NARV - ECOLI - GREMLIN Contacts

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NARV - Respiratory nitrate reductase 2 gamma chain

UniProt:	P0AF32	Sequences: MIQYLNVFFYDIYPYICATVFFLGSWLRYDYGQYTWRASSSQMLDKRGMVIWSNLFHIGILGIFFGHLFGMLTPHWMYAWFLPVAAKQLMAMVLGGICGVLTLIGGAGLLWRRLTNQRVRATSTTPDIIIMSILLIQCLLGLSTIPFSAQYPDGSEMMKLVGWAQSIVTFRGGSSEMLNGVAFVFRLHLVLGMTIFLLFPFTRLVHVWSAPFEYFTRRYQIVRSRR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10644
Length:	226 (219)
Sequences:	1080 (663)
Seq/√Len:	44.8

ECOLI - NARV NARI
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
52_W	108_G	5.083	1.00
173_G	176_E	4.675	1.00
99_G	142_L	3.044	1.00
20_V	197_L	3.021	1.00
92_M	149_A	2.782	1.00
20_V	201_F	2.772	1.00
129_I	198_L	2.714	1.00
8_F	16_I	2.683	1.00
137_Q	192_G	2.570	1.00
21_F	25_S	2.539	1.00
76_W	80_W	2.496	1.00
195_I	204_L	2.466	1.00
120_R	128_I	2.422	1.00
183_F	187_L	2.410	1.00
83_P	86_A	2.403	1.00
13_Y	194_T	2.370	1.00
114_L	120_R	2.343	1.00
78_Y	84_V	2.232	1.00
59_G	105_G	2.202	1.00
19_T	23_L	2.194	1.00
55_L	104_I	2.183	1.00
60_I	102_T	2.115	1.00
126_P	198_L	2.047	0.99
86_A	90_M	2.021	0.99
63_I	102_T	1.975	0.99
9_F	190_V	1.936	0.99
75_H	155_S	1.869	0.99
133_I	198_L	1.856	0.99
90_M	94_L	1.815	0.99
189_L	193_M	1.812	0.99
25_S	208_W	1.792	0.98
137_Q	191_L	1.769	0.98
63_I	99_G	1.762	0.98
62_G	94_L	1.715	0.98
62_G	98_C	1.707	0.98
55_L	101_L	1.677	0.98
93_V	97_I	1.629	0.97
106_G	135_L	1.615	0.97
18_A	167_I	1.610	0.97
114_L	128_I	1.599	0.97
125_T	129_I	1.580	0.96
199_F	207_V	1.559	0.96
103_L	135_L	1.552	0.96
61_L	65_F	1.548	0.96
213_E	216_T	1.533	0.96
85_A	89_L	1.521	0.96
143_S	147_F	1.504	0.95
45_D	116_N	1.498	0.95
36_W	209_S	1.428	0.94
107_A	111_W	1.420	0.94
110_L	128_I	1.413	0.93
75_H	78_Y	1.413	0.93
6_N	179_N	1.394	0.93
111_W	115_T	1.383	0.93
116_N	119_V	1.370	0.92
82_L	86_A	1.347	0.92
77_M	81_F	1.346	0.92
44_L	118_R	1.340	0.92
23_L	26_W	1.339	0.91
103_L	139_L	1.328	0.91
41_S	44_L	1.323	0.91
42_Q	46_K	1.300	0.90
75_H	84_V	1.294	0.90
198_L	202_T	1.293	0.90
33_Q	36_W	1.293	0.90
110_L	114_L	1.288	0.90
17_C	193_M	1.281	0.90
12_I	172_G	1.270	0.89
102_T	138_C	1.259	0.89
107_A	135_L	1.250	0.88
67_H	112_R	1.248	0.88
164_A	168_V	1.216	0.87
20_V	23_L	1.213	0.87
100_V	104_I	1.205	0.86
89_L	93_V	1.201	0.86
44_L	130_I	1.200	0.86
156_E	159_K	1.195	0.86
156_E	161_V	1.195	0.86
78_Y	81_F	1.195	0.86
75_H	158_M	1.186	0.86
97_I	101_L	1.185	0.86
156_E	182_A	1.172	0.85
39_S	124_T	1.165	0.85
87_K	157_M	1.154	0.84
190_V	194_T	1.154	0.84
25_S	199_F	1.145	0.83
110_L	133_I	1.144	0.83
17_C	197_L	1.134	0.83
80_W	83_P	1.134	0.83
154_G	185_F	1.118	0.82
48_G	52_W	1.115	0.82
15_Y	172_G	1.109	0.81
133_I	137_Q	1.105	0.81
133_I	136_I	1.104	0.81
45_D	49_M	1.097	0.81
140_L	187_L	1.093	0.81
8_F	86_A	1.090	0.80
25_S	205_V	1.079	0.80
78_Y	155_S	1.076	0.79
67_H	188_H	1.071	0.79
77_M	80_W	1.068	0.79
11_D	175_S	1.065	0.79
89_L	152_P	1.064	0.79
133_I	191_L	1.062	0.79
21_F	199_F	1.057	0.78
85_A	152_P	1.049	0.78
106_G	110_L	1.032	0.77
21_F	208_W	1.023	0.76
76_W	161_V	1.013	0.75
48_G	111_W	1.009	0.75
128_I	132_S	1.006	0.75
91_A	96_G	1.005	0.75
40_S	44_L	1.000	0.74
113_R	206_H	0.999	0.74
27_L	32_G	0.996	0.74
75_H	161_V	0.995	0.74
47_R	211_P	0.987	0.73
6_N	186_R	0.984	0.73
141_G	188_H	0.981	0.73
112_R	188_H	0.976	0.72
123_S	128_I	0.973	0.72
65_F	69_F	0.972	0.72
130_I	198_L	0.972	0.72
12_I	23_L	0.952	0.71
213_E	218_R	0.952	0.71
84_V	161_V	0.950	0.70
19_T	64_F	0.943	0.70
120_R	123_S	0.940	0.70
12_I	170_F	0.939	0.69
203_R	214_Y	0.937	0.69
110_L	135_L	0.926	0.68
123_S	131_M	0.920	0.68
144_T	160_L	0.919	0.68
140_L	191_L	0.917	0.68
64_F	136_I	0.903	0.66
60_I	65_F	0.898	0.66
132_S	136_I	0.897	0.66
143_S	184_V	0.886	0.65
27_L	58_I	0.872	0.64
45_D	119_V	0.867	0.63
104_I	125_T	0.860	0.63
135_L	139_L	0.857	0.62
7_V	12_I	0.856	0.62
23_L	27_L	0.854	0.62
57_H	206_H	0.846	0.61
159_K	162_G	0.838	0.61
136_I	191_L	0.836	0.60
147_F	150_Q	0.831	0.60
51_I	55_L	0.831	0.60
87_K	164_A	0.829	0.60
39_S	218_R	0.829	0.60
16_I	108_G	0.828	0.60
21_F	207_V	0.827	0.60
22_F	208_W	0.827	0.60
115_T	187_L	0.820	0.59
29_Y	32_G	0.819	0.59
205_V	209_S	0.816	0.58
77_M	161_V	0.811	0.58
33_Q	44_L	0.811	0.58
176_E	179_N	0.810	0.58
32_G	219_Y	0.802	0.57
103_L	138_C	0.801	0.57
29_Y	36_W	0.799	0.57
66_G	70_G	0.797	0.57
58_I	62_G	0.796	0.57
65_F	68_L	0.791	0.56
218_R	224_S	0.780	0.55
49_M	54_N	0.778	0.55
69_F	93_V	0.775	0.55
54_N	131_M	0.774	0.54
173_G	177_M	0.772	0.54
106_G	134_L	0.768	0.54
170_F	173_G	0.768	0.54
108_G	111_W	0.763	0.53
6_N	175_S	0.762	0.53
159_K	180_G	0.762	0.53
110_L	195_I	0.762	0.53
57_H	113_R	0.753	0.52
135_L	210_A	0.752	0.52
8_F	12_I	0.750	0.52
19_T	170_F	0.750	0.52
114_L	117_Q	0.738	0.51
16_I	19_T	0.738	0.51
76_W	79_A	0.733	0.51
62_G	101_L	0.728	0.50
156_E	185_F	0.728	0.50
41_S	203_R	0.723	0.50
210_A	213_E	0.720	0.49
115_T	119_V	0.718	0.49
52_W	55_L	0.718	0.49
117_Q	121_A	0.715	0.49
64_F	97_I	0.712	0.48
30_D	33_Q	0.711	0.48
39_S	43_M	0.711	0.48
118_R	122_T	0.709	0.48
84_V	158_M	0.709	0.48
195_I	215_F	0.704	0.48
60_I	207_V	0.704	0.48
149_A	154_G	0.703	0.48
86_A	180_G	0.702	0.48
35_T	130_I	0.702	0.48
31_Y	44_L	0.700	0.47
36_W	205_V	0.700	0.47
150_Q	175_S	0.693	0.47
12_I	19_T	0.691	0.46
9_F	178_L	0.690	0.46
72_L	164_A	0.688	0.46
26_W	170_F	0.679	0.45
160_L	181_V	0.677	0.45
164_A	196_F	0.670	0.44
32_G	218_R	0.664	0.44
124_T	132_S	0.655	0.43
72_L	168_V	0.654	0.43
178_L	181_V	0.654	0.43
125_T	132_S	0.652	0.43
109_L	113_R	0.649	0.42
25_S	207_V	0.646	0.42
22_F	26_W	0.644	0.42
61_L	64_F	0.642	0.42
27_L	30_D	0.637	0.41
126_P	202_T	0.637	0.41
100_V	187_L	0.634	0.41
116_N	213_E	0.630	0.41
115_T	147_F	0.629	0.41
62_G	65_F	0.629	0.41
13_Y	197_L	0.627	0.40
67_H	74_P	0.624	0.40
49_M	52_W	0.621	0.40
139_L	171_R	0.621	0.40
215_F	218_R	0.619	0.40
194_T	212_F	0.619	0.40
106_G	139_L	0.616	0.39
166_S	177_M	0.611	0.39
123_S	197_L	0.610	0.39
104_I	107_A	0.609	0.39
166_S	171_R	0.608	0.39
67_H	141_G	0.607	0.39
148_S	167_I	0.607	0.39
146_P	187_L	0.606	0.38
49_M	109_L	0.606	0.38
216_T	224_S	0.605	0.38
86_A	94_L	0.605	0.38
46_K	219_Y	0.603	0.38
62_G	76_W	0.603	0.38
10_Y	178_L	0.603	0.38
69_F	202_T	0.602	0.38
43_M	140_L	0.600	0.38
154_G	182_A	0.600	0.38
50_V	213_E	0.600	0.38
56_F	66_G	0.600	0.38
151_Y	154_G	0.599	0.38
98_C	219_Y	0.599	0.38
24_G	127_D	0.599	0.38
18_A	82_L	0.598	0.38
105_G	178_L	0.591	0.37
44_L	122_T	0.586	0.37
112_R	206_H	0.586	0.37
34_Y	40_S	0.585	0.36
60_I	64_F	0.581	0.36
97_I	215_F	0.580	0.36
126_P	129_I	0.580	0.36
157_M	222_V	0.578	0.36
76_W	81_F	0.577	0.36
127_D	203_R	0.577	0.36
113_R	123_S	0.576	0.36
152_P	175_S	0.576	0.36
35_T	220_Q	0.575	0.36
34_Y	219_Y	0.574	0.36
44_L	114_L	0.574	0.36
55_L	91_A	0.574	0.36
31_Y	43_M	0.572	0.35
49_M	185_F	0.569	0.35
39_S	42_Q	0.568	0.35
38_A	142_L	0.568	0.35
62_G	224_S	0.565	0.35
100_V	171_R	0.563	0.35
54_N	58_I	0.562	0.34
101_L	105_G	0.562	0.34
68_L	172_G	0.559	0.34
120_R	133_I	0.559	0.34
6_N	140_L	0.558	0.34
67_H	127_D	0.558	0.34
84_V	153_D	0.557	0.34
60_I	134_L	0.553	0.34
99_G	103_L	0.553	0.34
36_W	41_S	0.553	0.34
96_G	104_I	0.553	0.34
164_A	181_V	0.553	0.34
11_D	166_S	0.547	0.33
62_G	85_A	0.546	0.33
52_W	106_G	0.546	0.33
29_Y	84_V	0.546	0.33
13_Y	17_C	0.545	0.33
37_R	40_S	0.545	0.33
103_L	183_F	0.545	0.33
180_G	186_R	0.543	0.33
27_L	34_Y	0.538	0.32
181_V	189_L	0.538	0.32
118_R	121_A	0.538	0.32
20_V	184_V	0.536	0.32
188_H	206_H	0.534	0.32
93_V	125_T	0.533	0.32
13_Y	190_V	0.532	0.32
28_R	105_G	0.530	0.32
155_S	158_M	0.528	0.32
176_E	221_I	0.525	0.31
88_Q	222_V	0.523	0.31
166_S	173_G	0.522	0.31
69_F	151_Y	0.520	0.31
14_P	28_R	0.520	0.31
64_F	164_A	0.520	0.31
40_S	163_W	0.519	0.31
126_P	167_I	0.518	0.31
152_P	184_V	0.518	0.31
81_F	156_E	0.517	0.31
8_F	125_T	0.516	0.31
6_N	196_F	0.515	0.30
146_P	154_G	0.512	0.30
130_I	195_I	0.511	0.30
23_L	209_S	0.510	0.30
147_F	171_R	0.507	0.30
142_L	190_V	0.505	0.30
19_T	136_I	0.505	0.30
7_V	175_S	0.505	0.30
77_M	156_E	0.504	0.30
110_L	126_P	0.502	0.29
85_A	106_G	0.500	0.29
160_L	177_M	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	0.9912	100	0.33	Contact Map
2l2tA	2	0.1814	31.1	0.953	Contact Map
2wswA	3	0.8982	17.3	0.958	Contact Map
2kluA	1	0.2301	12.2	0.961	Contact Map
2ks1B	1	0.1814	10.2	0.962	Contact Map
4c7rA	3	0.8938	9.1	0.963	Contact Map
2m20A	2	0.2522	8.6	0.963	Contact Map
2l9uA	2	0.177	4.8	0.967	Contact Map
2a65A	2	0.5044	3.5	0.97	Contact Map
1iijA	1	0.1416	3.4	0.97	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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