NUCS2 - HALSA - GREMLIN Contacts

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NUCS2 - Endonuclease NucS 2

UniProt:	Q9HNR1	Sequences: MTVERVSAPTPAAFVDAANAAFRNGAVLSVQARCEVEYNGRTSGYLGDGDRLLVAKPDGTFLVHQPTGHKPVNWMPGGGTVEARTSQGDAVLLARRSNPTERVETRLHEVYGVTRFDAEDGATYEESGTEAEMHEYIEANPDALEAGLRIVEHERETKYGFIDFYAVDGDGTPVVIEVKRIQATLNHFDQLKRYVDRYAETNDDVRGMLVAPSASERVTRALRDNGLEFVALAEFGLDAKGATEAKLTDF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	250 (215)
Sequences:	460 (190)
Seq/√Len:	12.9

HALSA - NUCS2 NUCS1
SULSO - NUCS

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
141_P	164_F	5.816	1.00
206_R	228_E	5.391	1.00
62_L	68_G	4.535	1.00
195_V	227_L	4.475	1.00
141_P	166_A	3.760	0.99
140_N	237_L	3.708	0.99
62_L	67_T	3.141	0.97
61_F	105_T	2.933	0.96
48_D	108_H	2.577	0.92
37_E	45_Y	2.539	0.91
143_A	237_L	2.511	0.91
53_L	63_V	2.498	0.91
97_S	101_E	2.476	0.90
132_E	135_E	2.475	0.90
33_R	50_D	2.460	0.90
62_L	65_Q	2.458	0.90
188_F	218_V	2.376	0.88
30_V	53_L	2.350	0.88
168_D	206_R	2.313	0.87
144_L	176_I	2.217	0.84
141_P	232_L	2.200	0.84
144_L	232_L	2.186	0.84
141_P	148_L	2.056	0.79
140_N	143_A	2.038	0.79
141_P	178_V	1.957	0.76
76_P	120_D	1.918	0.74
165_Y	173_P	1.906	0.74
143_A	148_L	1.855	0.72
143_A	236_G	1.810	0.70
50_D	111_Y	1.777	0.68
184_T	215_S	1.734	0.66
65_Q	68_G	1.727	0.66
176_I	208_M	1.709	0.65
96_R	101_E	1.699	0.65
112_G	116_F	1.681	0.64
96_R	99_P	1.650	0.62
29_S	52_L	1.624	0.61
54_V	67_T	1.624	0.61
208_M	228_E	1.613	0.61
223_R	228_E	1.602	0.60
33_R	108_H	1.563	0.58
148_L	166_A	1.513	0.56
144_L	148_L	1.510	0.55
145_E	148_L	1.499	0.55
86_S	101_E	1.468	0.53
156_E	198_Y	1.467	0.53
145_E	206_R	1.438	0.52
148_L	164_F	1.435	0.51
92_L	96_R	1.432	0.51
32_A	107_L	1.430	0.51
181_I	213_S	1.422	0.51
164_F	178_V	1.418	0.51
92_L	104_E	1.374	0.48
92_L	95_R	1.364	0.48
53_L	105_T	1.345	0.47
76_P	99_P	1.301	0.45
101_E	106_R	1.299	0.44
132_E	184_T	1.296	0.44
164_F	232_L	1.276	0.43
97_S	105_T	1.267	0.43
66_P	181_I	1.257	0.42
147_G	168_D	1.256	0.42
46_L	124_Y	1.225	0.41
34_C	46_L	1.218	0.40
199_A	205_V	1.214	0.40
53_L	98_N	1.213	0.40
95_R	100_T	1.187	0.39
87_Q	110_V	1.165	0.38
148_L	178_V	1.158	0.37
109_E	142_D	1.148	0.37
92_L	101_E	1.144	0.37
62_L	98_N	1.141	0.37
142_D	146_A	1.139	0.36
232_L	237_L	1.134	0.36
44_G	75_M	1.130	0.36
86_S	104_E	1.128	0.36
60_T	210_V	1.126	0.36
151_V	165_Y	1.115	0.35
156_E	165_Y	1.106	0.35
103_V	221_A	1.105	0.35
54_V	68_G	1.093	0.34
92_L	99_P	1.086	0.34
166_A	178_V	1.083	0.34
104_E	135_E	1.078	0.34
166_A	173_P	1.074	0.33
235_F	238_D	1.065	0.33
128_G	193_R	1.050	0.32
93_L	99_P	1.028	0.31
198_Y	232_L	1.020	0.31
144_L	228_E	1.014	0.31
39_N	102_R	1.013	0.31
116_F	184_T	1.007	0.30
50_D	115_R	1.006	0.30
199_A	204_D	1.003	0.30
236_G	240_K	0.997	0.30
93_L	96_R	0.993	0.30
82_E	203_D	0.981	0.29
200_E	224_D	0.974	0.29
53_L	107_L	0.974	0.29
85_T	88_G	0.973	0.29
76_P	184_T	0.973	0.29
151_V	173_P	0.966	0.29
112_G	240_K	0.960	0.28
52_L	98_N	0.960	0.28
36_V	46_L	0.943	0.28
140_N	240_K	0.942	0.28
146_A	169_G	0.939	0.27
96_R	240_K	0.938	0.27
141_P	199_A	0.932	0.27
36_V	64_H	0.930	0.27
32_A	53_L	0.925	0.27
187_H	209_L	0.922	0.27
69_H	189_D	0.921	0.27
164_F	199_A	0.912	0.26
90_A	166_A	0.907	0.26
84_R	93_L	0.906	0.26
208_M	215_S	0.903	0.26
69_H	78_G	0.901	0.26
219_T	226_G	0.899	0.26
27_V	37_E	0.894	0.26
159_Y	197_R	0.891	0.25
76_P	96_R	0.891	0.25
101_E	108_H	0.885	0.25
31_Q	107_L	0.881	0.25
59_G	64_H	0.881	0.25
96_R	141_P	0.880	0.25
183_A	209_L	0.880	0.25
131_A	134_H	0.879	0.25
219_T	223_R	0.865	0.24
30_V	36_V	0.864	0.24
175_V	201_T	0.859	0.24
86_S	92_L	0.854	0.24
68_G	96_R	0.851	0.24
67_T	92_L	0.851	0.24
141_P	204_D	0.847	0.24
105_T	233_A	0.846	0.24
43_S	140_N	0.844	0.24
148_L	206_R	0.838	0.23
72_V	120_D	0.837	0.23
110_V	140_N	0.834	0.23
95_R	101_E	0.826	0.23
69_H	129_T	0.825	0.23
149_R	167_V	0.816	0.23
39_N	104_E	0.814	0.23
48_D	125_E	0.814	0.23
96_R	213_S	0.810	0.22
36_V	59_G	0.809	0.22
172_T	206_R	0.806	0.22
166_A	176_I	0.805	0.22
50_D	109_E	0.800	0.22
146_A	156_E	0.798	0.22
92_L	223_R	0.798	0.22
206_R	230_V	0.797	0.22
32_A	185_L	0.792	0.22
87_Q	169_G	0.791	0.22
88_G	171_G	0.791	0.22
76_P	227_L	0.786	0.22
168_D	172_T	0.780	0.21
134_H	153_H	0.772	0.21
54_V	76_P	0.766	0.21
62_L	93_L	0.765	0.21
133_M	161_F	0.755	0.20
86_S	91_V	0.753	0.20
44_G	212_P	0.743	0.20
131_A	137_I	0.739	0.20
50_D	120_D	0.733	0.20
33_R	109_E	0.730	0.20
148_L	176_I	0.729	0.20
43_S	135_E	0.723	0.19
86_S	106_R	0.723	0.19
186_N	201_T	0.723	0.19
50_D	232_L	0.719	0.19
166_A	232_L	0.719	0.19
118_A	226_G	0.716	0.19
142_D	149_R	0.715	0.19
64_H	195_V	0.714	0.19
120_D	242_A	0.707	0.19
92_L	170_D	0.706	0.19
93_L	97_S	0.706	0.19
144_L	164_F	0.706	0.19
46_L	51_R	0.706	0.19
67_T	96_R	0.703	0.19
100_T	209_L	0.703	0.19
49_G	75_M	0.700	0.19
119_E	122_A	0.700	0.19
96_R	184_T	0.699	0.19
39_N	101_E	0.699	0.19
148_L	232_L	0.697	0.19
42_T	126_E	0.697	0.19
157_T	162_I	0.696	0.19
114_T	146_A	0.694	0.18
196_D	232_L	0.694	0.18
55_A	106_R	0.693	0.18
173_P	198_Y	0.691	0.18
167_V	173_P	0.690	0.18
124_Y	181_I	0.687	0.18
49_G	72_V	0.687	0.18
149_R	203_D	0.676	0.18
60_T	69_H	0.665	0.18
183_A	187_H	0.665	0.18
129_T	201_T	0.663	0.18
143_A	166_A	0.662	0.17
186_N	218_V	0.658	0.17
146_A	170_D	0.657	0.17
35_E	48_D	0.657	0.17
95_R	102_R	0.656	0.17
85_T	156_E	0.655	0.17
95_R	99_P	0.655	0.17
131_A	162_I	0.655	0.17
173_P	232_L	0.653	0.17
43_S	237_L	0.652	0.17
125_E	184_T	0.651	0.17
102_R	106_R	0.648	0.17
128_G	162_I	0.648	0.17
38_Y	73_N	0.647	0.17
101_E	140_N	0.647	0.17
39_N	114_T	0.646	0.17
96_R	172_T	0.645	0.17
162_I	221_A	0.644	0.17
100_T	165_Y	0.644	0.17
126_E	234_E	0.642	0.17
31_Q	176_I	0.640	0.17
192_K	225_N	0.636	0.17
53_L	77_G	0.636	0.17
157_T	186_N	0.633	0.17
114_T	170_D	0.632	0.17
173_P	203_D	0.631	0.17
55_A	206_R	0.630	0.17
50_D	101_E	0.629	0.17
49_G	120_D	0.629	0.17
95_R	105_T	0.626	0.16
49_G	78_G	0.623	0.16
99_P	242_A	0.620	0.16
156_E	205_V	0.620	0.16
48_D	105_T	0.620	0.16
59_G	218_V	0.619	0.16
170_D	236_G	0.619	0.16
78_G	185_L	0.618	0.16
93_L	102_R	0.618	0.16
96_R	209_L	0.618	0.16
62_L	94_A	0.616	0.16
59_G	76_P	0.614	0.16
124_Y	128_G	0.612	0.16
94_A	99_P	0.611	0.16
85_T	120_D	0.610	0.16
145_E	168_D	0.598	0.16
86_S	241_G	0.598	0.16
157_T	161_F	0.597	0.16
47_G	164_F	0.595	0.16
55_A	149_R	0.595	0.16
66_P	124_Y	0.595	0.16
110_V	175_V	0.594	0.16
30_V	81_V	0.593	0.15
70_K	119_E	0.590	0.15
91_V	97_S	0.589	0.15
38_Y	41_R	0.589	0.15
96_R	206_R	0.588	0.15
104_E	236_G	0.587	0.15
123_T	219_T	0.587	0.15
35_E	236_G	0.584	0.15
39_N	43_S	0.584	0.15
82_E	86_S	0.575	0.15
87_Q	149_R	0.572	0.15
106_R	149_R	0.567	0.15
107_L	111_Y	0.566	0.15
82_E	170_D	0.565	0.15
83_A	106_R	0.563	0.15
237_L	240_K	0.561	0.15
135_E	238_D	0.561	0.15
32_A	195_V	0.561	0.15
55_A	61_F	0.560	0.15
206_R	213_S	0.556	0.15
61_F	238_D	0.555	0.14
152_E	157_T	0.554	0.14
148_L	228_E	0.554	0.14
33_R	48_D	0.553	0.14
64_H	181_I	0.551	0.14
134_H	138_E	0.548	0.14
136_Y	181_I	0.543	0.14
119_E	225_N	0.543	0.14
39_N	98_N	0.538	0.14
132_E	178_V	0.537	0.14
93_L	101_E	0.537	0.14
48_D	169_G	0.537	0.14
46_L	189_D	0.536	0.14
36_V	54_V	0.535	0.14
90_A	206_R	0.534	0.14
142_D	241_G	0.533	0.14
39_N	106_R	0.532	0.14
114_T	171_G	0.530	0.14
146_A	204_D	0.530	0.14
43_S	143_A	0.528	0.14
77_G	118_A	0.528	0.14
89_D	108_H	0.526	0.14
82_E	169_G	0.526	0.14
34_C	51_R	0.526	0.14
39_N	135_E	0.525	0.14
90_A	110_V	0.522	0.14
79_G	149_R	0.521	0.14
93_L	105_T	0.520	0.14
184_T	242_A	0.520	0.14
80_T	120_D	0.518	0.14
156_E	220_R	0.516	0.14
157_T	221_A	0.515	0.13
135_E	167_V	0.514	0.13
73_N	221_A	0.512	0.13
172_T	184_T	0.511	0.13
161_F	217_R	0.510	0.13
27_V	219_T	0.509	0.13
144_L	226_G	0.509	0.13
131_A	205_V	0.508	0.13
48_D	93_L	0.507	0.13
135_E	184_T	0.507	0.13
159_Y	176_I	0.505	0.13
92_L	102_R	0.505	0.13
126_E	134_H	0.503	0.13
31_Q	45_Y	0.503	0.13
209_L	215_S	0.502	0.13
79_G	199_A	0.501	0.13
139_A	236_G	0.501	0.13
78_G	217_R	0.501	0.13
70_K	225_N	0.500	0.13

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
2vldA	2	0.904	100	0.26	Contact Map
1y88A	5	0.46	97	0.925	Contact Map
2wcwA	2	0.428	96.2	0.932	Contact Map
3h1tA	1	0.428	94.2	0.94	Contact Map
1gefA	2	0.42	94.2	0.94	Contact Map
2eo0A	2	0.424	92.8	0.943	Contact Map
1hh1A	2	0.412	91.9	0.945	Contact Map
1ob8A	1	0.412	91.1	0.946	Contact Map
4qbnA	2	0.372	78.1	0.955	Contact Map
3fovA	2	0.38	75.6	0.955	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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