NARJ - ECOLI - GREMLIN Contacts

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NARJ - Nitrate reductase molybdenum cofactor assembly chaperone NarJ

UniProt:	P0AF26	Sequences: MIELVIVSRLLEYPDAALWQHQQEMFEAIAASKNLPKEDAHALGIFLRDLTTMDPLDAQAQYSELFDRGRATSLLLFEHVHGESRDRGQAMVDLLAQYEQHGLQLNSRELPDHLPLYLEYLAQLPQSEAVEGLKDIAPILALLSARLQQRESRYAVLFDLLLKLANTAIDSDKVAEKIADEARDDTPQALDAVWEEEQVKFFADKGCGDSAITAHQRRFAGAVAPQYLNITTGGQH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10641
Length:	236 (187)
Sequences:	665 (494)
Seq/√Len:	36.2

ECOLI - NARJ NARW
BACSU - NARJ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_F	157_L	4.686	1.00
113_H	116_L	4.049	1.00
26_F	51_T	3.904	1.00
55_P	59_Q	3.686	1.00
6_I	25_M	3.398	1.00
26_F	48_R	3.189	1.00
96_A	100_Q	2.936	1.00
45_I	156_V	2.835	1.00
49_D	153_R	2.573	1.00
7_V	161_L	2.553	1.00
148_Q	159_D	2.507	1.00
46_F	156_V	2.341	1.00
144_S	162_L	2.328	0.99
99_E	104_Q	2.298	0.99
23_Q	51_T	2.263	0.99
63_S	67_D	2.228	0.99
7_V	157_L	2.222	0.99
18_L	50_L	2.199	0.99
141_A	144_S	2.199	0.99
16_A	59_Q	2.161	0.99
96_A	99_E	2.094	0.99
46_F	50_L	2.055	0.99
49_D	61_Q	2.042	0.99
117_Y	132_G	1.888	0.98
21_H	24_E	1.802	0.97
4_L	164_L	1.800	0.97
142_L	179_A	1.790	0.97
43_L	157_L	1.779	0.97
121_L	129_A	1.776	0.97
65_L	152_S	1.751	0.96
5_V	8_S	1.729	0.96
22_Q	51_T	1.677	0.95
72_T	146_R	1.616	0.94
131_E	135_D	1.576	0.93
23_Q	27_E	1.575	0.93
105_L	116_L	1.530	0.92
143_L	158_F	1.506	0.92
16_A	20_Q	1.505	0.92
56_L	60_A	1.494	0.91
22_Q	47_L	1.473	0.91
68_R	78_E	1.458	0.90
94_L	97_Q	1.447	0.90
42_A	45_I	1.435	0.90
94_L	125_P	1.430	0.90
4_L	121_L	1.425	0.89
54_D	57_D	1.403	0.89
97_Q	132_G	1.375	0.88
81_H	90_A	1.367	0.87
177_K	181_E	1.350	0.87
25_M	29_I	1.330	0.86
6_I	60_A	1.326	0.86
184_D	187_P	1.297	0.84
50_L	58_A	1.280	0.83
8_S	21_H	1.261	0.83
26_F	44_G	1.256	0.82
146_R	185_D	1.246	0.82
95_L	99_E	1.242	0.82
77_F	94_L	1.239	0.81
98_Y	120_Y	1.226	0.81
69_G	150_R	1.222	0.81
12_E	113_H	1.220	0.80
53_M	61_Q	1.217	0.80
81_H	94_L	1.215	0.80
25_M	28_A	1.215	0.80
86_D	91_M	1.208	0.80
95_L	105_L	1.197	0.79
74_L	115_P	1.190	0.79
62_Y	82_G	1.174	0.78
170_D	175_A	1.167	0.77
79_H	139_I	1.161	0.77
137_A	174_V	1.141	0.76
9_R	21_H	1.136	0.75
20_Q	23_Q	1.134	0.75
70_R	78_E	1.134	0.75
29_I	40_A	1.123	0.75
72_T	143_L	1.120	0.74
41_H	171_S	1.120	0.74
56_L	91_M	1.115	0.74
7_V	160_L	1.101	0.73
30_A	44_G	1.095	0.73
4_L	124_L	1.095	0.73
45_I	125_P	1.092	0.72
182_A	188_Q	1.070	0.71
91_M	110_L	1.064	0.70
10_L	77_F	1.061	0.70
81_H	86_D	1.060	0.70
61_Q	154_Y	1.025	0.68
101_H	123_Q	1.021	0.67
47_L	53_M	1.021	0.67
59_Q	150_R	1.012	0.66
4_L	103_L	1.010	0.66
5_V	24_E	1.005	0.66
83_E	189_A	1.003	0.66
142_L	186_T	0.996	0.65
38_E	127_S	0.991	0.65
79_H	154_Y	0.981	0.64
130_V	134_K	0.979	0.64
101_H	120_Y	0.961	0.62
160_L	166_N	0.948	0.61
83_E	146_R	0.944	0.61
80_V	139_I	0.943	0.61
148_Q	155_A	0.939	0.61
139_I	189_A	0.928	0.60
80_V	136_I	0.923	0.59
50_L	67_D	0.906	0.58
78_E	117_Y	0.904	0.58
41_H	45_I	0.903	0.58
56_L	72_T	0.903	0.58
21_H	60_A	0.900	0.57
74_L	142_L	0.893	0.57
124_L	128_E	0.881	0.56
6_I	160_L	0.878	0.55
74_L	110_L	0.877	0.55
5_V	98_Y	0.867	0.54
44_G	47_L	0.861	0.54
103_L	124_L	0.842	0.52
53_M	58_A	0.841	0.52
21_H	25_M	0.838	0.52
28_A	67_D	0.836	0.52
3_E	35_L	0.836	0.52
138_P	142_L	0.832	0.51
28_A	31_A	0.832	0.51
172_D	175_A	0.830	0.51
89_Q	136_I	0.829	0.51
172_D	191_D	0.814	0.50
176_E	180_D	0.812	0.50
126_Q	143_L	0.808	0.49
144_S	158_F	0.808	0.49
31_A	57_D	0.804	0.49
73_S	99_E	0.801	0.49
17_A	21_H	0.801	0.49
69_G	184_D	0.788	0.48
19_W	23_Q	0.784	0.47
75_L	101_H	0.782	0.47
90_A	105_L	0.780	0.47
5_V	103_L	0.778	0.47
105_L	120_Y	0.775	0.46
46_F	61_Q	0.771	0.46
97_Q	117_Y	0.771	0.46
3_E	44_G	0.768	0.46
134_K	142_L	0.760	0.45
137_A	165_A	0.756	0.45
92_V	191_D	0.751	0.44
104_Q	181_E	0.745	0.44
69_G	72_T	0.742	0.44
6_I	29_I	0.738	0.43
67_D	107_S	0.735	0.43
10_L	90_A	0.733	0.43
137_A	183_R	0.731	0.43
70_R	90_A	0.730	0.43
73_S	139_I	0.725	0.42
6_I	135_D	0.723	0.42
60_A	64_E	0.719	0.42
56_L	103_L	0.718	0.42
162_L	168_A	0.717	0.42
98_Y	118_L	0.714	0.41
78_E	137_A	0.710	0.41
3_E	17_A	0.709	0.41
42_A	156_V	0.708	0.41
64_E	69_G	0.706	0.41
17_A	20_Q	0.703	0.40
95_L	144_S	0.703	0.40
90_A	110_L	0.699	0.40
27_E	128_E	0.691	0.39
182_A	189_A	0.679	0.38
72_T	79_H	0.679	0.38
11_L	136_I	0.675	0.38
154_Y	168_A	0.673	0.38
27_E	140_L	0.669	0.38
85_R	114_L	0.667	0.37
10_L	79_H	0.663	0.37
44_G	50_L	0.662	0.37
22_Q	157_L	0.661	0.37
11_L	133_L	0.660	0.37
182_A	186_T	0.660	0.37
98_Y	161_L	0.653	0.36
120_Y	192_A	0.652	0.36
43_L	190_L	0.651	0.36
81_H	98_Y	0.650	0.36
140_L	190_L	0.650	0.36
93_D	150_R	0.650	0.36
144_S	167_T	0.647	0.36
12_E	161_L	0.646	0.36
7_V	164_L	0.645	0.36
50_L	157_L	0.644	0.35
84_S	189_A	0.643	0.35
86_D	162_L	0.643	0.35
4_L	9_R	0.642	0.35
73_S	89_Q	0.642	0.35
117_Y	140_L	0.641	0.35
74_L	161_L	0.637	0.35
79_H	94_L	0.636	0.35
8_S	130_V	0.634	0.35
29_I	35_L	0.633	0.35
136_I	184_D	0.630	0.34
15_D	151_E	0.628	0.34
98_Y	111_P	0.628	0.34
5_V	123_Q	0.627	0.34
36_P	163_K	0.626	0.34
109_E	143_L	0.622	0.34
39_D	163_K	0.620	0.34
27_E	42_A	0.620	0.34
100_Q	175_A	0.617	0.33
3_E	29_I	0.616	0.33
6_I	130_V	0.615	0.33
29_I	122_A	0.614	0.33
188_Q	192_A	0.611	0.33
31_A	127_S	0.608	0.33
114_L	178_I	0.606	0.33
148_Q	175_A	0.604	0.32
5_V	9_R	0.602	0.32
138_P	145_A	0.600	0.32
119_E	155_A	0.598	0.32
8_S	19_W	0.598	0.32
73_S	81_H	0.597	0.32
77_F	93_D	0.597	0.32
167_T	170_D	0.596	0.32
55_P	73_S	0.592	0.31
18_L	41_H	0.591	0.31
3_E	39_D	0.589	0.31
20_Q	127_S	0.589	0.31
50_L	125_P	0.588	0.31
53_M	57_D	0.583	0.31
149_Q	173_K	0.581	0.31
89_Q	117_Y	0.579	0.30
8_S	113_H	0.579	0.30
19_W	25_M	0.577	0.30
100_Q	151_E	0.573	0.30
30_A	37_K	0.572	0.30
12_E	143_L	0.569	0.30
117_Y	136_I	0.569	0.30
181_E	184_D	0.568	0.30
68_R	83_E	0.568	0.30
41_H	48_R	0.567	0.30
132_G	190_L	0.565	0.29
94_L	103_L	0.558	0.29
75_L	81_H	0.557	0.29
62_Y	67_D	0.557	0.29
89_Q	92_V	0.556	0.29
83_E	183_R	0.556	0.29
75_L	138_P	0.554	0.29
83_E	86_D	0.552	0.29
38_E	44_G	0.551	0.28
134_K	181_E	0.550	0.28
48_R	61_Q	0.549	0.28
111_P	143_L	0.547	0.28
20_Q	27_E	0.547	0.28
70_R	185_D	0.543	0.28
68_R	138_P	0.541	0.28
98_Y	129_A	0.540	0.28
79_H	86_D	0.536	0.27
9_R	178_I	0.533	0.27
121_L	139_I	0.532	0.27
71_A	75_L	0.531	0.27
58_A	133_L	0.531	0.27
100_Q	125_P	0.527	0.27
15_D	19_W	0.527	0.27
41_H	127_S	0.525	0.27
78_E	83_E	0.524	0.27
30_A	41_H	0.523	0.27
155_A	161_L	0.523	0.27
25_M	70_R	0.522	0.26
75_L	115_P	0.519	0.26
103_L	150_R	0.518	0.26
64_E	167_T	0.517	0.26
5_V	164_L	0.517	0.26
86_D	139_I	0.515	0.26
101_H	125_P	0.514	0.26
18_L	59_Q	0.511	0.26
37_K	151_E	0.510	0.26
103_L	123_Q	0.509	0.26
145_A	149_Q	0.508	0.26
104_Q	122_A	0.508	0.26
131_E	177_K	0.505	0.25
181_E	185_D	0.505	0.25
52_T	57_D	0.504	0.25
69_G	75_L	0.502	0.25
178_I	182_A	0.501	0.25
3_E	176_E	0.500	0.25
8_S	122_A	0.500	0.25

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
2o9xA	2	0.6314	99.9	0.697	Contact Map
1n1cA	2	0.7542	99.9	0.725	Contact Map
1s9uA	1	0.7415	99.8	0.744	Contact Map
2xolA	2	0.6398	97.5	0.901	Contact Map
4jcyA	2	0.1949	17.9	0.964	Contact Map
2yskA	2	0.5678	9.7	0.968	Contact Map
3v57A	1	0.2331	8.1	0.969	Contact Map
2nxoA	2	0.2585	6.9	0.97	Contact Map
3ivpA	2	0.2331	5.7	0.971	Contact Map
3viqB	1	0.322	5.5	0.971	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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