_F	28_E	0.566	0.84
22_Q	52_R	0.565	0.84
105_Y	117_P	0.563	0.84
75_I	149_T	0.562	0.83
41_I	58_W	0.562	0.83
68_E	145_L	0.560	0.83
69_K	72_Y	0.559	0.83
155_P	158_L	0.558	0.83
168_V	195_P	0.556	0.83
61_I	137_W	0.552	0.82
44_I	100_P	0.549	0.82
119_R	128_F	0.548	0.82
105_Y	165_R	0.547	0.82
56_L	148_C	0.546	0.82
109_R	164_D	0.546	0.82
98_I	128_F	0.544	0.81
100_P	129_A	0.544	0.81
91_P	133_L	0.539	0.81
4_K	37_P	0.538	0.81
74_M	149_T	0.534	0.80
102_D	119_R	0.533	0.80
14_I	18_F	0.532	0.80
60_L	72_Y	0.532	0.80
8_F	12_D	0.528	0.79
12_D	15_I	0.528	0.79
137_W	147_T	0.526	0.79
20_I	51_N	0.525	0.79
22_Q	50_N	0.525	0.79
49_S	98_I	0.522	0.79
80_E	151_I	0.521	0.79
158_L	200_D	0.519	0.78
38_S	75_I	0.516	0.78
100_P	132_G	0.514	0.78
43_T	132_G	0.514	0.78
62_P	66_K	0.513	0.78
156_S	159_M	0.513	0.78
197_D	200_D	0.513	0.78
102_D	127_L	0.511	0.77
168_V	193_L	0.511	0.77
7_L	14_I	0.510	0.77
123_K	199_D	0.510	0.77
56_L	134_Y	0.508	0.77
65_A	72_Y	0.507	0.77
83_A	93_G	0.504	0.76
156_S	195_P	0.502	0.76
77_A	82_L	0.500	0.76

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
2icuA	1	0.9224	100	0.073	Contact Map
2bdvA	1	0.9452	100	0.075	Contact Map
2f20A	1	0.9726	100	0.085	Contact Map
2aegA	1	0.9269	100	0.117	Contact Map
1zn6A	1	0.9041	100	0.12	Contact Map
2gs0B	1	0.0639	17.9	0.955	Contact Map
2b3gB	2	0.1096	8	0.961	Contact Map
2jd3A	2	0.3927	7.7	0.962	Contact Map
3bsuA	1	0.2237	6.4	0.963	Contact Map
2iiiA	2	0.1781	4.1	0.967	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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