END4 - HALSA - GREMLIN Contacts

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END4 - Probable endonuclease 4

UniProt:	Q9HSK7	Sequences: MRVGAHVSIAGGVDNAVTNELDVGGNCGQIFTHSPQVWQDPNIGADEAAAFREGTAADLDGPWVIHSSYLVNLCTPKDDLRAKSIDSMQAEVDAAHTLGIPYVNVHLGAHTGAGVDDGLDNAASALDELDIPDDVTVLIESDAGSGTKLGGDFEHLHEVLTRSDQDLDVCIDTAHAFAAGYDLSTEAAVNDTLAAFDDVVGLDHLQYVHLNDSKHACGTNKDEHAHIGEGHIGEAGMRAFINHDAIADVPLVLETPHEDGRGFAWNIDRVRDLRA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	275 (268)
Sequences:	2262 (1461)
Seq/√Len:	89.2

ECOLI - END4
BACSU - END4
HALSA - END4
SULSO - Q7LX49

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
214_K	225_A	4.034	1.00
123_A	162_R	3.954	1.00
216_A	231_H	2.993	1.00
110_H	114_G	2.735	1.00
53_E	57_A	2.730	1.00
186_E	191_D	2.685	1.00
82_A	86_D	2.643	1.00
157_H	161_T	2.636	1.00
20_E	25_G	2.562	1.00
141_S	176_A	2.558	1.00
77_K	80_L	2.550	1.00
136_T	206_Q	2.541	1.00
171_I	176_A	2.526	1.00
26_N	271_R	2.482	1.00
194_A	198_D	2.475	1.00
212_D	228_G	2.352	1.00
119_L	158_E	2.225	1.00
154_E	199_V	2.164	1.00
189_V	243_H	2.127	1.00
81_R	125_A	2.116	1.00
115_V	155_H	2.089	1.00
96_H	134_D	2.081	1.00
116_D	158_E	2.064	1.00
151_G	155_H	2.012	1.00
158_E	162_R	1.962	1.00
64_V	252_V	1.943	1.00
177_F	231_H	1.932	1.00
182_D	185_T	1.927	1.00
234_E	269_R	1.918	1.00
208_V	251_L	1.896	1.00
263_F	266_N	1.887	1.00
17_V	54_G	1.885	1.00
127_D	164_D	1.872	1.00
21_L	58_D	1.872	1.00
196_F	205_L	1.856	1.00
215_H	221_K	1.848	1.00
95_A	100_I	1.845	1.00
232_I	236_G	1.832	1.00
120_D	162_R	1.799	1.00
81_R	121_N	1.748	1.00
14_D	47_E	1.735	1.00
115_V	151_G	1.732	1.00
20_E	28_G	1.724	1.00
85_I	128_E	1.690	1.00
225_A	229_E	1.689	1.00
153_F	192_T	1.680	1.00
195_A	199_V	1.675	1.00
114_G	117_D	1.670	1.00
169_V	196_F	1.649	1.00
73_L	125_A	1.645	1.00
195_A	198_D	1.627	1.00
235_A	238_R	1.605	1.00
74_C	118_G	1.590	1.00
52_R	99_G	1.586	1.00
160_L	167_L	1.571	1.00
154_E	195_A	1.553	1.00
189_V	193_L	1.551	1.00
29_Q	252_V	1.541	1.00
109_A	147_T	1.491	1.00
237_M	240_F	1.488	1.00
75_T	80_L	1.464	0.99
193_L	246_I	1.464	0.99
47_E	50_A	1.462	0.99
15_N	19_N	1.461	0.99
64_V	207_Y	1.460	0.99
119_L	149_L	1.447	0.99
177_F	217_C	1.440	0.99
18_T	54_G	1.390	0.99
102_Y	206_Q	1.389	0.99
49_A	53_E	1.388	0.99
109_A	148_K	1.383	0.99
264_A	268_D	1.369	0.99
3_V	267_I	1.368	0.99
139_I	156_L	1.355	0.99
2_R	62_P	1.352	0.99
190_N	194_A	1.349	0.99
152_D	155_H	1.343	0.99
269_R	272_D	1.336	0.99
163_S	167_L	1.334	0.99
160_L	204_H	1.332	0.99
45_A	49_A	1.324	0.99
178_A	215_H	1.322	0.99
167_L	204_H	1.314	0.99
81_R	85_I	1.304	0.99
244_D	247_A	1.259	0.98
127_D	163_S	1.253	0.98
156_L	169_V	1.252	0.98
88_M	105_V	1.239	0.98
263_F	267_I	1.228	0.98
79_D	83_K	1.225	0.98
160_L	169_V	1.218	0.98
34_S	37_V	1.212	0.98
189_V	239_A	1.210	0.98
268_D	272_D	1.207	0.98
95_A	103_V	1.195	0.98
21_L	54_G	1.184	0.98
86_D	90_A	1.176	0.98
43_I	48_A	1.163	0.97
110_H	118_G	1.161	0.97
110_H	115_V	1.159	0.97
152_D	195_A	1.159	0.97
176_A	183_L	1.151	0.97
14_D	50_A	1.149	0.97
52_R	56_A	1.148	0.97
158_E	161_T	1.147	0.97
126_L	137_V	1.147	0.97
54_G	57_A	1.136	0.97
78_D	82_A	1.136	0.97
242_N	272_D	1.134	0.97
120_D	158_E	1.134	0.97
45_A	97_T	1.132	0.97
17_V	28_G	1.128	0.97
81_R	124_S	1.125	0.97
219_T	231_H	1.117	0.97
17_V	21_L	1.113	0.97
9_I	30_I	1.112	0.97
114_G	118_G	1.110	0.96
65_I	95_A	1.109	0.96
65_I	100_I	1.106	0.96
14_D	54_G	1.083	0.96
19_N	22_D	1.082	0.96
104_N	170_C	1.077	0.96
133_D	166_D	1.065	0.96
54_G	58_D	1.060	0.95
229_E	265_W	1.055	0.95
64_V	104_N	1.052	0.95
186_E	192_T	1.051	0.95
121_N	124_S	1.045	0.95
117_D	120_D	1.039	0.95
51_F	55_T	1.035	0.95
33_H	40_D	1.030	0.95
153_F	196_F	1.022	0.94
13_V	98_L	1.010	0.94
88_M	129_L	1.009	0.94
120_D	124_S	1.009	0.94
259_D	262_G	1.005	0.94
2_R	26_N	1.003	0.94
191_D	195_A	1.002	0.94
32_T	65_I	0.996	0.94
213_S	231_H	0.992	0.94
265_W	268_D	0.992	0.94
55_T	63_W	0.987	0.93
27_C	62_P	0.987	0.93
177_F	232_I	0.972	0.93
212_D	233_G	0.971	0.93
92_V	103_V	0.971	0.93
25_G	267_I	0.970	0.93
119_L	162_R	0.969	0.93
35_P	68_S	0.968	0.93
117_D	121_N	0.964	0.93
31_F	69_Y	0.963	0.92
90_A	93_D	0.961	0.92
226_H	266_N	0.958	0.92
177_F	184_S	0.958	0.92
169_V	200_V	0.958	0.92
85_I	125_A	0.955	0.92
246_I	251_L	0.949	0.92
50_A	54_G	0.949	0.92
14_D	18_T	0.944	0.92
49_A	56_A	0.943	0.92
50_A	53_E	0.942	0.92
33_H	68_S	0.940	0.92
154_E	157_H	0.935	0.91
38_W	83_K	0.935	0.91
67_S	105_V	0.927	0.91
41_P	44_G	0.926	0.91
184_S	217_C	0.920	0.91
19_N	23_V	0.908	0.90
205_L	246_I	0.905	0.90
168_D	206_Q	0.895	0.89
3_V	241_I	0.886	0.89
110_H	147_T	0.885	0.89
193_L	243_H	0.867	0.88
11_G	19_N	0.862	0.88
177_F	219_T	0.861	0.88
89_Q	93_D	0.859	0.87
227_I	241_I	0.859	0.87
227_I	270_V	0.859	0.87
119_L	159_V	0.853	0.87
153_F	181_Y	0.852	0.87
73_L	88_M	0.851	0.87
102_Y	168_D	0.850	0.87
27_C	252_V	0.842	0.86
48_A	52_R	0.841	0.86
38_W	70_L	0.840	0.86
118_G	149_L	0.837	0.86
32_T	94_A	0.836	0.86
80_L	83_K	0.835	0.86
138_L	168_D	0.833	0.86
226_H	257_H	0.829	0.86
189_V	236_G	0.827	0.85
238_R	270_V	0.826	0.85
92_V	135_V	0.823	0.85
71_V	87_S	0.822	0.85
237_M	270_V	0.822	0.85
33_H	87_S	0.820	0.85
122_A	159_V	0.819	0.85
2_R	60_D	0.809	0.84
212_D	230_G	0.809	0.84
2_R	59_L	0.802	0.84
234_E	238_R	0.801	0.83
67_S	88_M	0.799	0.83
91_E	103_V	0.795	0.83
7_V	16_A	0.794	0.83
102_Y	138_L	0.793	0.83
257_H	263_F	0.792	0.83
30_I	98_L	0.787	0.82
207_Y	252_V	0.785	0.82
76_P	111_T	0.784	0.82
138_L	207_Y	0.780	0.82
196_F	200_V	0.773	0.81
102_Y	136_T	0.772	0.81
93_D	96_H	0.771	0.81
116_D	120_D	0.770	0.81
48_A	97_T	0.769	0.81
226_H	256_P	0.767	0.81
226_H	263_F	0.767	0.81
216_A	219_T	0.767	0.81
240_F	246_I	0.765	0.81
96_H	133_D	0.765	0.81
96_H	135_V	0.765	0.81
226_H	229_E	0.762	0.80
196_F	201_G	0.762	0.80
67_S	103_V	0.760	0.80
197_D	200_V	0.759	0.80
118_G	121_N	0.758	0.80
210_L	240_F	0.758	0.80
44_G	47_E	0.757	0.80
153_F	199_V	0.756	0.80
96_H	132_P	0.755	0.80
78_D	121_N	0.752	0.79
126_L	167_L	0.752	0.79
13_V	16_A	0.751	0.79
53_E	56_A	0.751	0.79
190_N	243_H	0.748	0.79
194_A	245_A	0.747	0.79
197_D	202_L	0.742	0.79
151_G	220_N	0.737	0.78
157_H	199_V	0.736	0.78
37_V	68_S	0.736	0.78
234_E	272_D	0.735	0.78
20_E	23_V	0.730	0.77
2_R	61_G	0.729	0.77
146_G	220_N	0.728	0.77
51_F	54_G	0.727	0.77
184_S	231_H	0.726	0.77
143_A	178_A	0.725	0.77
208_V	240_F	0.719	0.76
155_H	200_V	0.719	0.76
46_D	50_A	0.716	0.76
74_C	122_A	0.715	0.76
81_R	128_E	0.714	0.76
202_L	205_L	0.712	0.76
28_G	55_T	0.710	0.75
228_G	233_G	0.707	0.75
115_V	152_D	0.707	0.75
145_S	148_K	0.705	0.75
7_V	19_N	0.701	0.75
124_S	128_E	0.700	0.74
74_C	226_H	0.697	0.74
5_A	23_V	0.693	0.74
157_H	160_L	0.693	0.74
89_Q	129_L	0.691	0.73
156_L	160_L	0.687	0.73
68_S	87_S	0.687	0.73
38_W	84_S	0.686	0.73
17_V	63_W	0.681	0.72
74_C	121_N	0.680	0.72
171_I	192_T	0.679	0.72
9_I	16_A	0.679	0.72
76_P	113_A	0.678	0.72
142_D	148_K	0.677	0.72
186_E	190_N	0.677	0.72
33_H	37_V	0.671	0.71
236_G	240_F	0.667	0.71
73_L	84_S	0.666	0.71
267_I	271_R	0.666	0.71
178_A	217_C	0.666	0.71
21_L	26_N	0.665	0.71
210_L	241_I	0.663	0.70
171_I	208_V	0.661	0.70
119_L	155_H	0.661	0.70
67_S	71_V	0.660	0.70
122_A	142_D	0.659	0.70
18_T	22_D	0.657	0.70
121_N	125_A	0.657	0.70
176_A	179_A	0.657	0.70
61_G	101_P	0.654	0.69
225_A	256_P	0.654	0.69
107_L	142_D	0.648	0.69
151_G	179_A	0.646	0.68
7_V	20_E	0.645	0.68
238_R	242_N	0.645	0.68
186_E	239_A	0.645	0.68
171_I	246_I	0.644	0.68
227_I	237_M	0.644	0.68
5_A	25_G	0.642	0.68
155_H	158_E	0.642	0.68
189_V	246_I	0.641	0.68
23_V	263_F	0.638	0.67
13_V	30_I	0.636	0.67
62_P	101_P	0.632	0.67
33_H	90_A	0.631	0.67
7_V	28_G	0.626	0.66
177_F	237_M	0.624	0.66
208_V	245_A	0.622	0.65
145_S	221_K	0.619	0.65
181_Y	195_A	0.618	0.65
183_L	189_V	0.617	0.65
75_T	121_N	0.616	0.65
7_V	23_V	0.616	0.65
55_T	60_D	0.614	0.64
152_D	179_A	0.614	0.64
184_S	236_G	0.611	0.64
205_L	208_V	0.610	0.64
159_V	163_S	0.609	0.64
258_E	261_R	0.608	0.64
184_S	189_V	0.604	0.63
41_P	47_E	0.604	0.63
232_I	237_M	0.602	0.63
238_R	269_R	0.598	0.62
29_Q	64_V	0.596	0.62
64_V	138_L	0.595	0.62
236_G	239_A	0.591	0.62
130_D	133_D	0.591	0.62
10_A	15_N	0.591	0.62
64_V	102_Y	0.590	0.61
21_L	60_D	0.588	0.61
104_N	207_Y	0.588	0.61
103_V	135_V	0.586	0.61
237_M	251_L	0.586	0.61
86_D	93_D	0.586	0.61
25_G	266_N	0.584	0.61
111_T	147_T	0.583	0.61
136_T	168_D	0.582	0.60
45_A	48_A	0.579	0.60
90_A	94_A	0.579	0.60
177_F	236_G	0.574	0.59
238_R	272_D	0.573	0.59
89_Q	130_D	0.571	0.59
57_A	198_D	0.571	0.59
146_G	221_K	0.570	0.59
266_N	269_R	0.570	0.59
7_V	263_F	0.570	0.59
132_P	166_D	0.570	0.59
92_V	137_V	0.569	0.59
73_L	156_L	0.568	0.59
15_N	18_T	0.566	0.58
179_A	218_G	0.565	0.58
30_I	100_I	0.560	0.57
150_G	155_H	0.560	0.57
113_A	121_N	0.558	0.57
70_L	84_S	0.558	0.57
227_I	236_G	0.558	0.57
85_I	129_L	0.557	0.57
68_S	145_S	0.555	0.57
243_H	246_I	0.553	0.57
66_H	106_H	0.552	0.56
184_S	239_A	0.549	0.56
161_T	199_V	0.548	0.56
153_F	197_D	0.547	0.56
193_L	208_V	0.546	0.56
38_W	87_S	0.542	0.55
25_G	226_H	0.539	0.55
256_P	259_D	0.539	0.55
66_H	175_H	0.536	0.54
96_H	136_T	0.536	0.54
116_D	162_R	0.535	0.54
9_I	13_V	0.535	0.54
92_V	147_T	0.534	0.54
82_A	198_D	0.533	0.54
137_V	167_L	0.531	0.54
73_L	143_A	0.531	0.54
115_V	158_E	0.531	0.54
53_E	203_D	0.531	0.54
37_V	148_K	0.530	0.53
216_A	221_K	0.529	0.53
37_V	40_D	0.529	0.53
215_H	231_H	0.527	0.53
93_D	130_D	0.525	0.53
186_E	194_A	0.524	0.53
106_H	175_H	0.522	0.52
240_F	251_L	0.521	0.52
227_I	253_L	0.519	0.52
17_V	51_F	0.516	0.51
39_Q	86_D	0.515	0.51
70_L	83_K	0.514	0.51
81_R	113_A	0.512	0.51
127_D	165_Q	0.512	0.51
112_G	117_D	0.511	0.51
51_F	63_W	0.510	0.51
55_T	58_D	0.509	0.51
233_G	236_G	0.508	0.50
184_S	216_A	0.508	0.50
222_D	230_G	0.508	0.50
202_L	245_A	0.507	0.50
123_A	158_E	0.507	0.50
8_S	12_G	0.506	0.50
185_T	191_D	0.505	0.50
150_G	156_L	0.504	0.50
225_A	231_H	0.501	0.49
257_H	262_G	0.500	0.49

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
3tc3A	1	0.8909	100	0.542	Contact Map
1qtwA	1	0.9927	100	0.549	Contact Map
4hnoA	1	0.9964	100	0.551	Contact Map
3aalA	1	0.9927	100	0.56	Contact Map
3aamA	1	0.9636	100	0.573	Contact Map
3ayvA	2	0.8436	100	0.664	Contact Map
3wqoA	2	0.92	100	0.666	Contact Map
2j6vA	1	0.8545	100	0.681	Contact Map
3p14A	2	0.92	100	0.684	Contact Map
2zvrA	2	0.8945	100	0.685	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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