NADE - HALSA - GREMLIN Contacts

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

UniProt:	Q9HNM7	Sequences: MSAPDTVSPLDLRFSAAELAERRDRIQSFIRDTVAAAGAERCVLGLSGGIDSTTVAHLTVDELGADALHGLVMPGAVSRDQNMSDAERVAEDLGIEYDVVEIDPFVTQLTDVFPDAAGDEVAVGNARARTRAVINYFVANHGDGVVLGTGNRAEAMTGYYTKYGDQAVDCNPIGNLYKMQVRQLARDLGVPEDLVTKAPTAELWADQTDAGELGVDYDTIDAVLAVHVDGGLPASATATHLDIDPSVVETVRDLYGASKHKRAMPPAP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	268 (246)
Sequences:	4526 (2580)
Seq/√Len:	164.5

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
192_E	196_T	4.910	1.00
71_L	138_V	3.806	1.00
59_T	147_L	3.511	1.00
41_R	144_G	3.453	1.00
23_R	187_D	2.897	1.00
253_D	257_A	2.881	1.00
88_R	193_D	2.724	1.00
70_G	95_I	2.534	1.00
54_T	185_A	2.404	1.00
245_P	249_E	2.402	1.00
34_V	42_C	2.357	1.00
30_I	58_L	2.282	1.00
20_A	187_D	2.271	1.00
250_T	254_L	2.209	1.00
80_D	84_S	2.168	1.00
85_D	197_K	2.107	1.00
46_L	90_A	2.099	1.00
90_A	97_Y	2.067	1.00
56_A	95_I	2.025	1.00
55_V	173_I	1.971	1.00
87_E	91_E	1.943	1.00
45_G	135_N	1.937	1.00
109_L	133_V	1.848	1.00
103_D	107_T	1.829	1.00
19_L	183_Q	1.826	1.00
259_K	263_A	1.826	1.00
130_T	133_V	1.808	1.00
23_R	61_D	1.719	1.00
76_A	103_D	1.713	1.00
226_V	232_L	1.699	1.00
42_C	63_L	1.692	1.00
50_I	185_A	1.690	1.00
85_D	193_D	1.665	1.00
234_A	249_E	1.626	1.00
88_R	91_E	1.623	1.00
69_H	98_D	1.585	1.00
72_V	97_Y	1.582	1.00
183_Q	186_R	1.579	1.00
186_R	192_E	1.572	1.00
182_R	218_D	1.557	1.00
28_S	32_D	1.521	1.00
138_V	142_G	1.496	1.00
160_Y	166_Q	1.483	1.00
186_R	195_V	1.476	1.00
37_A	145_V	1.476	1.00
87_E	99_V	1.468	1.00
81_Q	193_D	1.468	1.00
53_T	194_L	1.454	1.00
69_H	144_G	1.453	1.00
42_C	59_T	1.438	1.00
219_T	247_V	1.432	1.00
24_D	65_A	1.429	1.00
208_T	211_G	1.429	1.00
126_A	133_V	1.420	1.00
226_V	237_T	1.419	1.00
20_A	24_D	1.416	1.00
109_L	130_T	1.410	1.00
198_A	208_T	1.407	1.00
41_R	69_H	1.404	1.00
177_Y	180_Q	1.403	1.00
88_R	92_D	1.402	1.00
216_D	219_T	1.371	1.00
41_R	67_A	1.361	1.00
210_A	216_D	1.360	1.00
157_T	220_I	1.343	1.00
40_E	143_D	1.331	1.00
157_T	213_L	1.327	1.00
106_V	130_T	1.322	1.00
84_S	193_D	1.321	1.00
50_I	181_V	1.321	1.00
89_V	194_L	1.313	1.00
58_L	172_P	1.310	1.00
60_V	65_A	1.300	1.00
225_A	230_G	1.293	1.00
104_P	111_D	1.292	1.00
122_A	137_F	1.292	1.00
152_R	175_N	1.279	1.00
72_V	83_M	1.277	1.00
56_A	70_G	1.274	1.00
168_V	171_N	1.269	1.00
30_I	42_C	1.266	1.00
42_C	147_L	1.259	1.00
57_H	61_D	1.249	1.00
232_L	236_A	1.244	1.00
179_M	222_A	1.239	1.00
31_R	65_A	1.237	1.00
254_L	258_S	1.236	1.00
222_A	241_L	1.221	1.00
56_A	93_L	1.209	1.00
61_D	188_L	1.202	1.00
105_F	112_V	1.200	1.00
219_T	244_D	1.197	1.00
254_L	257_A	1.187	1.00
222_A	243_I	1.186	1.00
87_E	97_Y	1.185	1.00
162_K	260_H	1.177	1.00
224_L	255_Y	1.175	1.00
55_V	147_L	1.171	1.00
43_V	138_V	1.162	1.00
33_T	36_A	1.158	1.00
226_V	241_L	1.154	1.00
23_R	188_L	1.152	1.00
34_V	63_L	1.132	1.00
244_D	247_V	1.132	1.00
177_Y	224_L	1.129	1.00
84_S	88_R	1.125	1.00
72_V	86_A	1.125	1.00
186_R	196_T	1.120	1.00
60_V	93_L	1.115	1.00
176_L	180_Q	1.115	1.00
70_G	90_A	1.100	1.00
258_S	262_R	1.100	1.00
24_D	28_S	1.094	1.00
23_R	27_Q	1.088	1.00
60_V	68_L	1.079	1.00
98_D	142_G	1.073	0.99
250_T	253_D	1.072	0.99
31_R	35_A	1.071	0.99
201_A	207_Q	1.070	0.99
76_A	106_V	1.061	0.99
107_T	110_T	1.061	0.99
108_Q	111_D	1.060	0.99
81_Q	200_T	1.057	0.99
179_M	225_A	1.051	0.99
78_S	81_Q	1.051	0.99
108_Q	112_V	1.046	0.99
23_R	58_L	1.045	0.99
163_Y	167_A	1.041	0.99
166_Q	265_P	1.035	0.99
151_N	209_D	1.032	0.99
75_G	106_V	1.031	0.99
64_G	68_L	1.031	0.99
157_T	254_L	1.027	0.99
105_F	130_T	1.024	0.99
105_F	134_I	1.018	0.99
249_E	253_D	1.014	0.99
27_Q	31_R	1.013	0.99
238_A	245_P	1.007	0.99
148_G	168_V	1.007	0.99
106_V	110_T	0.995	0.99
226_V	230_G	0.994	0.99
72_V	87_E	0.985	0.99
171_N	174_G	0.984	0.99
147_L	170_C	0.984	0.99
83_M	99_V	0.976	0.99
34_V	37_A	0.973	0.99
57_H	93_L	0.972	0.99
201_A	209_D	0.971	0.99
150_G	160_Y	0.971	0.99
259_K	262_R	0.966	0.99
50_I	195_V	0.964	0.99
204_W	212_E	0.956	0.99
105_F	108_Q	0.955	0.99
30_I	170_C	0.953	0.99
246_S	250_T	0.952	0.99
27_Q	62_E	0.951	0.99
233_P	236_A	0.950	0.99
234_A	238_A	0.941	0.99
83_M	87_E	0.938	0.99
60_V	64_G	0.935	0.99
92_D	190_V	0.934	0.99
132_A	167_A	0.931	0.99
26_I	58_L	0.929	0.99
182_R	198_A	0.928	0.99
35_A	67_A	0.926	0.98
117_A	141_H	0.926	0.98
105_F	109_L	0.925	0.98
107_T	111_D	0.924	0.98
32_D	36_A	0.924	0.98
238_A	248_V	0.923	0.98
73_M	134_I	0.922	0.98
234_A	252_R	0.916	0.98
123_V	141_H	0.911	0.98
70_G	97_Y	0.911	0.98
232_L	241_L	0.908	0.98
152_R	229_D	0.903	0.98
122_A	141_H	0.890	0.98
162_K	169_D	0.884	0.98
102_I	130_T	0.876	0.98
100_V	112_V	0.868	0.98
113_F	137_F	0.867	0.98
180_Q	183_Q	0.858	0.98
87_E	90_A	0.857	0.97
207_Q	212_E	0.856	0.97
81_Q	197_K	0.855	0.97
76_A	107_T	0.846	0.97
44_L	55_V	0.839	0.97
169_D	260_H	0.835	0.97
26_I	175_N	0.832	0.97
63_L	67_A	0.832	0.97
22_R	180_Q	0.826	0.97
27_Q	61_D	0.822	0.97
100_V	134_I	0.816	0.97
222_A	226_V	0.813	0.97
60_V	95_I	0.801	0.96
53_T	89_V	0.799	0.96
75_G	107_T	0.798	0.96
40_E	67_A	0.798	0.96
130_T	134_I	0.797	0.96
146_V	167_A	0.796	0.96
41_R	142_G	0.791	0.96
185_A	195_V	0.789	0.96
125_N	161_T	0.785	0.96
84_S	87_E	0.782	0.96
159_Y	201_A	0.779	0.96
45_G	73_M	0.777	0.96
136_Y	169_D	0.777	0.96
199_P	209_D	0.776	0.96
19_L	187_D	0.776	0.96
61_D	64_G	0.775	0.95
177_Y	225_A	0.765	0.95
159_Y	212_E	0.765	0.95
115_D	118_G	0.760	0.95
155_A	174_G	0.756	0.95
43_V	144_G	0.755	0.95
69_H	96_E	0.755	0.95
28_S	31_R	0.750	0.95
82_N	202_E	0.747	0.94
104_P	112_V	0.746	0.94
221_D	224_L	0.743	0.94
63_L	68_L	0.742	0.94
155_A	160_Y	0.738	0.94
220_I	251_V	0.736	0.94
181_V	185_A	0.736	0.94
72_V	99_V	0.735	0.94
30_I	172_P	0.733	0.94
44_L	68_L	0.729	0.94
124_G	212_E	0.726	0.94
170_C	174_G	0.725	0.94
101_E	104_P	0.723	0.93
22_R	26_I	0.723	0.93
207_Q	211_G	0.717	0.93
151_N	199_P	0.714	0.93
34_V	41_R	0.713	0.93
59_T	68_L	0.707	0.93
126_A	137_F	0.706	0.93
30_I	63_L	0.702	0.92
137_F	141_H	0.701	0.92
151_N	201_A	0.700	0.92
39_A	143_D	0.698	0.92
247_V	250_T	0.696	0.92
73_M	135_N	0.689	0.92
69_H	142_G	0.686	0.92
109_L	113_F	0.685	0.92
44_L	56_A	0.683	0.91
159_Y	207_Q	0.678	0.91
122_A	140_N	0.678	0.91
246_S	249_E	0.676	0.91
125_N	129_R	0.675	0.91
112_V	115_D	0.670	0.91
182_R	195_V	0.670	0.91
163_Y	168_V	0.667	0.90
73_M	146_V	0.664	0.90
117_A	142_G	0.660	0.90
84_S	91_E	0.659	0.90
81_Q	86_A	0.658	0.90
57_H	92_D	0.656	0.90
54_T	181_V	0.652	0.89
57_H	64_G	0.651	0.89
238_A	241_L	0.651	0.89
148_G	167_A	0.649	0.89
139_A	260_H	0.649	0.89
119_D	141_H	0.646	0.89
88_R	191_P	0.642	0.89
127_R	202_E	0.637	0.88
153_A	220_I	0.636	0.88
179_M	221_D	0.634	0.88
146_V	260_H	0.632	0.88
179_M	218_D	0.630	0.88
252_R	256_G	0.628	0.88
208_T	212_E	0.627	0.88
174_G	177_Y	0.627	0.88
89_V	92_D	0.627	0.88
75_G	102_I	0.624	0.87
47_S	51_D	0.624	0.87
248_V	252_R	0.622	0.87
75_G	130_T	0.620	0.87
150_G	166_Q	0.620	0.87
37_A	174_G	0.619	0.87
57_H	89_V	0.619	0.87
64_G	96_E	0.617	0.87
113_F	117_A	0.617	0.87
110_T	114_P	0.617	0.87
223_V	248_V	0.616	0.87
119_D	122_A	0.615	0.87
182_R	186_R	0.613	0.86
104_P	107_T	0.613	0.86
71_L	134_I	0.613	0.86
210_A	218_D	0.611	0.86
256_G	259_K	0.611	0.86
90_A	95_I	0.611	0.86
32_D	35_A	0.609	0.86
100_V	116_A	0.609	0.86
155_A	171_N	0.609	0.86
214_G	217_Y	0.606	0.86
57_H	190_V	0.604	0.86
235_S	245_P	0.602	0.85
152_R	174_G	0.602	0.85
243_I	248_V	0.596	0.85
102_I	106_V	0.595	0.85
231_G	234_A	0.593	0.84
21_E	25_R	0.593	0.84
42_C	170_C	0.593	0.84
233_P	237_T	0.590	0.84
31_R	62_E	0.586	0.84
22_R	25_R	0.582	0.83
24_D	27_Q	0.582	0.83
219_T	222_A	0.580	0.83
150_G	171_N	0.580	0.83
18_E	21_E	0.578	0.83
120_E	123_V	0.578	0.83
243_I	247_V	0.577	0.83
96_E	144_G	0.573	0.82
198_A	210_A	0.571	0.82
220_I	223_V	0.569	0.82
126_A	130_T	0.568	0.82
109_L	112_V	0.568	0.82
109_L	126_A	0.565	0.82
98_D	138_V	0.564	0.81
70_G	194_L	0.561	0.81
100_V	113_F	0.560	0.81
46_L	89_V	0.559	0.81
222_A	225_A	0.558	0.81
183_Q	187_D	0.555	0.80
124_G	204_W	0.554	0.80
223_V	252_R	0.550	0.80
54_T	188_L	0.549	0.80
98_D	116_A	0.548	0.80
157_T	251_V	0.545	0.79
139_A	144_G	0.544	0.79
78_S	194_L	0.543	0.79
128_A	161_T	0.543	0.79
121_V	124_G	0.542	0.79
56_A	89_V	0.542	0.79
42_C	145_V	0.540	0.79
111_D	114_P	0.537	0.78
57_H	60_V	0.534	0.78
150_G	168_V	0.534	0.78
125_N	128_A	0.532	0.78
82_N	197_K	0.532	0.78
235_S	238_A	0.532	0.78
155_A	265_P	0.532	0.78
98_D	101_E	0.531	0.77
173_I	181_V	0.531	0.77
50_I	178_K	0.530	0.77
148_G	172_P	0.525	0.77
78_S	202_E	0.525	0.77
72_V	78_S	0.524	0.77
124_G	128_A	0.524	0.77
249_E	256_G	0.523	0.76
106_V	126_A	0.519	0.76
150_G	155_A	0.519	0.76
223_V	237_T	0.516	0.75
75_G	103_D	0.514	0.75
75_G	127_R	0.514	0.75
148_G	160_Y	0.514	0.75
155_A	258_S	0.513	0.75
79_R	197_K	0.512	0.75
41_R	143_D	0.510	0.75
132_A	136_Y	0.509	0.74
30_I	144_G	0.509	0.74
111_D	115_D	0.506	0.74
219_T	223_V	0.505	0.74
124_G	127_R	0.505	0.74
57_H	188_L	0.504	0.74
50_I	182_R	0.504	0.74
167_A	171_N	0.502	0.73
162_K	166_Q	0.501	0.73
128_A	203_L	0.500	0.73

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	0.9142	100	0.346	Contact Map
1kqpA	2	0.9328	100	0.368	Contact Map
3q4gA	2	0.8993	100	0.373	Contact Map
4xfdA	1	0.8806	100	0.373	Contact Map
3n05A	2	0.9179	100	0.375	Contact Map
1wxiA	2	0.8993	100	0.375	Contact Map
4f4hA	2	0.9328	100	0.378	Contact Map
4q16A	2	0.9328	100	0.378	Contact Map
1xngA	2	0.9254	100	0.378	Contact Map
3dpiA	3	0.9104	100	0.391	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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