YJFJ - ECOLI - GREMLIN Contacts

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YJFJ - Uncharacterized protein YjfJ

UniProt:	P0AF78	Sequences: MGILKSLFTLGKSFISQAEESIEETQGVRMLEQHIRDAKAELDKAGKSRVDLLARVKLSHDKLKDLRERKASLEARALEALSKNVNPSLINEVAEEIARLENLITAEEQVLSNLEVSRDGVEKAVTATAQRIAQFEQQMEVVKATEAMQRAQQAVTTSTVGASSSVSTAAESLKRLQTRQAERQARLDAAAQLEKVADGRDLDEKLAEAGIGGSNKSSAQDVLARLQRQQGE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12485
Length:	232 (216)
Sequences:	1616 (1044)
Seq/√Len:	71.0

ECOLI - YJFJ PSPA
BACSU - PSPA LIAH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
81_L	87_P	5.869	1.00
78_L	229_Q	4.780	1.00
70_K	104_I	3.191	1.00
60_H	64_K	3.100	1.00
108_E	112_S	3.025	1.00
74_E	78_L	3.019	1.00
91_N	220_Q	2.970	1.00
63_L	108_E	2.853	1.00
67_R	108_E	2.767	1.00
145_T	184_Q	2.760	1.00
33_Q	37_D	2.730	1.00
221_D	224_A	2.655	1.00
153_Q	186_R	2.497	1.00
97_I	222_V	2.374	1.00
2_G	5_K	2.361	1.00
32_E	139_M	2.345	1.00
138_Q	177_Q	2.307	1.00
150_R	154_A	2.294	1.00
46_G	129_A	2.214	1.00
73_L	76_R	2.200	1.00
63_L	104_I	2.143	1.00
56_V	115_E	2.088	1.00
78_L	82_S	2.056	1.00
63_L	67_R	2.041	1.00
39_K	136_E	2.020	1.00
112_S	116_V	2.018	1.00
87_P	227_Q	2.012	1.00
67_R	104_I	1.995	1.00
78_L	226_L	1.952	1.00
72_S	76_R	1.949	1.00
101_E	105_T	1.933	1.00
134_Q	138_Q	1.907	1.00
8_F	12_K	1.874	1.00
224_A	228_R	1.873	1.00
6_S	23_E	1.848	1.00
225_R	229_Q	1.835	1.00
49_R	121_V	1.794	1.00
74_E	225_R	1.776	1.00
74_E	229_Q	1.751	1.00
105_T	108_E	1.737	1.00
201_D	204_E	1.729	1.00
70_K	101_E	1.726	1.00
71_A	75_A	1.720	1.00
182_E	186_R	1.704	1.00
14_F	29_R	1.678	1.00
33_Q	36_R	1.668	1.00
225_R	228_R	1.655	1.00
72_S	75_A	1.638	0.99
220_Q	224_A	1.606	0.99
116_V	120_G	1.595	0.99
77_A	226_L	1.558	0.99
67_R	71_A	1.543	0.99
222_V	225_R	1.540	0.99
32_E	143_K	1.504	0.99
56_V	118_R	1.494	0.99
149_Q	187_L	1.482	0.99
56_V	60_H	1.476	0.99
102_N	105_T	1.415	0.98
20_E	23_E	1.405	0.98
83_K	86_N	1.370	0.98
89_L	209_A	1.353	0.98
81_L	226_L	1.346	0.98
98_A	218_S	1.343	0.98
22_I	29_R	1.326	0.98
91_N	219_A	1.302	0.97
105_T	109_Q	1.273	0.97
115_E	119_D	1.244	0.96
87_P	182_E	1.240	0.96
12_K	37_D	1.236	0.96
63_L	111_L	1.234	0.96
206_L	210_G	1.227	0.96
58_L	62_K	1.220	0.96
81_L	227_Q	1.219	0.96
86_N	205_K	1.208	0.96
37_D	40_A	1.195	0.95
102_N	218_S	1.186	0.95
13_S	17_Q	1.180	0.95
142_V	180_Q	1.171	0.95
20_E	36_R	1.158	0.95
207_A	210_G	1.151	0.94
97_I	101_E	1.143	0.94
15_I	18_A	1.123	0.94
153_Q	187_L	1.112	0.93
64_K	67_R	1.093	0.93
70_K	97_I	1.088	0.93
64_K	68_E	1.085	0.93
49_R	125_V	1.077	0.92
88_S	205_K	1.073	0.92
119_D	123_K	1.067	0.92
124_A	127_A	1.062	0.92
35_I	132_I	1.062	0.92
60_H	111_L	1.060	0.92
143_K	147_A	1.049	0.91
114_L	118_R	1.035	0.91
208_E	212_G	1.033	0.91
202_L	208_E	1.020	0.90
128_T	135_F	1.006	0.89
63_L	112_S	1.003	0.89
68_E	72_S	0.998	0.89
75_A	78_L	0.984	0.88
79_E	83_K	0.981	0.88
66_L	100_L	0.976	0.88
73_L	96_E	0.955	0.87
146_E	150_R	0.953	0.87
204_E	207_A	0.937	0.86
131_R	134_Q	0.936	0.86
17_Q	29_R	0.934	0.86
37_D	41_E	0.925	0.85
31_L	173_L	0.917	0.84
92_E	95_E	0.910	0.84
203_D	206_L	0.906	0.84
153_Q	157_T	0.906	0.84
30_M	33_Q	0.904	0.84
15_I	22_I	0.903	0.84
96_E	99_R	0.901	0.83
169_A	173_L	0.901	0.83
13_S	21_S	0.900	0.83
221_D	225_R	0.894	0.83
13_S	30_M	0.891	0.83
189_A	193_L	0.889	0.83
42_L	132_I	0.885	0.82
81_L	220_Q	0.877	0.82
9_T	12_K	0.875	0.82
95_E	99_R	0.872	0.81
130_Q	134_Q	0.871	0.81
56_V	111_L	0.865	0.81
77_A	189_A	0.862	0.81
74_E	97_I	0.858	0.80
66_L	103_L	0.847	0.79
175_R	178_T	0.844	0.79
9_T	172_S	0.839	0.79
11_G	18_A	0.832	0.78
41_E	45_A	0.820	0.77
31_L	139_M	0.818	0.77
3_I	15_I	0.817	0.77
178_T	182_E	0.814	0.77
109_Q	224_A	0.811	0.76
60_H	115_E	0.801	0.76
205_K	208_E	0.801	0.76
40_A	44_K	0.801	0.76
18_A	22_I	0.795	0.75
109_Q	112_S	0.784	0.74
69_R	100_L	0.779	0.74
26_Q	29_R	0.778	0.73
94_A	97_I	0.778	0.73
57_K	60_H	0.778	0.73
62_K	65_D	0.777	0.73
126_T	130_Q	0.775	0.73
65_D	71_A	0.773	0.73
223_L	227_Q	0.772	0.73
10_L	31_L	0.772	0.73
17_Q	21_S	0.769	0.73
132_I	172_S	0.767	0.72
49_R	52_L	0.766	0.72
16_S	36_R	0.765	0.72
24_E	29_R	0.765	0.72
205_K	209_A	0.764	0.72
113_N	117_S	0.755	0.71
48_S	147_A	0.753	0.71
53_L	122_E	0.753	0.71
24_E	90_I	0.749	0.71
51_D	69_R	0.745	0.70
144_A	192_Q	0.744	0.70
157_T	190_A	0.742	0.70
39_K	132_I	0.741	0.70
9_T	14_F	0.740	0.70
202_L	206_L	0.740	0.70
59_S	63_L	0.739	0.70
171_E	207_A	0.738	0.69
77_A	94_A	0.735	0.69
156_T	159_T	0.726	0.68
57_K	188_D	0.718	0.67
87_P	91_N	0.714	0.67
31_L	38_A	0.713	0.67
93_V	206_L	0.713	0.67
206_L	209_A	0.712	0.67
9_T	139_M	0.709	0.66
19_E	23_E	0.709	0.66
98_A	219_A	0.707	0.66
54_A	202_L	0.705	0.66
89_L	205_K	0.701	0.65
121_V	151_A	0.698	0.65
73_L	206_L	0.698	0.65
34_H	73_L	0.698	0.65
154_A	157_T	0.697	0.65
157_T	178_T	0.697	0.65
114_L	117_S	0.694	0.65
42_L	58_L	0.692	0.64
107_E	110_V	0.691	0.64
202_L	205_K	0.689	0.64
74_E	81_L	0.686	0.64
226_L	229_Q	0.682	0.63
65_D	119_D	0.680	0.63
66_L	104_I	0.678	0.63
160_V	163_S	0.676	0.63
79_E	191_A	0.676	0.63
61_D	185_A	0.672	0.62
12_K	33_Q	0.666	0.62
73_L	93_V	0.666	0.62
183_R	186_R	0.665	0.61
23_E	30_M	0.663	0.61
74_E	101_E	0.662	0.61
98_A	222_V	0.662	0.61
41_E	191_A	0.659	0.61
155_V	176_L	0.656	0.60
133_A	137_Q	0.653	0.60
140_E	149_Q	0.651	0.60
6_S	13_S	0.649	0.60
110_V	114_L	0.647	0.59
42_L	50_V	0.646	0.59
204_E	221_D	0.641	0.59
26_Q	147_A	0.639	0.58
9_T	30_M	0.638	0.58
70_K	106_A	0.637	0.58
9_T	19_E	0.636	0.58
38_A	135_F	0.634	0.58
117_S	124_A	0.632	0.58
219_A	229_Q	0.631	0.57
79_E	82_S	0.629	0.57
74_E	95_E	0.628	0.57
16_S	152_Q	0.627	0.57
187_L	190_A	0.624	0.57
42_L	45_A	0.623	0.56
111_L	115_E	0.621	0.56
102_N	106_A	0.620	0.56
31_L	176_L	0.620	0.56
101_E	104_I	0.619	0.56
87_P	94_A	0.618	0.56
143_K	146_E	0.617	0.56
55_R	140_E	0.616	0.56
66_L	107_E	0.616	0.56
87_P	90_I	0.614	0.55
208_E	211_I	0.609	0.55
10_L	17_Q	0.607	0.54
6_S	25_T	0.605	0.54
65_D	68_E	0.604	0.54
94_A	128_T	0.602	0.54
11_G	15_I	0.599	0.54
146_E	176_L	0.597	0.53
10_L	20_E	0.596	0.53
172_S	176_L	0.595	0.53
99_R	103_L	0.595	0.53
118_R	122_E	0.594	0.53
84_N	229_Q	0.590	0.52
127_A	130_Q	0.588	0.52
117_S	120_G	0.586	0.52
76_R	93_V	0.581	0.51
76_R	147_A	0.581	0.51
89_L	202_L	0.579	0.51
2_G	65_D	0.579	0.51
52_L	114_L	0.577	0.51
15_I	102_N	0.576	0.51
93_V	131_R	0.576	0.51
58_L	65_D	0.575	0.51
94_A	98_A	0.573	0.50
50_V	58_L	0.573	0.50
35_I	39_K	0.572	0.50
173_L	177_Q	0.572	0.50
65_D	142_V	0.569	0.50
204_E	208_E	0.568	0.50
153_Q	191_A	0.567	0.50
52_L	55_R	0.566	0.50
76_R	79_E	0.564	0.49
32_E	141_V	0.563	0.49
173_L	183_R	0.561	0.49
130_Q	164_S	0.559	0.49
8_F	147_A	0.558	0.49
17_Q	32_E	0.556	0.48
52_L	172_S	0.554	0.48
8_F	30_M	0.554	0.48
30_M	180_Q	0.553	0.48
4_L	153_Q	0.552	0.48
35_I	136_E	0.551	0.48
212_G	217_S	0.550	0.48
41_E	156_T	0.549	0.47
49_R	124_A	0.547	0.47
52_L	148_M	0.546	0.47
25_T	94_A	0.546	0.47
4_L	217_S	0.540	0.46
20_E	30_M	0.540	0.46
150_R	224_A	0.539	0.46
92_E	178_T	0.538	0.46
98_A	102_N	0.538	0.46
95_E	219_A	0.535	0.46
19_E	22_I	0.535	0.46
26_Q	131_R	0.533	0.45
219_A	222_V	0.533	0.45
179_R	182_E	0.532	0.45
5_K	208_E	0.531	0.45
49_R	53_L	0.530	0.45
92_E	205_K	0.529	0.45
148_M	151_A	0.527	0.45
53_L	118_R	0.526	0.45
145_T	149_Q	0.526	0.45
120_G	124_A	0.526	0.45
48_S	122_E	0.524	0.44
42_L	129_A	0.523	0.44
113_N	163_S	0.522	0.44
34_H	176_L	0.522	0.44
26_Q	38_A	0.521	0.44
6_S	19_E	0.520	0.44
219_A	228_R	0.520	0.44
26_Q	32_E	0.520	0.44
34_H	76_R	0.520	0.44
112_S	115_E	0.520	0.44
96_E	110_V	0.520	0.44
108_E	212_G	0.519	0.44
122_E	125_V	0.519	0.44
57_K	61_D	0.517	0.44
69_R	72_S	0.516	0.43
9_T	132_I	0.515	0.43
32_E	193_L	0.514	0.43
30_M	34_H	0.511	0.43
76_R	86_N	0.510	0.43
55_R	59_S	0.509	0.43
115_E	133_A	0.509	0.43
11_G	131_R	0.508	0.42
9_T	46_G	0.508	0.42
207_A	211_I	0.507	0.42
68_E	130_Q	0.505	0.42
21_S	87_P	0.504	0.42
89_L	174_K	0.502	0.42
12_K	19_E	0.500	0.42
105_T	208_E	0.500	0.42

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
1i84S	2	0.4181	95.3	0.877	Contact Map
1c1gA	2	0.944	87.2	0.903	Contact Map
3ojaB	1	0.5474	82.7	0.908	Contact Map
2gd5A	2	0.6853	82.1	0.909	Contact Map
4abmA	2	0.3405	81.8	0.909	Contact Map
2dfsA	2	0.5345	74	0.915	Contact Map
3vkgA	2	0.8922	71.1	0.917	Contact Map
4cgkA	3	0.6379	67.8	0.919	Contact Map
3frtA	1	0.5991	64	0.921	Contact Map
4iloA	3	0.7155	63	0.922	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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