YWAF - BACSU - GREMLIN Contacts

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YWAF - Uncharacterized protein YwaF

UniProt:	P25149	Sequences: MQKYVQSDYKHDPFHLFSTEHVVTLAIISLLAILLFLFQDEVKQPRASRFLRSLFVFLLLGSQIGYQIWMVATDRWSVRTSLPLQLSDLSVYLSAIMLVTKSRKLFVFLFFVGIGSSIQALATPDLGMFSFPHIRYILFFISHGSVFLSCLLMAVIGTYRMGQRSLWVTVLLVNVYGVCIFLIDRWLGANYMYLTKKPGGSSLLDVLGPWPWYIVSAEAITIASFFILYWLYRIFKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	237 (218)
Sequences:	597 (524)
Seq/√Len:	35.5

BACSU - YWAF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
110_F	231_L	4.878	1.00
31_L	148_L	4.561	1.00
106_F	154_A	4.350	1.00
25_L	121_L	3.959	1.00
87_S	116_S	3.878	1.00
174_N	218_E	3.334	1.00
183_I	187_L	3.274	1.00
28_I	144_G	3.100	1.00
184_D	189_A	2.691	1.00
107_V	165_S	2.610	1.00
125_D	193_Y	2.593	1.00
87_S	146_V	2.569	1.00
116_S	146_V	2.556	1.00
22_V	26_A	2.547	1.00
66_Y	70_M	2.422	1.00
30_L	122_A	2.250	0.99
177_G	194_L	2.168	0.99
96_I	100_T	2.080	0.99
129_F	133_H	2.076	0.99
63_Q	88_D	1.977	0.98
98_L	139_F	1.967	0.98
82_L	191_Y	1.965	0.98
162_G	165_S	1.901	0.98
112_V	173_V	1.875	0.97
87_S	143_H	1.837	0.97
17_F	21_H	1.827	0.97
66_Y	135_R	1.771	0.96
108_F	112_V	1.707	0.96
120_A	193_Y	1.622	0.94
86_L	177_G	1.595	0.94
18_S	21_H	1.585	0.93
68_I	179_C	1.572	0.93
183_I	189_A	1.554	0.93
217_A	220_I	1.553	0.93
132_P	137_I	1.539	0.92
69_W	129_F	1.535	0.92
93_L	105_L	1.520	0.92
96_I	105_L	1.492	0.91
58_L	227_I	1.486	0.91
95_A	180_I	1.450	0.90
185_R	214_I	1.441	0.89
53_S	99_V	1.432	0.89
173_V	192_M	1.424	0.89
69_W	133_H	1.409	0.88
163_Q	167_W	1.398	0.88
109_L	149_S	1.356	0.86
29_S	84_L	1.335	0.85
20_E	130_S	1.330	0.85
197_K	213_Y	1.325	0.85
163_Q	226_F	1.315	0.85
88_D	138_L	1.314	0.85
228_L	232_Y	1.313	0.84
69_W	113_G	1.311	0.84
57_F	61_G	1.310	0.84
24_T	27_I	1.300	0.84
61_G	68_I	1.297	0.84
30_L	41_E	1.296	0.84
133_H	150_C	1.295	0.84
219_A	228_L	1.278	0.83
20_E	23_V	1.271	0.82
107_V	168_V	1.232	0.80
36_F	39_Q	1.228	0.80
87_S	164_R	1.227	0.80
116_S	120_A	1.221	0.80
30_L	61_G	1.207	0.79
67_Q	85_Q	1.196	0.78
63_Q	138_L	1.194	0.78
123_T	203_L	1.191	0.78
91_V	142_S	1.181	0.78
139_F	146_V	1.175	0.77
205_D	209_P	1.164	0.76
34_L	42_V	1.164	0.76
69_W	135_R	1.155	0.76
90_S	139_F	1.152	0.76
78_V	207_L	1.148	0.75
193_Y	199_G	1.144	0.75
86_L	116_S	1.137	0.75
119_Q	123_T	1.135	0.75
27_I	50_F	1.134	0.75
120_A	139_F	1.132	0.74
49_R	57_F	1.130	0.74
81_S	113_G	1.128	0.74
62_S	142_S	1.114	0.73
63_Q	67_Q	1.107	0.73
108_F	118_I	1.089	0.71
113_G	146_V	1.088	0.71
34_L	141_I	1.073	0.70
96_I	186_W	1.071	0.70
19_T	30_L	1.071	0.70
66_Y	142_S	1.062	0.70
207_L	216_S	1.045	0.68
23_V	27_I	1.043	0.68
35_L	215_V	1.043	0.68
33_I	38_F	1.042	0.68
98_L	136_Y	1.041	0.68
58_L	145_S	1.033	0.67
26_A	178_V	1.029	0.67
85_Q	125_D	1.029	0.67
50_F	54_L	1.027	0.67
215_V	219_A	1.026	0.67
170_V	210_W	1.009	0.66
207_L	211_P	1.002	0.65
87_S	117_S	0.994	0.64
97_M	153_M	0.991	0.64
125_D	199_G	0.990	0.64
18_S	129_F	0.982	0.63
191_Y	198_P	0.978	0.63
41_E	219_A	0.972	0.63
195_T	213_Y	0.970	0.62
85_Q	150_C	0.964	0.62
62_S	145_S	0.963	0.62
27_I	30_L	0.950	0.61
23_V	38_F	0.949	0.61
29_S	41_E	0.949	0.61
21_H	63_Q	0.948	0.61
24_T	28_I	0.944	0.60
56_V	95_A	0.943	0.60
54_L	58_L	0.943	0.60
62_S	138_L	0.942	0.60
110_F	154_A	0.939	0.60
90_S	93_L	0.936	0.60
59_L	151_L	0.936	0.60
19_T	23_V	0.936	0.60
86_L	173_V	0.932	0.59
30_L	118_I	0.927	0.59
102_S	175_V	0.924	0.59
33_I	61_G	0.915	0.58
201_S	205_D	0.913	0.58
197_K	205_D	0.911	0.58
39_Q	42_V	0.909	0.57
152_L	156_I	0.908	0.57
35_L	74_D	0.905	0.57
154_A	159_Y	0.902	0.57
123_T	202_S	0.901	0.57
88_D	113_G	0.900	0.57
20_E	24_T	0.897	0.56
120_A	169_T	0.896	0.56
86_L	110_F	0.888	0.56
63_Q	139_F	0.888	0.56
194_L	202_S	0.883	0.55
112_V	192_M	0.880	0.55
95_A	99_V	0.876	0.55
43_K	47_A	0.875	0.54
193_Y	210_W	0.872	0.54
84_L	114_I	0.864	0.54
31_L	215_V	0.862	0.53
24_T	136_Y	0.862	0.53
178_V	182_L	0.861	0.53
115_G	193_Y	0.853	0.53
97_M	149_S	0.844	0.52
85_Q	184_D	0.844	0.52
143_H	190_N	0.838	0.51
32_A	222_I	0.837	0.51
86_L	135_R	0.837	0.51
51_L	59_L	0.829	0.51
116_S	176_Y	0.829	0.51
127_G	138_L	0.828	0.50
14_F	17_F	0.828	0.50
208_G	211_P	0.828	0.50
97_M	159_Y	0.827	0.50
83_P	184_D	0.814	0.49
116_S	232_Y	0.804	0.48
19_T	71_V	0.803	0.48
184_D	195_T	0.802	0.48
95_A	175_V	0.797	0.48
102_S	105_L	0.796	0.48
97_M	229_Y	0.796	0.48
70_M	84_L	0.795	0.48
87_S	91_V	0.794	0.47
50_F	151_L	0.790	0.47
171_L	227_I	0.789	0.47
93_L	109_L	0.782	0.46
29_S	34_L	0.776	0.46
99_V	104_K	0.769	0.45
52_R	122_A	0.764	0.45
66_Y	85_Q	0.761	0.45
167_W	186_W	0.759	0.44
212_W	216_S	0.758	0.44
68_I	72_A	0.757	0.44
85_Q	195_T	0.757	0.44
103_R	168_V	0.753	0.44
71_V	222_I	0.753	0.44
62_S	67_Q	0.751	0.44
179_C	215_V	0.751	0.44
132_P	194_L	0.751	0.44
34_L	71_V	0.750	0.44
83_P	143_H	0.747	0.43
90_S	112_V	0.747	0.43
226_F	230_W	0.746	0.43
26_A	32_A	0.745	0.43
66_Y	191_Y	0.744	0.43
216_S	224_S	0.743	0.43
164_R	223_A	0.741	0.43
80_T	88_D	0.740	0.43
52_R	98_L	0.740	0.43
19_T	37_L	0.740	0.43
108_F	150_C	0.740	0.43
88_D	192_M	0.738	0.43
18_S	151_L	0.735	0.42
117_S	139_F	0.735	0.42
197_K	211_P	0.731	0.42
67_Q	76_W	0.731	0.42
95_A	140_F	0.729	0.42
38_F	42_V	0.728	0.42
96_I	227_I	0.728	0.42
68_I	226_F	0.727	0.42
110_F	228_L	0.722	0.41
100_T	149_S	0.713	0.41
205_D	208_G	0.712	0.41
55_F	149_S	0.708	0.40
66_Y	69_W	0.707	0.40
106_F	231_L	0.705	0.40
47_A	65_G	0.705	0.40
26_A	34_L	0.704	0.40
35_L	38_F	0.701	0.40
30_L	68_I	0.701	0.40
221_T	225_F	0.697	0.39
153_M	157_G	0.695	0.39
40_D	219_A	0.691	0.39
176_Y	193_Y	0.684	0.38
114_I	166_L	0.682	0.38
63_Q	66_Y	0.680	0.38
177_G	181_F	0.679	0.38
33_I	102_S	0.679	0.38
109_L	199_G	0.679	0.38
144_G	207_L	0.676	0.38
78_V	203_L	0.675	0.37
103_R	107_V	0.672	0.37
86_L	192_M	0.671	0.37
115_G	161_M	0.669	0.37
211_P	214_I	0.667	0.37
181_F	184_D	0.663	0.37
33_I	48_S	0.661	0.36
27_I	31_L	0.659	0.36
15_H	54_L	0.654	0.36
114_I	198_P	0.650	0.35
64_I	175_V	0.650	0.35
116_S	124_P	0.648	0.35
97_M	109_L	0.648	0.35
19_T	49_R	0.644	0.35
91_V	116_S	0.639	0.35
116_S	142_S	0.638	0.35
138_L	193_Y	0.637	0.34
89_L	144_G	0.632	0.34
182_L	186_W	0.631	0.34
58_L	114_I	0.629	0.34
214_I	221_T	0.629	0.34
78_V	191_Y	0.628	0.34
74_D	194_L	0.625	0.34
27_I	34_L	0.625	0.34
19_T	34_L	0.622	0.33
101_K	231_L	0.619	0.33
130_S	193_Y	0.618	0.33
66_Y	82_L	0.617	0.33
173_V	177_G	0.616	0.33
130_S	136_Y	0.614	0.33
64_I	68_I	0.614	0.33
137_I	141_I	0.613	0.33
112_V	156_I	0.612	0.33
26_A	215_V	0.611	0.32
161_M	211_P	0.611	0.32
84_L	144_G	0.611	0.32
88_D	173_V	0.610	0.32
28_I	148_L	0.609	0.32
97_M	151_L	0.607	0.32
90_S	142_S	0.606	0.32
123_T	187_L	0.602	0.32
214_I	217_A	0.601	0.32
108_F	172_L	0.599	0.32
214_I	218_E	0.594	0.31
33_I	37_L	0.592	0.31
18_S	22_V	0.590	0.31
174_N	177_G	0.589	0.31
57_F	79_R	0.589	0.31
89_L	173_V	0.589	0.31
97_M	115_G	0.587	0.31
51_L	164_R	0.587	0.31
105_L	117_S	0.587	0.31
202_S	205_D	0.586	0.31
110_F	232_Y	0.583	0.30
203_L	206_V	0.581	0.30
111_F	123_T	0.581	0.30
73_T	92_Y	0.574	0.30
51_L	102_S	0.573	0.30
135_R	138_L	0.572	0.30
21_H	25_L	0.571	0.29
169_T	226_F	0.569	0.29
51_L	89_L	0.568	0.29
140_F	144_G	0.568	0.29
139_F	152_L	0.563	0.29
79_R	183_I	0.563	0.29
76_W	87_S	0.562	0.29
123_T	126_L	0.557	0.28
70_M	97_M	0.557	0.28
201_S	204_L	0.551	0.28
206_V	222_I	0.549	0.28
180_I	183_I	0.548	0.28
172_L	185_R	0.547	0.28
62_S	151_L	0.546	0.28
118_I	219_A	0.542	0.27
52_R	193_Y	0.541	0.27
37_L	178_V	0.540	0.27
62_S	88_D	0.536	0.27
14_F	98_L	0.534	0.27
176_Y	221_T	0.534	0.27
63_Q	140_F	0.533	0.27
74_D	141_I	0.529	0.27
49_R	58_L	0.529	0.27
25_L	109_L	0.529	0.27
101_K	157_G	0.520	0.26
25_L	40_D	0.520	0.26
117_S	146_V	0.517	0.26
26_A	72_A	0.516	0.26
49_R	53_S	0.516	0.26
119_Q	201_S	0.516	0.26
58_L	141_I	0.516	0.26
54_L	68_I	0.514	0.26
126_L	216_S	0.512	0.25
30_L	34_L	0.511	0.25
52_R	56_V	0.509	0.25
29_S	32_A	0.508	0.25
78_V	84_L	0.507	0.25
61_G	171_L	0.505	0.25
94_S	149_S	0.505	0.25
27_I	58_L	0.504	0.25
92_Y	191_Y	0.502	0.25
137_I	148_L	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
2ksfA	1	0.1857	9.2	0.953	Contact Map
2l2tA	2	0.1857	5.2	0.958	Contact Map
2wwbC	1	0.1519	4.5	0.959	Contact Map
1fftA	1	0.5274	3.9	0.961	Contact Map
1fftB	1	0.1857	3.7	0.961	Contact Map
2rddB	1	0.1561	3.5	0.961	Contact Map
4dveA	3	0.73	2.2	0.965	Contact Map
2ww9C	1	0.0886	2.1	0.966	Contact Map
2yevB	1	0.1983	2	0.966	Contact Map
2mc7A	1	0.1266	1.8	0.967	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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