XNI - ECOLI - GREMLIN Contacts

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XNI - Flap endonuclease Xni

UniProt:	P38506	Sequences: MAVHLLIVDALNLIRRIHAVQGSPCVETCQHALDQLIMHSQPTHAVAVFDDENRSSGWRHQRLPDYKAGRPPMPEELHDEMPALRAAFEQRGVPCWSTSGNEADDLAATLAVKVTQAGHQATIVSTDKGYCQLLSPTLRIRDYFQKRWLDAPFIDKEFGVQPQQLPDYWGLAGISSSKVPGVAGIGPKSATQLLVEFQSLEGIYENLDAVAEKWRKKLETHKEMAFLCRDIARLQTDLHIDGNLQQLRLVR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12372
Length:	251 (242)
Sequences:	4422 (2675)
Seq/√Len:	171.9

ECOLI - XNI DPO1
BACSU - DPO1 EX53

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
206_N	209_A	4.312	1.00
150_D	153_F	3.916	1.00
108_A	234_L	3.125	1.00
216_K	220_T	3.027	1.00
221_H	224_M	2.937	1.00
62_R	230_D	2.854	1.00
183_A	221_H	2.792	1.00
222_K	226_F	2.767	1.00
115_T	135_S	2.683	1.00
161_Q	164_Q	2.587	1.00
85_R	97_S	2.425	1.00
89_E	95_C	2.396	1.00
215_R	219_E	2.392	1.00
4_H	120_Q	2.362	1.00
204_Y	226_F	2.357	1.00
155_D	161_Q	2.253	1.00
213_K	216_K	2.163	1.00
213_K	217_K	2.138	1.00
204_Y	222_K	2.110	1.00
199_S	202_G	2.103	1.00
112_V	236_T	1.995	1.00
10_A	47_A	1.989	1.00
201_E	226_F	1.972	1.00
202_G	205_E	1.963	1.00
136_P	151_A	1.942	1.00
243_N	246_Q	1.941	1.00
30_Q	87_A	1.877	1.00
35_Q	39_H	1.858	1.00
168_Y	194_L	1.856	1.00
151_A	163_Q	1.837	1.00
107_A	123_I	1.796	1.00
73_M	78_H	1.741	1.00
202_G	206_N	1.722	1.00
179_V	232_A	1.717	1.00
152_P	156_K	1.715	1.00
204_Y	207_L	1.709	1.00
201_E	229_R	1.699	1.00
212_E	215_R	1.694	1.00
185_I	214_W	1.665	1.00
86_A	89_E	1.655	1.00
182_V	225_A	1.653	1.00
56_S	61_Q	1.638	1.00
168_Y	172_A	1.628	1.00
207_L	219_E	1.608	1.00
230_D	235_Q	1.583	1.00
53_N	99_S	1.536	1.00
152_P	155_D	1.528	1.00
51_D	99_S	1.496	1.00
182_V	218_L	1.495	1.00
192_Q	196_E	1.463	1.00
4_H	122_T	1.448	1.00
120_Q	137_T	1.438	1.00
112_V	116_Q	1.436	1.00
184_G	217_K	1.420	1.00
111_A	138_L	1.411	1.00
134_L	154_I	1.411	1.00
196_E	209_A	1.410	1.00
160_V	191_T	1.402	1.00
125_S	130_Y	1.399	1.00
53_N	56_S	1.384	1.00
167_D	229_R	1.381	1.00
36_L	124_V	1.363	1.00
131_C	140_I	1.357	1.00
153_F	156_K	1.357	1.00
229_R	233_R	1.355	1.00
44_H	119_H	1.351	1.00
172_A	187_P	1.349	1.00
151_A	155_D	1.345	1.00
210_V	218_L	1.336	1.00
17_I	76_E	1.334	1.00
108_A	236_T	1.328	1.00
75_E	78_H	1.324	1.00
166_P	233_R	1.318	1.00
14_I	84_L	1.314	1.00
61_Q	100_G	1.312	1.00
204_Y	218_L	1.301	1.00
115_T	138_L	1.292	1.00
139_R	148_W	1.286	1.00
191_T	195_V	1.277	1.00
16_R	32_A	1.272	1.00
48_V	106_L	1.255	1.00
6_L	124_V	1.244	1.00
101_N	235_Q	1.232	1.00
207_L	215_R	1.220	1.00
69_G	178_K	1.215	1.00
57_G	60_H	1.212	1.00
63_L	231_I	1.212	1.00
201_E	205_E	1.199	1.00
56_S	60_H	1.193	1.00
170_G	232_A	1.191	1.00
197_F	210_V	1.177	1.00
75_E	79_D	1.174	1.00
62_R	227_L	1.168	1.00
21_Q	24_P	1.154	1.00
134_L	140_I	1.154	1.00
217_K	220_T	1.145	1.00
179_V	228_C	1.138	1.00
212_E	216_K	1.136	1.00
98_T	106_L	1.128	1.00
128_K	169_W	1.127	1.00
193_L	203_I	1.125	1.00
197_F	206_N	1.124	1.00
164_Q	198_Q	1.123	1.00
183_A	224_M	1.119	1.00
171_L	189_S	1.118	1.00
109_T	238_L	1.118	1.00
111_A	121_A	1.110	1.00
33_L	93_V	1.104	1.00
49_F	95_C	1.095	1.00
204_Y	225_A	1.093	1.00
114_V	121_A	1.092	1.00
154_I	160_V	1.077	1.00
216_K	219_E	1.075	1.00
115_T	137_T	1.074	1.00
113_K	117_A	1.074	1.00
235_Q	238_L	1.072	1.00
101_N	238_L	1.071	1.00
197_F	209_A	1.051	0.99
149_L	153_F	1.034	0.99
147_R	157_E	1.032	0.99
120_Q	139_R	1.030	0.99
5_L	114_V	1.024	0.99
51_D	97_S	1.018	0.99
46_V	247_L	1.017	0.99
6_L	36_L	1.012	0.99
168_Y	187_P	1.010	0.99
159_G	195_V	0.990	0.99
52_E	56_S	0.986	0.99
25_C	80_E	0.982	0.99
217_K	221_H	0.980	0.99
82_P	86_A	0.979	0.99
27_E	31_H	0.961	0.99
101_N	239_H	0.961	0.99
6_L	45_A	0.954	0.99
187_P	191_T	0.951	0.99
14_I	77_L	0.949	0.99
18_H	71_P	0.947	0.99
147_R	153_F	0.934	0.99
121_A	138_L	0.930	0.99
107_A	130_Y	0.923	0.99
112_V	115_T	0.921	0.99
30_Q	84_L	0.920	0.99
29_C	88_F	0.917	0.99
112_V	135_S	0.908	0.99
30_Q	34_D	0.907	0.98
40_S	148_W	0.904	0.98
153_F	157_E	0.900	0.98
5_L	247_L	0.897	0.98
198_Q	202_G	0.895	0.98
8_V	47_A	0.894	0.98
18_H	74_P	0.893	0.98
155_D	195_V	0.889	0.98
53_N	60_H	0.887	0.98
26_V	83_A	0.885	0.98
207_L	218_L	0.883	0.98
26_V	84_L	0.883	0.98
168_Y	191_T	0.881	0.98
83_A	86_A	0.878	0.98
130_Y	234_L	0.876	0.98
160_V	164_Q	0.876	0.98
242_G	247_L	0.874	0.98
51_D	56_S	0.871	0.98
5_L	119_H	0.866	0.98
219_E	222_K	0.866	0.98
180_P	228_C	0.865	0.98
131_C	149_L	0.862	0.98
228_C	232_A	0.860	0.98
76_E	79_D	0.859	0.98
166_P	232_A	0.858	0.98
224_M	227_L	0.853	0.98
114_V	118_G	0.851	0.98
170_G	225_A	0.851	0.98
200_L	225_A	0.849	0.98
122_T	141_R	0.843	0.98
96_W	247_L	0.843	0.98
63_L	180_P	0.842	0.98
40_S	122_T	0.835	0.97
25_C	84_L	0.834	0.97
6_L	122_T	0.832	0.97
226_F	229_R	0.828	0.97
63_L	227_L	0.823	0.97
141_R	148_W	0.822	0.97
117_A	245_Q	0.821	0.97
114_V	119_H	0.813	0.97
185_I	193_L	0.813	0.97
68_A	178_K	0.811	0.97
164_Q	194_L	0.803	0.97
131_C	142_D	0.803	0.97
131_C	134_L	0.800	0.97
192_Q	214_W	0.793	0.97
81_M	85_R	0.790	0.96
160_V	168_Y	0.785	0.96
4_H	40_S	0.784	0.96
185_I	189_S	0.783	0.96
29_C	84_L	0.783	0.96
6_L	40_S	0.783	0.96
151_A	161_Q	0.782	0.96
47_A	88_F	0.779	0.96
196_E	211_A	0.778	0.96
5_L	121_A	0.769	0.96
171_L	218_L	0.769	0.96
233_R	236_T	0.767	0.96
223_E	226_F	0.766	0.96
189_S	214_W	0.763	0.96
154_I	165_L	0.762	0.96
170_G	228_C	0.760	0.96
210_V	215_R	0.759	0.96
210_V	214_W	0.759	0.96
160_V	165_L	0.758	0.95
7_I	110_L	0.751	0.95
193_L	214_W	0.747	0.95
149_L	157_E	0.746	0.95
222_K	225_A	0.745	0.95
40_S	141_R	0.743	0.95
203_I	210_V	0.741	0.95
189_S	192_Q	0.739	0.95
8_V	13_L	0.738	0.95
225_A	228_C	0.732	0.95
34_D	91_R	0.729	0.94
207_L	222_K	0.728	0.94
184_G	213_K	0.727	0.94
79_D	82_P	0.727	0.94
65_D	68_A	0.724	0.94
139_R	150_D	0.723	0.94
47_A	93_V	0.723	0.94
48_V	110_L	0.719	0.94
226_F	230_D	0.717	0.94
7_I	121_A	0.715	0.94
58_W	235_Q	0.713	0.94
158_F	165_L	0.713	0.94
12_N	143_Y	0.710	0.94
122_T	148_W	0.709	0.94
122_T	139_R	0.709	0.94
115_T	121_A	0.707	0.93
37_I	45_A	0.702	0.93
211_A	214_W	0.702	0.93
182_V	221_H	0.700	0.93
214_W	217_K	0.700	0.93
124_V	141_R	0.698	0.93
154_I	157_E	0.696	0.93
45_A	93_V	0.694	0.93
17_I	21_Q	0.685	0.92
52_E	78_H	0.679	0.92
160_V	195_V	0.679	0.92
161_Q	198_Q	0.677	0.92
208_D	219_E	0.674	0.92
165_L	169_W	0.672	0.92
165_L	232_A	0.672	0.92
128_K	142_D	0.667	0.91
20_V	28_T	0.664	0.91
7_I	107_A	0.664	0.91
96_W	110_L	0.661	0.91
51_D	106_L	0.655	0.91
4_H	43_T	0.653	0.90
32_A	143_Y	0.648	0.90
170_G	200_L	0.647	0.90
98_T	239_H	0.647	0.90
221_H	225_A	0.646	0.90
118_G	121_A	0.646	0.90
21_Q	28_T	0.645	0.90
182_V	217_K	0.643	0.90
129_G	177_S	0.643	0.90
168_Y	190_A	0.642	0.90
170_G	229_R	0.639	0.90
121_A	137_T	0.638	0.89
171_L	200_L	0.634	0.89
166_P	170_G	0.633	0.89
200_L	226_F	0.631	0.89
56_S	100_G	0.629	0.89
164_Q	199_S	0.627	0.89
194_L	198_Q	0.626	0.89
135_S	138_L	0.625	0.88
20_V	23_S	0.622	0.88
94_P	246_Q	0.621	0.88
20_V	24_P	0.620	0.88
166_P	229_R	0.620	0.88
12_N	126_T	0.609	0.87
10_A	14_I	0.608	0.87
203_I	206_N	0.607	0.87
151_A	162_P	0.607	0.87
169_W	176_S	0.604	0.87
142_D	145_Q	0.601	0.86
49_F	97_S	0.601	0.86
142_D	169_W	0.601	0.86
73_M	77_L	0.598	0.86
11_L	81_M	0.596	0.86
58_W	101_N	0.596	0.86
26_V	87_A	0.592	0.86
227_L	230_D	0.592	0.86
139_R	151_A	0.591	0.86
154_I	191_T	0.591	0.86
12_N	125_S	0.590	0.85
7_I	123_I	0.589	0.85
11_L	49_F	0.588	0.85
174_I	177_S	0.588	0.85
113_K	243_N	0.586	0.85
154_I	158_F	0.586	0.85
113_K	116_Q	0.585	0.85
7_I	46_V	0.582	0.85
200_L	203_I	0.580	0.85
203_I	207_L	0.577	0.84
112_V	138_L	0.577	0.84
164_Q	167_D	0.575	0.84
22_G	76_E	0.574	0.84
171_L	203_I	0.571	0.84
46_V	96_W	0.570	0.83
142_D	149_L	0.569	0.83
183_A	217_K	0.569	0.83
32_A	35_Q	0.568	0.83
230_D	233_R	0.567	0.83
134_L	151_A	0.565	0.83
166_P	234_L	0.564	0.83
205_E	226_F	0.562	0.83
60_H	176_S	0.560	0.82
207_L	210_V	0.560	0.82
111_A	115_T	0.559	0.82
98_T	101_N	0.558	0.82
88_F	91_R	0.554	0.82
88_F	93_V	0.553	0.82
72_P	78_H	0.552	0.82
98_T	238_L	0.552	0.82
212_E	219_E	0.552	0.82
111_A	236_T	0.549	0.81
13_L	143_Y	0.549	0.81
199_S	205_E	0.548	0.81
96_W	106_L	0.544	0.81
165_L	168_Y	0.544	0.81
208_D	215_R	0.542	0.80
49_F	85_R	0.539	0.80
30_Q	33_L	0.538	0.80
17_I	22_G	0.537	0.80
8_V	124_V	0.534	0.79
206_N	210_V	0.532	0.79
4_H	119_H	0.532	0.79
5_L	46_V	0.531	0.79
166_P	169_W	0.530	0.79
13_L	130_Y	0.530	0.79
159_G	191_T	0.530	0.79
183_A	220_T	0.530	0.79
17_I	80_E	0.529	0.79
194_L	199_S	0.529	0.79
155_D	159_G	0.528	0.79
218_L	225_A	0.528	0.79
34_D	38_M	0.527	0.78
131_C	165_L	0.525	0.78
30_Q	91_R	0.524	0.78
192_Q	195_V	0.524	0.78
171_L	182_V	0.520	0.78
82_P	85_R	0.518	0.77
172_A	194_L	0.517	0.77
57_G	61_Q	0.515	0.77
134_L	153_F	0.514	0.77
175_S	187_P	0.511	0.76
14_I	81_M	0.511	0.76
220_T	224_M	0.508	0.76
164_Q	168_Y	0.507	0.76
72_P	75_E	0.505	0.76
135_S	236_T	0.505	0.76
111_A	114_V	0.504	0.75
13_L	124_V	0.502	0.75
27_E	178_K	0.501	0.75
42_P	45_A	0.500	0.75
4_H	44_H	0.500	0.75

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
3zdbA	1	0.9801	100	0.186	Contact Map
1bgxT	1	0.9761	100	0.193	Contact Map
1exnA	1	0.9801	100	0.219	Contact Map
3h7iA	1	0.9402	100	0.293	Contact Map
4q0wA	1	0.9363	100	0.39	Contact Map
2izoA	1	0.7331	100	0.413	Contact Map
1rxwA	1	0.8566	100	0.424	Contact Map
3oryA	3	0.8924	100	0.426	Contact Map
4wa8A	1	0.8247	100	0.447	Contact Map
3q8kA	1	0.9203	100	0.452	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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