YGAJ - BACSU - GREMLIN Contacts

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YGAJ - Uncharacterized peptidase YgaJ

UniProt:	P71089	Sequences: MKQIIAMGGGGFSMEPDNLSLDQYILNQSKREQPRICFLPTASGDSQNYIQRFYHAFQTLDCVPSHLSLFKPPSSDLVSFVMEMDVIYVGGGNTRNLLVLWKEWGLDHILREAWKNGVVVAGISAGAICWFEEGVTDSAGPLTSLKSLGFLQGSFCPHYDGEKDRRPAYHQLISNKFLCSGYAADDGAALHFINDQLFQTVSSRSGAKAYRVMMAEHEIAEIPLPVKYLG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	230 (206)
Sequences:	1990 (1475)
Seq/√Len:	102.8

ECOLI - PEPE
BACSU - YGAJ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
113_A	118_V	4.380	1.00
37_C	84_M	3.686	1.00
79_S	83_E	3.383	1.00
81_V	106_L	2.866	1.00
91_G	124_S	2.776	1.00
34_P	85_D	2.765	1.00
87_I	118_V	2.647	1.00
42_A	97_L	2.627	1.00
187_G	203_S	2.620	1.00
35_R	63_V	2.602	1.00
24_Y	199_Q	2.549	1.00
82_M	112_E	2.480	1.00
114_W	150_F	2.431	1.00
24_Y	27_N	2.424	1.00
98_L	147_S	2.306	1.00
182_Y	209_A	2.235	1.00
25_I	86_V	2.195	1.00
24_Y	28_Q	2.127	1.00
78_V	112_E	2.062	1.00
113_A	116_N	2.007	1.00
38_F	49_Y	1.990	1.00
37_C	80_F	1.972	1.00
142_L	145_L	1.943	1.00
37_C	67_L	1.895	1.00
51_Q	55_H	1.892	1.00
35_R	85_D	1.887	1.00
111_R	115_K	1.871	1.00
30_K	34_P	1.865	1.00
78_V	109_I	1.783	1.00
169_Y	181_G	1.728	1.00
87_I	110_L	1.728	1.00
89_V	120_V	1.707	1.00
98_L	134_G	1.699	1.00
65_S	80_F	1.691	1.00
50_I	66_H	1.675	1.00
6_A	191_H	1.672	1.00
35_R	65_S	1.663	1.00
25_I	121_A	1.626	1.00
182_Y	190_L	1.624	1.00
37_C	81_V	1.607	1.00
141_P	144_S	1.601	1.00
132_E	153_G	1.585	1.00
36_I	86_V	1.579	1.00
87_I	113_A	1.561	1.00
112_E	116_N	1.560	1.00
127_A	155_F	1.547	1.00
40_P	66_H	1.545	1.00
161_G	185_D	1.519	1.00
109_I	112_E	1.510	1.00
193_I	199_Q	1.465	1.00
92_G	124_S	1.464	1.00
36_I	62_C	1.456	1.00
173_I	181_G	1.445	1.00
105_G	108_H	1.441	1.00
75_S	79_S	1.422	1.00
91_G	125_A	1.419	1.00
31_R	34_P	1.401	1.00
191_H	201_V	1.394	1.00
21_L	29_S	1.374	1.00
99_V	103_E	1.370	1.00
45_D	48_N	1.368	0.99
53_F	57_F	1.354	0.99
4_I	8_G	1.343	0.99
35_R	83_E	1.315	0.99
65_S	84_M	1.312	0.99
78_V	82_M	1.291	0.99
134_G	147_S	1.279	0.99
33_Q	63_V	1.261	0.99
141_P	145_L	1.261	0.99
88_Y	123_I	1.249	0.99
110_L	114_W	1.239	0.99
120_V	130_W	1.234	0.99
88_Y	121_A	1.228	0.99
17_D	20_S	1.225	0.99
6_A	130_W	1.221	0.99
8_G	12_F	1.217	0.99
18_N	22_D	1.211	0.99
82_M	113_A	1.206	0.99
89_V	97_L	1.202	0.99
5_I	130_W	1.201	0.99
102_K	107_D	1.190	0.99
211_R	214_M	1.158	0.98
49_Y	90_G	1.130	0.98
128_I	158_H	1.130	0.98
122_G	126_G	1.124	0.98
6_A	28_Q	1.116	0.98
109_I	113_A	1.113	0.98
37_C	87_I	1.098	0.98
165_R	168_A	1.097	0.98
114_W	120_V	1.081	0.97
132_E	152_Q	1.080	0.97
171_Q	175_N	1.079	0.97
188_A	207_A	1.079	0.97
151_L	154_S	1.071	0.97
123_I	186_D	1.066	0.97
82_M	109_I	1.065	0.97
52_R	56_A	1.062	0.97
6_A	9_G	1.060	0.97
39_L	67_L	1.056	0.97
49_Y	52_R	1.050	0.97
41_T	73_P	1.045	0.97
9_G	12_F	1.043	0.97
81_V	109_I	1.030	0.96
10_G	159_Y	1.013	0.96
8_G	11_G	0.991	0.96
108_H	111_R	0.968	0.95
58_Q	61_D	0.967	0.95
206_G	211_R	0.966	0.95
169_Y	173_I	0.948	0.94
39_L	97_L	0.944	0.94
109_I	118_V	0.938	0.94
107_D	111_R	0.933	0.94
161_G	186_D	0.928	0.94
23_Q	60_L	0.924	0.94
81_V	84_M	0.920	0.93
114_W	195_D	0.918	0.93
154_S	181_G	0.916	0.93
78_V	105_G	0.908	0.93
18_N	26_L	0.900	0.93
21_L	189_A	0.895	0.92
94_T	157_P	0.889	0.92
56_A	59_T	0.887	0.92
38_F	90_G	0.884	0.92
101_W	129_C	0.883	0.92
21_L	24_Y	0.882	0.92
95_R	103_E	0.879	0.92
7_M	11_G	0.878	0.92
160_D	163_K	0.878	0.92
92_G	126_G	0.877	0.92
81_V	113_A	0.876	0.92
190_L	197_L	0.871	0.91
133_E	178_L	0.864	0.91
25_I	119_V	0.859	0.91
194_N	197_L	0.858	0.91
65_S	83_E	0.852	0.90
18_N	21_L	0.852	0.90
20_S	24_Y	0.852	0.90
86_V	119_V	0.839	0.90
191_H	199_Q	0.837	0.90
22_D	57_F	0.835	0.90
105_G	109_I	0.826	0.89
26_L	29_S	0.823	0.89
110_L	120_V	0.821	0.89
97_L	158_H	0.820	0.89
47_Q	51_Q	0.819	0.89
80_F	84_M	0.815	0.88
185_D	188_A	0.813	0.88
166_R	210_Y	0.809	0.88
166_R	170_H	0.806	0.88
128_I	168_A	0.804	0.88
6_A	121_A	0.800	0.88
192_F	197_L	0.799	0.87
128_I	134_G	0.799	0.87
127_A	184_A	0.798	0.87
51_Q	54_Y	0.797	0.87
40_P	90_G	0.791	0.87
91_G	126_G	0.789	0.87
130_W	150_F	0.787	0.87
169_Y	183_A	0.780	0.86
45_D	51_Q	0.764	0.85
57_F	88_Y	0.764	0.85
53_F	88_Y	0.761	0.85
206_G	212_V	0.755	0.84
112_E	115_K	0.755	0.84
123_I	163_K	0.749	0.84
135_V	172_L	0.749	0.84
20_S	28_Q	0.739	0.83
169_Y	185_D	0.739	0.83
204_R	207_A	0.735	0.83
10_G	13_S	0.732	0.82
39_L	110_L	0.723	0.82
10_G	186_D	0.722	0.82
21_L	25_I	0.722	0.82
155_F	184_A	0.718	0.81
43_S	49_Y	0.717	0.81
96_N	99_V	0.709	0.80
100_L	103_E	0.708	0.80
30_K	78_V	0.706	0.80
160_D	168_A	0.706	0.80
95_R	145_L	0.702	0.80
21_L	28_Q	0.700	0.80
94_T	123_I	0.698	0.79
37_C	65_S	0.695	0.79
106_L	109_I	0.694	0.79
102_K	105_G	0.693	0.79
8_G	88_Y	0.691	0.79
48_N	51_Q	0.691	0.79
79_S	82_M	0.685	0.78
160_D	169_Y	0.684	0.78
160_D	183_A	0.682	0.78
18_N	25_I	0.677	0.77
8_G	13_S	0.676	0.77
13_S	18_N	0.675	0.77
4_I	9_G	0.672	0.77
92_G	125_A	0.669	0.76
77_L	81_V	0.666	0.76
43_S	94_T	0.662	0.76
31_R	85_D	0.662	0.76
88_Y	189_A	0.659	0.75
132_E	178_L	0.658	0.75
46_S	186_D	0.657	0.75
123_I	160_D	0.657	0.75
209_A	212_V	0.657	0.75
97_L	129_C	0.655	0.75
96_N	100_L	0.654	0.75
108_H	196_Q	0.653	0.75
53_F	123_I	0.652	0.75
119_V	191_H	0.652	0.75
154_S	169_Y	0.650	0.74
189_A	200_T	0.650	0.74
27_N	108_H	0.650	0.74
54_Y	66_H	0.649	0.74
65_S	70_F	0.646	0.74
98_L	129_C	0.646	0.74
18_N	28_Q	0.645	0.74
157_P	168_A	0.645	0.74
124_S	159_Y	0.642	0.73
35_R	84_M	0.642	0.73
26_L	62_C	0.641	0.73
94_T	128_I	0.640	0.73
7_M	158_H	0.638	0.73
48_N	79_S	0.636	0.73
19_L	23_Q	0.635	0.73
147_S	156_C	0.631	0.72
44_G	47_Q	0.631	0.72
90_G	97_L	0.631	0.72
85_D	118_V	0.630	0.72
24_Y	191_H	0.629	0.72
7_M	192_F	0.627	0.72
81_V	87_I	0.624	0.71
43_S	96_N	0.623	0.71
53_F	56_A	0.623	0.71
54_Y	58_Q	0.621	0.71
42_A	158_H	0.620	0.71
188_A	209_A	0.618	0.71
78_V	195_D	0.613	0.70
159_Y	163_K	0.611	0.70
60_L	177_F	0.610	0.70
94_T	158_H	0.608	0.69
29_S	34_P	0.607	0.69
55_H	59_T	0.603	0.69
4_I	7_M	0.599	0.68
102_K	143_T	0.598	0.68
23_Q	27_N	0.593	0.67
82_M	196_Q	0.593	0.67
111_R	114_W	0.590	0.67
25_I	36_I	0.589	0.67
162_E	208_K	0.589	0.67
38_F	94_T	0.587	0.67
88_Y	119_V	0.585	0.66
12_F	18_N	0.582	0.66
63_V	71_K	0.579	0.66
69_L	101_W	0.571	0.65
68_S	155_F	0.571	0.65
192_F	200_T	0.569	0.64
27_N	30_K	0.569	0.64
162_E	167_P	0.567	0.64
176_K	179_C	0.566	0.64
12_F	53_F	0.564	0.64
55_H	214_M	0.563	0.64
189_A	201_V	0.561	0.63
161_G	208_K	0.560	0.63
134_G	138_S	0.559	0.63
40_P	158_H	0.558	0.63
131_F	155_F	0.557	0.63
201_V	204_R	0.557	0.63
128_I	156_C	0.551	0.62
75_S	105_G	0.550	0.62
143_T	146_K	0.550	0.62
31_R	86_V	0.547	0.61
86_V	129_C	0.546	0.61
134_G	149_G	0.546	0.61
40_P	93_N	0.545	0.61
172_L	176_K	0.545	0.61
149_G	152_Q	0.544	0.61
132_E	149_G	0.543	0.61
207_A	210_Y	0.536	0.60
74_S	77_L	0.533	0.59
8_G	121_A	0.531	0.59
75_S	80_F	0.527	0.58
20_S	26_L	0.523	0.58
82_M	214_M	0.521	0.58
42_A	93_N	0.520	0.57
200_T	207_A	0.519	0.57
76_D	152_Q	0.518	0.57
11_G	189_A	0.518	0.57
83_E	175_N	0.517	0.57
92_G	122_G	0.517	0.57
5_I	175_N	0.516	0.57
137_D	156_C	0.516	0.57
82_M	116_N	0.515	0.57
129_C	151_L	0.515	0.57
33_Q	108_H	0.514	0.57
165_R	181_G	0.513	0.56
4_I	191_H	0.511	0.56
28_Q	191_H	0.511	0.56
159_Y	187_G	0.511	0.56
37_C	107_D	0.509	0.56
76_D	79_S	0.507	0.56
6_A	21_L	0.505	0.55
61_D	213_M	0.504	0.55
32_E	55_H	0.504	0.55
35_R	54_Y	0.504	0.55
93_N	123_I	0.504	0.55
130_W	137_D	0.503	0.55
9_G	189_A	0.502	0.55
94_T	159_Y	0.502	0.55
25_I	29_S	0.502	0.55
98_L	117_G	0.500	0.55

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
3en0A	2	0.9913	100	0.304	Contact Map
1fy2A	1	0.9261	100	0.481	Contact Map
3l4eA	1	0.8348	100	0.488	Contact Map
1ka9H	1	0.7391	98	0.838	Contact Map
2nv0A	1	0.7217	97.9	0.84	Contact Map
2issD	1	0.7261	97.8	0.845	Contact Map
1jvnA	1	0.7696	97.7	0.847	Contact Map
2ywdA	1	0.7304	97.7	0.847	Contact Map
1q7rA	1	0.7565	97.6	0.851	Contact Map
2abwA	1	0.7565	97.5	0.854	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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