NARI - BACSU - GREMLIN Contacts

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NARI - Nitrate reductase gamma chain

UniProt:	P42177	Sequences: MSGQILWGIMPYIVLTIFIGGHIYRYQHDQFGWTAKSSELLEKKKLAAGSTLFHWGLLCVVGGHVMGILIPEGVYASLGISEHMYHKMAIGAGLPAGIAACTGLVILTYRRLFDKRIRKTSSPSDILTLLLLLFMMLSGVAATFLNIDSKGFDYRTTVGPWFREIVLFRPDASLMESVPLWFKFHIVIGYVVFILWPFTRLVHVFSLPLKYLTRSYVVYRKRS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	223 (219)
Sequences:	1085 (657)
Seq/√Len:	44.4

ECOLI - NARI NARV
BACSU - NARI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
49_G	106_I	5.269	1.00
97_G	140_V	3.303	1.00
17_I	194_I	3.079	1.00
17_I	198_F	2.958	1.00
127_L	195_L	2.884	1.00
5_I	13_I	2.873	1.00
135_M	189_G	2.747	1.00
76_A	82_E	2.627	1.00
192_V	201_L	2.564	1.00
81_S	84_M	2.557	1.00
118_R	126_I	2.516	1.00
180_L	184_F	2.510	1.00
18_F	22_H	2.475	1.00
112_L	118_R	2.428	1.00
10_M	191_V	2.424	1.00
56_G	103_G	2.278	1.00
124_S	195_L	2.231	1.00
16_T	20_G	2.206	1.00
57_L	100_A	2.189	1.00
52_L	102_T	2.163	1.00
72_E	153_D	2.141	1.00
6_L	187_V	2.121	1.00
131_L	195_L	1.999	0.99
74_V	78_L	1.983	0.99
60_V	100_A	1.952	0.99
88_M	92_A	1.895	0.99
84_M	88_M	1.886	0.99
186_I	190_Y	1.878	0.99
90_I	147_I	1.852	0.99
22_H	205_F	1.821	0.99
59_C	96_A	1.800	0.98
135_M	188_I	1.786	0.98
60_V	97_G	1.730	0.98
59_C	92_A	1.708	0.98
52_L	99_A	1.699	0.98
3_G	176_E	1.661	0.97
15_L	165_I	1.655	0.97
104_L	133_L	1.638	0.97
58_L	62_G	1.624	0.97
196_W	204_V	1.608	0.97
112_L	126_I	1.601	0.97
101_C	133_L	1.599	0.97
42_E	114_D	1.578	0.96
141_A	145_L	1.537	0.96
91_G	95_P	1.527	0.96
105_V	109_Y	1.517	0.95
20_G	23_I	1.516	0.95
108_T	126_I	1.504	0.95
123_P	127_L	1.504	0.95
83_H	87_K	1.470	0.95
72_E	76_A	1.463	0.94
17_I	20_G	1.424	0.94
109_Y	113_F	1.416	0.93
85_Y	155_R	1.379	0.92
41_L	128_T	1.369	0.92
162_F	166_V	1.366	0.92
72_E	82_E	1.352	0.92
64_H	110_R	1.345	0.91
101_C	137_L	1.339	0.91
3_G	183_K	1.337	0.91
80_I	84_M	1.318	0.91
195_L	199_T	1.291	0.90
39_E	43_K	1.291	0.90
108_T	112_L	1.289	0.90
210_K	213_T	1.288	0.90
100_A	136_M	1.287	0.90
105_V	133_L	1.282	0.89
9_I	170_P	1.275	0.89
12_Y	170_P	1.272	0.89
108_T	131_L	1.257	0.88
41_L	116_R	1.254	0.88
95_P	99_A	1.240	0.88
114_D	117_I	1.236	0.88
73_G	76_A	1.222	0.87
72_E	156_T	1.212	0.87
131_L	134_F	1.200	0.86
36_K	122_S	1.198	0.86
98_I	102_T	1.198	0.86
33_W	206_S	1.196	0.86
87_K	150_K	1.188	0.85
154_Y	179_P	1.188	0.85
42_E	117_I	1.169	0.84
14_V	190_Y	1.168	0.84
22_H	196_W	1.167	0.84
14_V	194_I	1.165	0.84
45_K	49_G	1.164	0.84
45_K	109_Y	1.149	0.83
24_Y	29_D	1.132	0.82
131_L	135_M	1.128	0.82
138_S	184_F	1.114	0.81
187_V	191_V	1.111	0.81
44_K	208_P	1.103	0.81
200_R	211_Y	1.101	0.81
64_H	185_H	1.097	0.80
126_I	130_L	1.082	0.80
42_E	46_L	1.070	0.79
5_I	84_M	1.069	0.79
18_F	196_W	1.062	0.78
154_Y	157_T	1.051	0.77
30_Q	33_W	1.040	0.77
75_Y	78_L	1.035	0.76
121_S	129_L	1.033	0.76
29_D	216_Y	1.027	0.76
87_K	91_G	1.024	0.76
22_H	202_V	1.020	0.75
104_L	108_T	1.016	0.75
57_L	62_G	1.014	0.75
72_E	159_G	1.010	0.75
85_Y	162_F	1.009	0.75
139_G	185_H	1.008	0.74
131_L	188_I	1.006	0.74
152_F	182_F	0.999	0.74
128_T	195_L	0.995	0.74
111_R	203_H	0.993	0.73
26_Y	82_E	0.990	0.73
18_F	205_F	0.983	0.73
9_I	20_G	0.981	0.72
108_T	133_L	0.972	0.72
38_S	41_L	0.972	0.72
62_G	66_M	0.957	0.71
82_E	159_G	0.957	0.71
118_R	121_S	0.954	0.70
130_L	134_F	0.948	0.70
110_R	185_H	0.944	0.69
138_S	188_I	0.943	0.69
142_A	158_V	0.938	0.69
207_L	210_K	0.937	0.69
9_I	168_F	0.936	0.69
20_G	24_Y	0.931	0.68
173_S	176_E	0.928	0.68
61_V	134_F	0.926	0.68
121_S	126_I	0.919	0.67
108_T	192_V	0.917	0.67
76_A	153_D	0.916	0.67
154_Y	159_G	0.915	0.67
215_S	221_K	0.912	0.67
37_S	41_L	0.911	0.67
141_A	181_W	0.902	0.66
89_A	94_L	0.894	0.65
62_G	65_V	0.891	0.65
74_V	77_S	0.891	0.65
36_K	215_S	0.883	0.64
101_C	136_M	0.877	0.64
106_I	109_Y	0.861	0.62
158_V	178_V	0.860	0.62
18_F	204_V	0.854	0.62
63_G	67_G	0.852	0.61
157_T	160_P	0.850	0.61
147_I	150_K	0.847	0.61
54_H	203_H	0.845	0.61
4_Q	9_I	0.845	0.61
46_L	49_G	0.842	0.61
75_Y	159_G	0.840	0.60
133_L	137_L	0.839	0.60
48_A	52_L	0.831	0.60
16_T	168_F	0.831	0.60
113_F	184_F	0.828	0.59
102_T	123_P	0.827	0.59
134_F	188_I	0.821	0.59
78_L	81_S	0.820	0.59
210_K	215_S	0.820	0.59
5_I	9_I	0.820	0.59
66_M	91_G	0.820	0.59
112_L	115_K	0.813	0.58
83_H	150_K	0.811	0.58
3_G	193_F	0.806	0.57
19_I	205_F	0.802	0.57
55_W	59_C	0.798	0.56
202_V	206_S	0.796	0.56
24_Y	55_W	0.793	0.56
16_T	61_V	0.792	0.56
84_M	177_S	0.792	0.56
13_I	106_I	0.792	0.56
59_C	99_A	0.791	0.56
171_D	174_L	0.789	0.56
52_L	89_A	0.787	0.55
82_E	156_T	0.786	0.55
54_H	111_R	0.782	0.55
115_K	119_K	0.778	0.55
113_F	117_I	0.759	0.53
84_M	92_A	0.758	0.53
104_L	132_L	0.756	0.52
15_L	80_I	0.752	0.52
29_D	215_S	0.749	0.52
76_A	96_A	0.738	0.51
8_G	172_A	0.735	0.50
157_T	177_S	0.728	0.50
23_I	168_F	0.727	0.50
26_Y	33_W	0.724	0.49
33_W	202_V	0.714	0.48
146_N	149_S	0.713	0.48
116_R	120_T	0.712	0.48
6_L	175_M	0.706	0.48
64_H	71_P	0.706	0.48
152_F	179_P	0.704	0.47
19_I	23_I	0.704	0.47
9_I	16_T	0.702	0.47
192_V	212_L	0.701	0.47
118_R	131_L	0.700	0.47
155_R	219_Y	0.699	0.47
30_Q	41_L	0.696	0.47
121_S	194_I	0.695	0.47
175_M	178_V	0.692	0.46
37_S	40_L	0.692	0.46
49_G	52_L	0.691	0.46
212_L	215_S	0.679	0.45
102_T	105_V	0.677	0.45
13_I	16_T	0.675	0.45
51_T	129_L	0.674	0.45
82_E	151_G	0.674	0.45
26_Y	29_D	0.671	0.44
104_L	137_L	0.670	0.44
31_F	216_Y	0.666	0.44
107_L	111_R	0.665	0.44
164_E	169_R	0.664	0.44
146_N	165_I	0.663	0.43
57_L	204_V	0.662	0.43
69_L	162_F	0.657	0.43
124_S	199_T	0.657	0.43
133_L	207_L	0.656	0.43
82_E	153_D	0.656	0.43
90_I	148_D	0.654	0.43
99_A	103_G	0.653	0.43
36_K	39_E	0.652	0.42
113_F	145_L	0.650	0.42
22_H	204_V	0.649	0.42
213_T	221_K	0.647	0.42
57_L	61_V	0.646	0.42
66_M	199_T	0.643	0.42
11_P	25_R	0.637	0.41
53_F	63_G	0.632	0.41
98_I	184_F	0.631	0.40
64_H	139_G	0.630	0.40
25_R	37_S	0.628	0.40
61_V	95_P	0.628	0.40
46_L	51_T	0.628	0.40
168_F	171_D	0.626	0.40
59_C	62_G	0.626	0.40
41_L	120_T	0.625	0.40
153_D	164_E	0.625	0.40
26_Y	216_Y	0.624	0.40
16_T	98_I	0.622	0.40
153_D	156_T	0.620	0.39
77_S	199_T	0.620	0.39
164_E	174_L	0.619	0.39
72_E	75_Y	0.614	0.39
64_H	125_D	0.612	0.39
97_G	101_C	0.610	0.39
137_L	169_R	0.609	0.38
46_L	107_L	0.607	0.38
154_Y	182_F	0.607	0.38
122_S	130_L	0.603	0.38
96_A	216_Y	0.601	0.38
26_Y	210_K	0.597	0.37
59_C	221_K	0.596	0.37
128_T	192_V	0.595	0.37
15_L	166_V	0.594	0.37
53_F	71_P	0.593	0.37
7_W	175_M	0.593	0.37
111_R	121_S	0.590	0.37
32_G	128_T	0.589	0.37
124_S	127_L	0.589	0.37
145_L	169_R	0.588	0.37
4_Q	173_S	0.587	0.36
142_A	179_P	0.586	0.36
94_L	102_T	0.584	0.36
185_H	203_H	0.584	0.36
38_S	200_R	0.584	0.36
109_Y	207_L	0.577	0.36
58_L	61_V	0.574	0.35
162_F	193_F	0.573	0.35
94_L	151_G	0.573	0.35
144_F	184_F	0.568	0.35
83_H	104_L	0.568	0.35
69_L	166_V	0.567	0.35
169_R	176_E	0.567	0.35
51_T	75_Y	0.565	0.34
43_K	216_Y	0.561	0.34
91_G	123_P	0.560	0.34
86_H	219_Y	0.560	0.34
10_M	194_I	0.559	0.34
177_S	183_K	0.557	0.34
110_R	203_H	0.554	0.34
191_V	209_L	0.553	0.33
57_L	90_I	0.551	0.33
125_D	200_R	0.541	0.32
140_V	187_V	0.539	0.32
46_L	182_F	0.538	0.32
35_A	41_L	0.534	0.32
162_F	178_V	0.531	0.32
178_V	186_I	0.531	0.32
148_D	159_G	0.530	0.31
49_G	104_L	0.530	0.31
8_G	106_I	0.529	0.31
17_I	181_W	0.529	0.31
123_P	130_L	0.528	0.31
99_A	147_I	0.527	0.31
25_R	103_G	0.525	0.31
40_L	138_S	0.525	0.31
7_W	85_Y	0.525	0.31
86_H	155_R	0.523	0.31
103_G	175_M	0.523	0.31
21_G	125_D	0.523	0.31
78_L	95_P	0.522	0.31
95_P	146_N	0.522	0.31
66_M	148_D	0.522	0.31
16_T	188_I	0.520	0.31
51_T	55_W	0.519	0.31
164_E	171_D	0.518	0.30
72_E	77_S	0.516	0.30
67_G	103_G	0.514	0.30
113_F	179_P	0.513	0.30
95_P	212_L	0.512	0.30
197_P	203_H	0.512	0.30
10_M	14_V	0.512	0.30
62_G	95_P	0.512	0.30
116_R	119_K	0.511	0.30
19_I	167_L	0.511	0.30
124_S	165_I	0.510	0.30
155_R	163_R	0.510	0.30
55_W	58_L	0.507	0.30
23_I	184_F	0.506	0.30
65_V	69_L	0.505	0.29
70_I	163_R	0.504	0.29
158_V	174_L	0.502	0.29
28_H	116_R	0.501	0.29
131_L	192_V	0.500	0.29
38_S	111_R	0.500	0.29

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
1q16C	2	0.991	100	0.331	Contact Map
2wswA	3	0.87	30.6	0.952	Contact Map
2l2tA	2	0.1839	30.3	0.952	Contact Map
2kluA	1	0.2332	9.3	0.962	Contact Map
2ks1B	1	0.1839	9.2	0.962	Contact Map
2m20A	2	0.2556	5.7	0.966	Contact Map
4p6vD	1	0.4439	5	0.967	Contact Map
2l9uA	2	0.1794	4.7	0.967	Contact Map
4c7rA	3	0.8969	4.1	0.968	Contact Map
1iijA	1	0.1435	3.4	0.969	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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