END8 - ECOLI - GREMLIN Contacts

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END8 - Endonuclease 8

UniProt:	P50465	Sequences: MPEGPEIRRAADNLEAAIKGKPLTDVWFAFPQLKPYQSQLIGQHVTHVETRGKALLTHFSNDLTLYSHNQLYGVWRVVDTGEEPQTTRVLRVKLQTADKTILLYSASDIEMLTPEQLTTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLAGLGNYLRVEILWQVGLTGNHKAKDLNAAQLDALAHALLEIPRFSYATRGQVDENKHHGALFRFKVFHRDGEPCERCGSIIEKTTLSSRPFYWCPGCQH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13237
Length:	263 (256)
Sequences:	5449 (3711)
Seq/√Len:	231.9

ECOLI - END8 FPG
BACSU - FPG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
49_E	58_H	3.780	1.00
185_H	194_Q	3.675	1.00
245_I	256_Y	3.042	1.00
191_N	194_Q	2.912	1.00
157_L	187_A	2.875	1.00
167_L	172_R	2.862	1.00
178_Q	208_F	2.778	1.00
154_F	181_L	2.721	1.00
151_N	188_K	2.668	1.00
56_L	64_T	2.582	1.00
15_E	19_K	2.538	1.00
229_K	239_E	2.314	1.00
137_P	199_A	2.311	1.00
21_K	96_T	2.265	1.00
144_L	157_L	2.238	1.00
179_V	201_A	2.174	1.00
25_D	41_I	2.142	1.00
11_A	55_L	2.141	1.00
147_P	152_R	2.124	1.00
67_S	75_W	2.089	1.00
46_T	60_S	2.071	1.00
233_R	239_E	2.055	1.00
27_W	93_K	2.013	1.00
67_S	109_I	1.984	1.00
141_K	195_L	1.965	1.00
177_W	240_R	1.952	1.00
246_E	259_P	1.908	1.00
243_S	259_P	1.908	1.00
125_R	162_A	1.906	1.00
11_A	15_E	1.902	1.00
185_H	189_D	1.881	1.00
194_Q	197_A	1.871	1.00
137_P	196_D	1.851	1.00
15_E	47_H	1.846	1.00
178_Q	201_A	1.838	1.00
184_N	248_T	1.837	1.00
248_T	257_W	1.836	1.00
233_R	236_E	1.833	1.00
21_K	95_Q	1.802	1.00
141_K	192_A	1.783	1.00
43_Q	60_S	1.780	1.00
21_K	98_D	1.744	1.00
152_R	160_D	1.735	1.00
198_L	202_L	1.716	1.00
139_V	143_R	1.711	1.00
47_H	58_H	1.700	1.00
157_L	163_F	1.684	1.00
201_A	204_E	1.640	1.00
48_V	57_T	1.618	1.00
23_L	59_F	1.614	1.00
247_K	254_P	1.610	1.00
90_L	109_I	1.602	1.00
113_T	116_Q	1.600	1.00
137_P	200_H	1.597	1.00
39_Q	63_L	1.591	1.00
30_F	105_S	1.557	1.00
190_L	194_Q	1.551	1.00
167_L	202_L	1.539	1.00
175_I	202_L	1.535	1.00
215_Q	228_F	1.534	1.00
25_D	93_K	1.527	1.00
230_V	245_I	1.517	1.00
243_S	260_G	1.510	1.00
153_Q	156_G	1.501	1.00
178_Q	229_K	1.484	1.00
178_Q	205_I	1.483	1.00
24_T	95_Q	1.478	1.00
8_R	50_T	1.456	1.00
140_V	199_A	1.456	1.00
203_L	207_R	1.453	1.00
192_A	196_D	1.445	1.00
152_R	157_L	1.420	1.00
141_K	145_L	1.416	1.00
186_K	189_D	1.412	1.00
144_L	195_L	1.409	1.00
22_P	44_H	1.401	1.00
156_G	251_S	1.400	1.00
178_Q	204_E	1.398	1.00
139_V	142_E	1.387	1.00
58_H	64_T	1.371	1.00
51_R	129_D	1.369	1.00
167_L	175_I	1.368	1.00
137_P	140_V	1.356	1.00
208_F	227_R	1.352	1.00
173_V	256_Y	1.342	1.00
8_R	12_D	1.340	1.00
64_T	114_P	1.328	1.00
144_L	154_F	1.312	1.00
136_T	139_V	1.288	1.00
138_E	192_A	1.286	1.00
180_G	240_R	1.264	1.00
63_L	111_M	1.263	1.00
234_D	247_K	1.256	1.00
128_P	132_D	1.227	1.00
207_R	211_A	1.225	1.00
182_T	257_W	1.213	1.00
45_V	59_F	1.208	1.00
88_R	101_I	1.204	1.00
19_K	47_H	1.191	1.00
234_D	256_Y	1.165	1.00
175_I	198_L	1.145	1.00
52_G	161_Q	1.142	1.00
44_H	60_S	1.141	1.00
37_Q	41_I	1.140	1.00
208_F	211_A	1.138	1.00
29_A	91_R	1.123	1.00
155_A	172_R	1.120	1.00
246_E	257_W	1.120	1.00
8_R	11_A	1.117	1.00
138_E	142_E	1.113	1.00
147_P	157_L	1.111	1.00
35_P	39_Q	1.107	1.00
212_T	227_R	1.102	1.00
45_V	57_T	1.101	1.00
197_A	201_A	1.101	1.00
43_Q	62_D	1.092	1.00
164_L	167_L	1.089	1.00
258_C	261_C	1.089	1.00
152_R	156_G	1.078	1.00
200_H	204_E	1.072	1.00
158_L	202_L	1.059	1.00
238_C	258_C	1.046	1.00
217_D	221_H	1.046	1.00
179_V	197_A	1.042	1.00
137_P	141_K	1.041	1.00
199_A	203_L	1.040	1.00
100_T	109_I	1.034	1.00
130_V	135_L	1.034	1.00
79_D	82_E	1.030	1.00
66_Y	112_L	1.025	1.00
135_L	164_L	1.024	1.00
220_K	223_G	1.005	1.00
250_L	255_F	1.004	1.00
26_V	40_L	0.999	1.00
177_W	229_K	0.996	1.00
36_Y	109_I	0.994	1.00
63_L	113_T	0.990	1.00
43_Q	63_L	0.984	1.00
146_S	188_K	0.984	1.00
238_C	241_C	0.972	1.00
54_A	66_Y	0.964	1.00
238_C	261_C	0.962	1.00
22_P	95_Q	0.960	1.00
46_T	58_H	0.960	1.00
126_V	165_A	0.958	1.00
181_L	198_L	0.950	1.00
84_P	91_R	0.945	1.00
190_L	195_L	0.944	1.00
241_C	258_C	0.940	1.00
89_V	105_S	0.937	1.00
27_W	91_R	0.933	1.00
59_F	65_L	0.917	1.00
143_R	163_F	0.901	0.99
196_D	200_H	0.898	0.99
172_R	255_F	0.888	0.99
153_Q	184_N	0.888	0.99
141_K	144_L	0.887	0.99
40_L	59_F	0.886	0.99
75_W	100_T	0.886	0.99
15_E	48_V	0.879	0.99
34_K	37_Q	0.876	0.99
18_I	45_V	0.862	0.99
138_E	196_D	0.859	0.99
67_S	100_T	0.856	0.99
65_L	92_V	0.855	0.99
221_H	224_A	0.852	0.99
237_P	243_S	0.846	0.99
91_R	99_K	0.844	0.99
191_N	195_L	0.838	0.99
96_T	99_K	0.837	0.99
193_A	197_A	0.835	0.99
145_L	195_L	0.834	0.99
184_N	250_L	0.832	0.99
11_A	48_V	0.832	0.99
88_R	91_R	0.831	0.99
95_Q	98_D	0.822	0.99
57_T	65_L	0.819	0.99
141_K	196_D	0.816	0.99
237_P	244_I	0.814	0.99
177_W	239_E	0.812	0.99
167_L	206_P	0.810	0.99
72_Y	107_S	0.804	0.99
23_L	92_V	0.803	0.99
74_V	103_L	0.802	0.99
13_N	213_R	0.801	0.99
121_P	124_Q	0.798	0.99
72_Y	103_L	0.795	0.99
66_Y	123_L	0.790	0.99
159_L	173_V	0.784	0.99
12_D	15_E	0.783	0.99
230_V	233_R	0.772	0.98
154_F	187_A	0.768	0.98
204_E	208_F	0.765	0.98
57_T	67_S	0.764	0.98
51_R	56_L	0.763	0.98
159_L	253_R	0.763	0.98
92_V	109_I	0.760	0.98
153_Q	186_K	0.759	0.98
45_V	94_L	0.755	0.98
18_I	57_T	0.755	0.98
216_V	220_K	0.751	0.98
6_E	214_G	0.750	0.98
218_E	221_H	0.749	0.98
170_Y	231_F	0.748	0.98
23_L	94_L	0.746	0.98
62_D	114_P	0.746	0.98
38_S	41_I	0.741	0.98
247_K	256_Y	0.741	0.98
18_I	94_L	0.739	0.98
19_K	22_P	0.739	0.98
23_L	45_V	0.737	0.98
35_P	38_S	0.735	0.98
131_L	203_L	0.733	0.98
100_T	107_S	0.729	0.98
103_L	106_A	0.729	0.98
133_P	203_L	0.727	0.98
147_P	187_A	0.726	0.98
241_C	261_C	0.725	0.98
147_P	163_F	0.725	0.98
243_S	246_E	0.724	0.98
58_H	114_P	0.722	0.98
110_E	122_F	0.721	0.98
218_E	222_H	0.720	0.98
208_F	229_K	0.718	0.97
102_L	106_A	0.715	0.97
175_I	179_V	0.715	0.97
26_V	36_Y	0.714	0.97
220_K	224_A	0.714	0.97
30_F	33_L	0.713	0.97
28_F	90_L	0.713	0.97
29_A	89_V	0.710	0.97
156_G	250_L	0.709	0.97
154_F	176_L	0.708	0.97
25_D	37_Q	0.706	0.97
189_D	194_Q	0.706	0.97
9_R	210_Y	0.705	0.97
116_Q	119_T	0.701	0.97
137_P	195_L	0.699	0.97
154_F	195_L	0.696	0.97
132_D	203_L	0.696	0.97
170_Y	175_I	0.694	0.97
249_T	252_S	0.690	0.97
140_V	144_L	0.690	0.97
222_H	225_L	0.689	0.97
208_F	212_T	0.689	0.97
192_A	195_L	0.684	0.97
4_G	8_R	0.684	0.97
21_K	94_L	0.682	0.97
43_Q	46_T	0.680	0.97
12_D	211_A	0.678	0.96
65_L	109_I	0.677	0.96
132_D	135_L	0.674	0.96
33_L	105_S	0.673	0.96
151_N	186_K	0.673	0.96
131_L	207_R	0.672	0.96
173_V	250_L	0.670	0.96
249_T	254_P	0.666	0.96
6_E	170_Y	0.666	0.96
102_L	107_S	0.665	0.96
170_Y	215_Q	0.663	0.96
153_Q	251_S	0.663	0.96
17_A	77_V	0.659	0.96
195_L	199_A	0.656	0.96
8_R	210_Y	0.655	0.96
112_L	122_F	0.655	0.96
143_R	146_S	0.654	0.96
220_K	225_L	0.652	0.96
197_A	200_H	0.649	0.95
120_H	123_L	0.648	0.95
36_Y	65_L	0.647	0.95
108_D	122_F	0.647	0.95
94_L	98_D	0.645	0.95
158_L	167_L	0.641	0.95
100_T	104_Y	0.638	0.95
171_L	206_P	0.636	0.95
32_Q	105_S	0.636	0.95
228_F	232_H	0.635	0.95
57_T	75_W	0.632	0.95
177_W	180_G	0.632	0.95
4_G	206_P	0.630	0.95
212_T	226_F	0.628	0.95
13_N	218_E	0.627	0.95
189_D	246_E	0.627	0.95
235_G	244_I	0.625	0.94
39_Q	113_T	0.618	0.94
160_D	163_F	0.618	0.94
153_Q	183_G	0.617	0.94
127_G	165_A	0.611	0.94
40_L	65_L	0.609	0.94
184_N	246_E	0.609	0.94
232_H	256_Y	0.604	0.93
219_N	224_A	0.604	0.93
248_T	254_P	0.603	0.93
49_E	64_T	0.603	0.93
135_L	199_A	0.603	0.93
14_L	48_V	0.601	0.93
70_Q	108_D	0.599	0.93
53_K	73_G	0.598	0.93
86_T	89_V	0.596	0.93
36_Y	111_M	0.595	0.93
26_V	92_V	0.595	0.93
182_T	185_H	0.594	0.93
136_T	199_A	0.593	0.93
4_G	9_R	0.591	0.93
214_G	223_G	0.588	0.92
155_A	173_V	0.587	0.92
181_L	194_Q	0.585	0.92
100_T	106_A	0.585	0.92
217_D	222_H	0.584	0.92
104_Y	107_S	0.582	0.92
59_F	63_L	0.578	0.92
6_E	107_S	0.576	0.92
77_V	98_D	0.574	0.92
176_L	187_A	0.572	0.91
72_Y	100_T	0.571	0.91
85_Q	88_R	0.571	0.91
14_L	75_W	0.568	0.91
234_D	246_E	0.565	0.91
128_P	165_A	0.565	0.91
67_S	92_V	0.564	0.91
171_L	209_S	0.564	0.91
228_F	231_F	0.563	0.91
13_N	77_V	0.562	0.91
70_Q	106_A	0.562	0.91
214_G	220_K	0.560	0.91
48_V	58_H	0.559	0.90
4_G	50_T	0.559	0.90
128_P	164_L	0.557	0.90
78_V	85_Q	0.557	0.90
234_D	244_I	0.557	0.90
244_I	259_P	0.555	0.90
45_V	48_V	0.553	0.90
51_R	123_L	0.549	0.90
74_V	101_I	0.549	0.90
144_L	187_A	0.549	0.90
78_V	84_P	0.546	0.89
185_H	191_N	0.546	0.89
70_Q	104_Y	0.544	0.89
142_E	146_S	0.542	0.89
128_P	143_R	0.542	0.89
7_I	104_Y	0.541	0.89
18_I	77_V	0.541	0.89
54_A	110_E	0.540	0.89
193_A	196_D	0.539	0.89
7_I	71_L	0.538	0.89
52_G	101_I	0.538	0.89
199_A	202_L	0.537	0.89
43_Q	114_P	0.537	0.89
180_G	197_A	0.536	0.89
52_G	165_A	0.535	0.88
131_L	206_P	0.533	0.88
145_L	192_A	0.533	0.88
229_K	240_R	0.532	0.88
78_V	82_E	0.531	0.88
71_L	106_A	0.530	0.88
172_R	250_L	0.528	0.88
177_W	241_C	0.527	0.88
30_F	70_Q	0.527	0.88
205_I	209_S	0.522	0.87
250_L	254_P	0.520	0.87
222_H	226_F	0.520	0.87
223_G	228_F	0.519	0.87
14_L	57_T	0.518	0.87
75_W	92_V	0.518	0.87
143_R	147_P	0.517	0.87
240_R	244_I	0.515	0.87
218_E	224_A	0.515	0.87
53_K	68_H	0.514	0.86
140_V	195_L	0.511	0.86
68_H	73_G	0.510	0.86
138_E	141_K	0.510	0.86
147_P	151_N	0.509	0.86
52_G	129_D	0.509	0.86
87_T	96_T	0.505	0.85
143_R	164_L	0.505	0.85
50_T	129_D	0.504	0.85
71_L	87_T	0.504	0.85
143_R	157_L	0.503	0.85
236_E	244_I	0.502	0.85
112_L	119_T	0.502	0.85
156_G	252_S	0.502	0.85
14_L	77_V	0.501	0.85
9_R	12_D	0.500	0.85
36_Y	67_S	0.500	0.85

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
3u6pA	1	0.924	100	0.073	Contact Map
4pd2A	1	0.9848	100	0.073	Contact Map
1k82A	1	0.9544	100	0.074	Contact Map
3twlA	1	0.9202	100	0.089	Contact Map
1k3xA	1	0.9544	100	0.1	Contact Map
1ee8A	2	0.9658	100	0.129	Contact Map
3vk8A	1	0.9316	100	0.13	Contact Map
4mb7A	2	0.9202	100	0.167	Contact Map
3w0fA	1	0.9278	100	0.22	Contact Map
1tdhA	1	0.8517	100	0.235	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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