YQJF - BACSU - GREMLIN Contacts

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YQJF - Uncharacterized protein YqjF

UniProt:	P54543	Sequences: MTERFQQKNISVPDGIWIMRQTWNDVLFAHWPVDVSILRALVPSVLELDTYNGQAWISMLPFMLTNLRARYLPVIPGARAFPELNLRTYVTYKGKPGIYFFSLDADHRLAVLGARTFFHLPYFYADMKSEKNGDAIDYVSKRKNDKEAAFHAAYRPISAPFTAEKDSLDYWLTERYRLYTTYRNKLYYEDIHHHPWLLQNAEAEISVNTVTDAHGITLPESDPLLHYAKKQDVLFWPLRKWS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	242 (222)
Sequences:	586 (458)
Seq/√Len:	30.7

BACSU - YQJF
HALSA - Q9HP94

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
39_R	42_V	5.206	1.00
32_P	54_Q	4.469	1.00
29_A	225_L	3.985	1.00
64_L	67_L	3.873	1.00
60_L	98_I	3.783	1.00
38_L	48_L	3.343	1.00
199_Q	229_K	3.026	1.00
55_A	88_T	2.926	1.00
177_R	188_Y	2.917	1.00
86_L	211_T	2.881	1.00
49_D	175_R	2.740	1.00
135_A	153_A	2.576	1.00
27_L	154_Y	2.512	0.99
32_P	56_W	2.471	0.99
84_L	127_M	2.364	0.99
155_R	202_E	2.309	0.99
194_H	232_D	2.301	0.99
127_M	140_S	2.210	0.99
105_A	111_V	2.149	0.98
30_H	226_H	2.068	0.98
82_P	106_D	1.979	0.97
69_A	110_A	1.977	0.97
166_D	169_D	1.963	0.97
33_V	180_T	1.952	0.97
45_V	92_Y	1.948	0.97
25_D	229_K	1.924	0.97
41_L	101_F	1.857	0.96
47_E	91_T	1.844	0.96
114_A	122_Y	1.820	0.95
120_L	178_L	1.796	0.95
39_R	48_L	1.786	0.95
23_W	62_F	1.743	0.94
34_D	54_Q	1.689	0.93
62_F	83_E	1.678	0.93
22_T	228_A	1.668	0.92
50_T	55_A	1.666	0.92
119_H	182_Y	1.659	0.92
23_W	85_N	1.654	0.92
167_S	170_Y	1.628	0.91
23_W	83_E	1.550	0.89
21_Q	178_L	1.548	0.89
85_N	100_F	1.546	0.89
130_E	137_D	1.544	0.89
25_D	46_L	1.542	0.89
26_V	60_L	1.526	0.89
24_N	65_T	1.506	0.88
25_D	131_K	1.495	0.88
203_A	225_L	1.494	0.87
104_D	125_A	1.491	0.87
219_P	223_P	1.489	0.87
82_P	129_S	1.481	0.87
61_P	152_A	1.468	0.87
25_D	227_Y	1.439	0.85
151_H	209_T	1.438	0.85
112_L	116_T	1.434	0.85
42_V	48_L	1.403	0.84
97_G	188_Y	1.403	0.84
68_R	72_L	1.396	0.84
68_R	73_P	1.376	0.83
17_W	236_W	1.367	0.82
42_V	99_Y	1.359	0.82
38_L	42_V	1.356	0.82
21_Q	235_F	1.353	0.82
220_E	223_P	1.344	0.81
30_H	58_S	1.334	0.81
56_W	169_D	1.331	0.81
139_V	151_H	1.307	0.79
18_I	61_P	1.292	0.79
62_F	81_F	1.290	0.78
168_L	172_L	1.279	0.78
78_A	110_A	1.276	0.78
40_A	48_L	1.273	0.77
33_V	38_L	1.259	0.77
123_F	142_R	1.248	0.76
131_K	134_D	1.238	0.75
64_L	233_V	1.234	0.75
46_L	88_T	1.231	0.75
192_H	236_W	1.229	0.75
118_F	189_E	1.183	0.72
37_I	128_K	1.170	0.71
192_H	234_L	1.143	0.69
91_T	96_P	1.110	0.67
64_L	81_F	1.101	0.66
111_V	124_Y	1.099	0.66
84_L	152_A	1.099	0.66
98_I	185_K	1.085	0.65
61_P	65_T	1.076	0.65
46_L	99_Y	1.070	0.64
32_P	223_P	1.062	0.64
187_Y	238_L	1.056	0.63
58_S	169_D	1.053	0.63
67_L	110_A	1.052	0.63
25_D	149_A	1.052	0.63
99_Y	171_W	1.047	0.62
85_N	122_Y	1.044	0.62
162_T	166_D	1.042	0.62
91_T	196_W	1.037	0.62
60_L	64_L	1.035	0.62
84_L	144_N	1.031	0.61
26_V	127_M	1.027	0.61
85_N	193_H	1.025	0.61
166_D	170_Y	1.019	0.60
110_A	120_L	1.012	0.60
61_P	84_L	1.010	0.60
75_I	156_P	0.997	0.59
76_P	211_T	0.995	0.58
119_H	238_L	0.991	0.58
157_I	183_R	0.986	0.58
50_T	123_F	0.985	0.58
62_F	127_M	0.983	0.57
116_T	184_N	0.972	0.57
136_I	156_P	0.966	0.56
27_L	84_L	0.954	0.55
39_R	45_V	0.951	0.55
27_L	174_E	0.943	0.54
46_L	186_L	0.940	0.54
115_R	123_F	0.934	0.54
39_R	184_N	0.933	0.54
38_L	95_K	0.933	0.54
109_L	233_V	0.926	0.53
155_R	200_N	0.925	0.53
154_Y	157_I	0.923	0.53
104_D	123_F	0.920	0.52
34_D	66_N	0.917	0.52
182_Y	187_Y	0.916	0.52
19_M	235_F	0.913	0.52
100_F	176_Y	0.912	0.52
96_P	99_Y	0.912	0.52
29_A	152_A	0.905	0.51
35_V	50_T	0.904	0.51
88_T	101_F	0.900	0.51
30_H	64_L	0.899	0.51
31_W	55_A	0.895	0.50
88_T	99_Y	0.893	0.50
77_G	82_P	0.890	0.50
52_N	56_W	0.887	0.50
184_N	213_A	0.886	0.50
28_F	173_T	0.886	0.50
17_W	234_L	0.881	0.49
79_R	179_Y	0.877	0.49
173_T	198_L	0.866	0.48
172_L	175_R	0.857	0.47
113_G	116_T	0.855	0.47
59_M	76_P	0.853	0.47
96_P	179_Y	0.851	0.47
164_E	225_L	0.845	0.46
178_L	235_F	0.828	0.45
38_L	216_I	0.827	0.45
58_S	225_L	0.820	0.44
64_L	231_Q	0.819	0.44
108_R	124_Y	0.816	0.44
42_V	59_M	0.814	0.44
52_N	147_E	0.814	0.44
108_R	112_L	0.813	0.44
22_T	25_D	0.805	0.43
30_H	79_R	0.801	0.43
78_A	109_L	0.800	0.43
58_S	185_K	0.795	0.43
21_Q	175_R	0.788	0.42
60_L	115_R	0.784	0.42
173_T	196_W	0.782	0.41
51_Y	74_V	0.780	0.41
74_V	80_A	0.780	0.41
57_I	214_H	0.779	0.41
148_A	213_A	0.779	0.41
156_P	227_Y	0.776	0.41
179_Y	213_A	0.775	0.41
19_M	67_L	0.765	0.40
44_S	129_S	0.765	0.40
27_L	176_Y	0.763	0.40
172_L	195_P	0.762	0.40
28_F	121_P	0.759	0.40
148_A	209_T	0.758	0.40
169_D	226_H	0.758	0.40
50_T	170_Y	0.755	0.39
155_R	159_A	0.738	0.38
98_I	226_H	0.733	0.38
176_Y	180_T	0.731	0.38
64_L	118_F	0.731	0.38
128_K	159_A	0.727	0.37
87_R	196_W	0.725	0.37
21_Q	30_H	0.724	0.37
94_G	184_N	0.720	0.37
110_A	178_L	0.718	0.37
63_M	80_A	0.718	0.37
129_S	136_I	0.718	0.37
102_S	214_H	0.716	0.36
26_V	61_P	0.715	0.36
150_F	208_N	0.713	0.36
21_Q	120_L	0.711	0.36
19_M	178_L	0.708	0.36
48_L	88_T	0.708	0.36
185_K	198_L	0.707	0.36
137_D	151_H	0.705	0.36
85_N	176_Y	0.704	0.36
178_L	237_P	0.703	0.35
48_L	191_I	0.701	0.35
83_E	122_Y	0.694	0.35
64_L	113_G	0.694	0.35
33_V	219_P	0.688	0.34
136_I	142_R	0.683	0.34
41_L	57_I	0.682	0.34
162_T	199_Q	0.681	0.34
34_D	37_I	0.681	0.34
22_T	134_D	0.678	0.34
26_V	231_Q	0.676	0.34
73_P	205_I	0.676	0.34
29_A	222_D	0.675	0.33
166_D	209_T	0.674	0.33
122_Y	176_Y	0.673	0.33
67_L	191_I	0.671	0.33
66_N	72_L	0.669	0.33
41_L	216_I	0.664	0.33
20_R	66_N	0.662	0.33
67_L	109_L	0.656	0.32
75_I	97_G	0.651	0.32
85_N	196_W	0.649	0.32
45_V	184_N	0.647	0.31
33_V	99_Y	0.646	0.31
52_N	57_I	0.646	0.31
23_W	28_F	0.645	0.31
81_F	95_K	0.645	0.31
132_N	202_E	0.644	0.31
17_W	70_R	0.644	0.31
190_D	236_W	0.643	0.31
45_V	185_K	0.641	0.31
63_M	126_D	0.640	0.31
38_L	92_Y	0.640	0.31
53_G	94_G	0.638	0.31
93_K	179_Y	0.638	0.31
59_M	152_A	0.636	0.31
22_T	65_T	0.634	0.31
137_D	200_N	0.634	0.31
65_T	182_Y	0.629	0.30
55_A	219_P	0.626	0.30
153_A	156_P	0.620	0.30
19_M	189_E	0.617	0.29
135_A	155_R	0.612	0.29
151_H	155_R	0.611	0.29
197_L	201_A	0.609	0.29
104_D	142_R	0.608	0.29
52_N	164_E	0.607	0.29
106_D	151_H	0.607	0.29
147_E	156_P	0.604	0.29
138_Y	200_N	0.603	0.29
213_A	219_P	0.603	0.29
109_L	165_K	0.602	0.28
106_D	127_M	0.599	0.28
109_L	116_T	0.597	0.28
99_Y	186_L	0.596	0.28
58_S	227_Y	0.595	0.28
150_F	189_E	0.595	0.28
107_H	238_L	0.591	0.28
26_V	46_L	0.591	0.28
41_L	115_R	0.590	0.28
58_S	226_H	0.590	0.28
191_I	235_F	0.589	0.28
102_S	168_L	0.589	0.28
17_W	56_W	0.587	0.27
105_A	233_V	0.586	0.27
42_V	53_G	0.586	0.27
107_H	112_L	0.586	0.27
63_M	82_P	0.584	0.27
58_S	88_T	0.583	0.27
103_L	235_F	0.583	0.27
78_A	126_D	0.582	0.27
61_P	83_E	0.582	0.27
98_I	122_Y	0.582	0.27
98_I	173_T	0.580	0.27
81_F	169_D	0.578	0.27
69_A	186_L	0.578	0.27
40_A	80_A	0.577	0.27
27_L	227_Y	0.576	0.27
51_Y	167_S	0.575	0.27
131_K	141_K	0.574	0.27
187_Y	237_P	0.571	0.26
67_L	233_V	0.570	0.26
31_W	103_L	0.568	0.26
77_G	166_D	0.568	0.26
163_A	167_S	0.568	0.26
180_T	190_D	0.567	0.26
25_D	237_P	0.562	0.26
57_I	222_D	0.561	0.26
69_A	118_F	0.560	0.26
95_K	190_D	0.558	0.26
54_Q	134_D	0.558	0.26
234_L	237_P	0.556	0.26
81_F	113_G	0.556	0.26
67_L	231_Q	0.550	0.25
19_M	76_P	0.547	0.25
118_F	180_T	0.545	0.25
82_P	127_M	0.545	0.25
228_A	231_Q	0.544	0.25
110_A	189_E	0.543	0.25
126_D	141_K	0.543	0.25
102_S	123_F	0.542	0.25
123_F	144_N	0.542	0.25
203_A	230_K	0.541	0.25
88_T	172_L	0.540	0.25
74_V	203_A	0.539	0.25
65_T	80_A	0.538	0.24
33_V	36_S	0.537	0.24
156_P	199_Q	0.537	0.24
34_D	158_S	0.532	0.24
35_V	54_Q	0.530	0.24
103_L	118_F	0.529	0.24
26_V	98_I	0.529	0.24
124_Y	143_K	0.526	0.24
20_R	71_Y	0.525	0.24
180_T	228_A	0.524	0.24
146_K	159_A	0.518	0.23
59_M	208_N	0.518	0.23
110_A	233_V	0.517	0.23
157_I	202_E	0.516	0.23
72_L	97_G	0.515	0.23
92_Y	179_Y	0.515	0.23
113_G	185_K	0.515	0.23
109_L	220_E	0.512	0.23
156_P	201_A	0.512	0.23
141_K	185_K	0.511	0.23
147_E	165_K	0.510	0.23
34_D	72_L	0.510	0.23
23_W	193_H	0.509	0.23
25_D	190_D	0.508	0.23
98_I	178_L	0.507	0.23
95_K	164_E	0.507	0.23
37_I	205_I	0.506	0.23
197_L	202_E	0.505	0.23
193_H	196_W	0.501	0.22
55_A	168_L	0.501	0.22
21_Q	86_L	0.501	0.22
35_V	194_H	0.501	0.22
152_A	205_I	0.500	0.22

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
4jmdA	4	0.9339	99.9	0.734	Contact Map
3c8wA	6	0.9132	99.9	0.752	Contact Map
3bgtA	6	0.9091	99.8	0.761	Contact Map
4zboA	4	0.9504	99.6	0.815	Contact Map
3bh2A	6	0.9215	99.4	0.835	Contact Map
3cmbA	4	0.9421	97.5	0.908	Contact Map
1k3sA	2	0.157	7.3	0.972	Contact Map
3q6kA	1	0.7975	4.2	0.975	Contact Map
4zcnA	3	0.314	2.2	0.978	Contact Map
3m7kA	2	0.2066	2	0.979	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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