NADE - SULSO - GREMLIN Contacts

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NADE - NH(3)-dependent NAD(+) synthetase

UniProt:	Q97WN9	Sequences: MHEYIRKSLTIDCEAVTNYIVERIREYLEFSNKKGGVIGVSGGVDSAVTATLLAKATDNFFILLMPSSSTPKIDLDDSFEMIKFLNAQNKYKLINIDEIVKSFSNKIETENKYIIGNIKARVRMIILYAYAQMLDYLVVGTGDKSELLLGYFTKYGDGGVDVLPIGDLYKTQVRMLGKCLGLPERIVTKPSSPALWEGQTAEGELGIDYETIDSILYLRFDEMRSEDEIVKMLGIPIDIVKKVDRLVKISQHKRLPPEIFRLSGRAINSDWRFPRRWA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	278 (246)
Sequences:	4355 (2503)
Seq/√Len:	159.6

ECOLI - NADE
BACSU - NADE
HALSA - NADE
SULSO - NADE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
184_E	188_T	4.782	1.00
63_L	130_Y	3.620	1.00
53_L	139_V	3.543	1.00
35_G	136_Y	3.425	1.00
245_R	249_I	2.924	1.00
17_T	179_C	2.865	1.00
80_E	185_R	2.691	1.00
72_K	76_D	2.636	1.00
62_I	87_A	2.527	1.00
48_V	177_G	2.447	1.00
242_K	246_L	2.313	1.00
28_L	36_G	2.288	1.00
24_I	52_L	2.271	1.00
237_I	241_K	2.250	1.00
14_E	179_C	2.200	1.00
40_V	82_I	2.107	1.00
77_D	189_K	2.075	1.00
82_I	91_Y	2.070	1.00
50_A	87_A	2.010	1.00
49_T	165_I	1.951	1.00
97_D	101_K	1.944	1.00
79_F	83_K	1.934	1.00
103_F	125_I	1.927	1.00
39_G	127_L	1.885	1.00
251_Q	255_L	1.814	1.00
166_G	259_I	1.813	1.00
122_V	125_I	1.766	1.00
13_C	175_M	1.757	1.00
98_E	105_N	1.700	1.00
68_S	97_D	1.698	1.00
17_T	55_K	1.691	1.00
44_V	177_G	1.676	1.00
80_E	83_K	1.655	1.00
226_E	241_K	1.641	1.00
218_L	224_R	1.624	1.00
77_D	185_R	1.620	1.00
175_M	178_K	1.604	1.00
90_K	134_L	1.593	1.00
103_F	122_V	1.570	1.00
200_T	203_G	1.559	1.00
178_K	184_E	1.538	1.00
61_F	92_K	1.531	1.00
64_L	91_Y	1.512	1.00
47_A	186_I	1.510	1.00
174_R	210_E	1.504	1.00
118_I	125_I	1.496	1.00
178_K	187_V	1.429	1.00
152_F	158_G	1.423	1.00
36_G	53_L	1.410	1.00
22_E	26_E	1.410	1.00
130_Y	134_L	1.403	1.00
14_E	18_N	1.401	1.00
61_F	136_Y	1.401	1.00
31_S	137_L	1.397	1.00
79_F	93_L	1.395	1.00
211_T	239_I	1.386	1.00
44_V	173_V	1.378	1.00
35_G	61_F	1.376	1.00
171_T	214_S	1.366	1.00
52_L	164_P	1.365	1.00
169_Y	172_Q	1.353	1.00
208_D	211_T	1.350	1.00
54_A	57_T	1.339	1.00
80_E	84_F	1.337	1.00
57_T	60_F	1.337	1.00
218_L	229_I	1.337	1.00
73_I	185_R	1.330	1.00
114_I	129_A	1.325	1.00
190_P	200_T	1.323	1.00
99_I	106_K	1.317	1.00
34_K	135_D	1.312	1.00
35_G	59_N	1.306	1.00
149_L	212_I	1.304	1.00
202_E	208_D	1.297	1.00
76_D	185_R	1.291	1.00
160_V	163_L	1.286	1.00
149_L	205_L	1.283	1.00
81_M	186_I	1.282	1.00
217_Y	222_E	1.282	1.00
219_R	244_D	1.270	1.00
36_G	139_V	1.263	1.00
154_K	252_H	1.262	1.00
51_T	55_K	1.258	1.00
100_V	122_V	1.252	1.00
246_L	249_I	1.250	1.00
224_R	228_E	1.246	1.00
216_L	247_V	1.243	1.00
50_A	85_L	1.243	1.00
64_L	75_L	1.238	1.00
79_F	91_Y	1.233	1.00
55_K	180_L	1.218	1.00
218_L	233_L	1.218	1.00
54_A	85_L	1.215	1.00
18_N	22_E	1.212	1.00
144_K	167_D	1.205	1.00
24_I	36_G	1.196	1.00
246_L	250_S	1.191	1.00
50_A	62_I	1.184	1.00
214_S	235_I	1.177	1.00
27_Y	30_F	1.171	1.00
158_G	256_P	1.158	1.00
49_T	139_V	1.157	1.00
171_T	217_Y	1.154	1.00
75_L	93_L	1.152	1.00
100_V	104_S	1.151	1.00
250_S	254_R	1.144	1.00
76_D	80_E	1.143	1.00
37_V	130_Y	1.143	1.00
64_L	78_S	1.135	1.00
17_T	180_L	1.135	1.00
75_L	79_F	1.133	1.00
92_K	134_L	1.118	1.00
169_Y	216_L	1.117	1.00
178_K	188_T	1.105	1.00
99_I	126_I	1.103	1.00
17_T	52_L	1.084	0.99
168_L	172_Q	1.083	0.99
155_Y	159_G	1.083	0.99
149_L	246_L	1.075	0.99
23_R	260_F	1.072	0.99
68_S	100_V	1.070	0.99
242_K	245_R	1.069	0.99
99_I	103_F	1.067	0.99
196_W	204_E	1.066	0.99
236_P	239_I	1.060	0.99
29_E	59_N	1.055	0.99
224_R	233_L	1.051	0.99
44_V	187_V	1.047	0.99
54_A	60_F	1.044	0.99
99_I	122_V	1.035	0.99
101_K	104_S	1.035	0.99
140_G	160_V	1.027	0.99
61_F	90_K	1.027	0.99
115_I	133_M	1.022	0.99
174_R	190_P	1.022	0.99
74_D	194_A	1.017	0.99
67_S	100_V	1.015	0.99
62_I	82_I	1.011	0.99
162_V	260_F	1.009	0.99
193_P	201_A	1.003	0.99
241_K	245_R	0.993	0.99
193_P	199_Q	0.991	0.99
142_G	152_F	0.989	0.99
64_L	79_F	0.984	0.99
139_V	162_V	0.983	0.99
25_R	29_E	0.983	0.99
28_L	31_S	0.978	0.99
17_T	21_V	0.978	0.99
211_T	236_P	0.974	0.99
143_D	201_A	0.973	0.99
99_I	102_S	0.969	0.99
225_S	228_E	0.966	0.99
73_I	189_K	0.966	0.99
124_M	159_G	0.965	0.99
79_F	82_I	0.959	0.99
226_E	230_V	0.958	0.99
238_D	242_K	0.954	0.99
21_V	56_A	0.951	0.99
251_Q	254_R	0.950	0.99
94_I	106_K	0.944	0.99
230_V	240_V	0.938	0.98
21_V	25_R	0.928	0.98
70_T	73_I	0.918	0.98
24_I	162_V	0.917	0.98
163_L	166_G	0.916	0.98
144_K	221_D	0.916	0.98
51_T	85_L	0.905	0.98
230_V	237_I	0.903	0.98
84_F	182_L	0.899	0.98
20_I	52_L	0.894	0.98
107_I	129_A	0.893	0.98
114_I	133_M	0.891	0.98
20_I	167_D	0.890	0.98
62_I	91_Y	0.889	0.98
218_L	222_E	0.888	0.98
98_E	106_K	0.885	0.98
172_Q	175_M	0.874	0.98
199_Q	204_E	0.873	0.98
38_I	49_T	0.860	0.97
226_E	244_D	0.854	0.97
177_G	187_V	0.853	0.97
154_K	161_D	0.838	0.97
101_K	105_N	0.834	0.97
161_D	252_H	0.830	0.97
94_I	126_I	0.830	0.97
96_I	122_V	0.830	0.97
34_K	59_N	0.828	0.97
191_S	201_A	0.825	0.97
147_L	152_F	0.824	0.97
122_V	126_I	0.822	0.96
118_I	129_A	0.816	0.96
26_E	30_F	0.815	0.96
39_G	65_M	0.815	0.96
16_V	172_Q	0.813	0.96
117_N	153_T	0.807	0.96
76_D	79_F	0.807	0.96
214_S	218_L	0.802	0.96
155_Y	160_V	0.797	0.96
62_I	66_P	0.793	0.96
214_S	219_R	0.790	0.96
102_S	105_N	0.785	0.95
59_N	90_K	0.780	0.95
138_V	159_G	0.779	0.95
212_I	243_V	0.779	0.95
128_Y	161_D	0.778	0.95
81_M	84_F	0.768	0.95
35_G	134_L	0.767	0.95
61_F	134_L	0.764	0.95
33_K	135_D	0.763	0.95
47_A	81_M	0.761	0.95
48_V	173_V	0.753	0.94
95_N	98_E	0.748	0.94
173_V	177_G	0.746	0.94
21_V	55_K	0.744	0.94
37_V	136_Y	0.738	0.94
129_A	133_M	0.738	0.94
67_S	101_K	0.737	0.94
238_D	241_K	0.734	0.93
219_R	229_I	0.734	0.93
143_D	191_S	0.732	0.93
169_Y	217_Y	0.731	0.93
68_S	101_K	0.729	0.93
116_G	204_E	0.728	0.93
24_I	164_P	0.727	0.93
230_V	233_L	0.726	0.93
248_K	251_Q	0.726	0.93
199_Q	203_G	0.724	0.93
143_D	193_P	0.721	0.93
28_L	35_G	0.719	0.93
215_I	240_V	0.716	0.93
151_Y	204_E	0.716	0.93
22_E	25_R	0.715	0.93
38_I	50_A	0.714	0.92
117_N	121_R	0.709	0.92
235_I	240_V	0.703	0.92
174_R	187_V	0.700	0.92
111_N	133_M	0.697	0.92
53_L	60_F	0.694	0.91
228_E	231_K	0.693	0.91
102_S	106_K	0.693	0.91
213_D	216_L	0.692	0.91
54_A	87_A	0.689	0.91
147_L	166_G	0.688	0.91
151_Y	193_P	0.687	0.91
119_K	194_A	0.686	0.91
65_M	138_V	0.684	0.91
67_S	96_I	0.681	0.91
65_M	126_I	0.679	0.91
200_T	204_E	0.678	0.90
239_I	242_K	0.675	0.90
73_I	77_D	0.672	0.90
140_G	159_G	0.670	0.90
227_D	231_K	0.669	0.90
16_V	20_I	0.668	0.90
13_C	179_C	0.668	0.90
63_L	126_I	0.667	0.90
51_T	81_M	0.666	0.90
82_I	87_A	0.665	0.90
131_A	252_H	0.664	0.90
64_L	70_T	0.661	0.89
51_T	84_F	0.660	0.89
138_V	252_H	0.655	0.89
114_I	132_Q	0.651	0.89
116_G	196_W	0.651	0.89
71_P	194_A	0.650	0.89
240_V	244_D	0.648	0.88
41_S	45_D	0.645	0.88
171_T	210_E	0.644	0.88
94_I	107_I	0.640	0.88
80_E	183_P	0.639	0.88
64_L	93_L	0.632	0.87
171_T	213_D	0.628	0.87
65_M	127_L	0.626	0.87
112_K	115_I	0.623	0.86
74_D	189_K	0.618	0.86
62_I	186_I	0.618	0.86
31_S	166_G	0.617	0.86
96_I	100_V	0.616	0.86
36_G	137_L	0.615	0.86
211_T	214_S	0.614	0.86
131_A	136_Y	0.614	0.86
144_K	166_G	0.613	0.85
109_T	112_K	0.612	0.85
145_S	212_I	0.612	0.85
87_A	91_Y	0.610	0.85
227_D	237_I	0.610	0.85
64_L	67_S	0.610	0.85
12_D	15_A	0.609	0.85
76_D	83_K	0.608	0.85
36_G	162_V	0.605	0.85
98_E	101_K	0.604	0.85
113_Y	116_G	0.604	0.85
175_M	179_C	0.603	0.85
212_I	215_I	0.599	0.84
98_E	102_S	0.597	0.84
77_D	80_E	0.596	0.84
73_I	76_D	0.595	0.84
174_R	178_K	0.595	0.84
26_E	29_E	0.595	0.84
51_T	182_L	0.594	0.84
151_Y	199_Q	0.593	0.84
57_T	86_N	0.591	0.83
92_K	130_Y	0.589	0.83
147_L	163_L	0.587	0.83
75_L	78_S	0.586	0.83
202_E	210_E	0.585	0.83
63_L	92_K	0.585	0.83
148_L	247_V	0.584	0.83
219_R	248_K	0.584	0.83
214_S	217_Y	0.582	0.82
90_K	136_Y	0.581	0.82
120_A	195_L	0.580	0.82
118_I	122_V	0.578	0.82
104_S	118_I	0.578	0.82
25_R	56_A	0.578	0.82
142_G	158_G	0.576	0.82
111_N	114_I	0.576	0.82
51_T	54_A	0.576	0.82
215_I	244_D	0.574	0.82
30_F	251_Q	0.569	0.81
65_M	68_S	0.567	0.81
206_G	209_Y	0.566	0.81
230_V	234_G	0.565	0.81
36_G	60_F	0.564	0.80
69_S	111_N	0.560	0.80
48_V	180_L	0.554	0.79
215_I	229_I	0.553	0.79
223_M	226_E	0.552	0.79
225_S	229_I	0.550	0.79
235_I	243_V	0.549	0.79
103_F	129_A	0.549	0.79
244_D	248_K	0.546	0.78
202_E	214_S	0.545	0.78
50_A	81_M	0.542	0.78
154_K	158_G	0.541	0.78
185_R	188_T	0.536	0.77
140_G	164_P	0.536	0.77
18_N	21_V	0.535	0.77
59_N	136_Y	0.533	0.77
124_M	128_Y	0.533	0.77
44_V	48_V	0.532	0.76
162_V	166_G	0.532	0.76
92_K	95_N	0.528	0.76
47_A	51_T	0.527	0.76
100_V	118_I	0.527	0.76
67_S	122_V	0.526	0.76
38_I	60_F	0.525	0.76
166_G	169_Y	0.525	0.76
83_K	91_Y	0.520	0.75
73_I	78_S	0.520	0.75
142_G	163_L	0.519	0.75
116_G	120_A	0.518	0.75
117_N	120_A	0.517	0.74
70_T	186_I	0.517	0.74
116_G	119_K	0.516	0.74
103_F	118_I	0.515	0.74
159_G	163_L	0.515	0.74
165_I	173_V	0.514	0.74
40_V	81_M	0.513	0.74
142_G	147_L	0.512	0.74
41_S	146_E	0.511	0.74
15_A	19_Y	0.511	0.74
235_I	239_I	0.505	0.73
120_A	153_T	0.504	0.73
128_Y	154_K	0.503	0.72
227_D	230_V	0.502	0.72
142_G	160_V	0.502	0.72
153_T	253_K	0.501	0.72
16_V	19_Y	0.500	0.72

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
3ilvA	2	0.8993	100	0.335	Contact Map
3n05A	2	0.9245	100	0.339	Contact Map
4f4hA	2	0.9281	100	0.342	Contact Map
3sdbA	6	0.9137	100	0.36	Contact Map
1xngA	2	0.9245	100	0.395	Contact Map
1kqpA	2	0.8921	100	0.411	Contact Map
4xfdA	1	0.8201	100	0.413	Contact Map
4q16A	2	0.8957	100	0.416	Contact Map
2e18A	2	0.9101	100	0.419	Contact Map
3q4gA	2	0.8417	100	0.421	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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