YVBI - BACSU - GREMLIN Contacts

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YVBI - Uncharacterized protein YvbI

UniProt:	O32246	Sequences: MYCPQCGHQTDGGNFCEKCGSPLPGQSGHQHAAQTGAAAKQAAKQFGSFVLSVLKRPYQECKATGGEQLISAIITMVLFSLLTPLMFYILFSDGPGSVSFTAIFLEPTIYFILFLFGLHACIFFALKIAGNQVSFKDSFSRFGAFLIPFTAILILALFFFLLHTDICFTILAVGLIGAFFAIPPAMLSSYQHSYKGKVDFIYSTIVIYLIICVTFQLIIEHYVKEIFRYMLF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	232 (221)
Sequences:	234 (207)
Seq/√Len:	13.9

BACSU - YVBI YEBC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
3_C	6_C	4.703	1.00
46_F	75_T	4.550	1.00
16_C	19_C	4.194	1.00
10_T	13_G	3.695	0.99
3_C	19_C	3.346	0.99
3_C	16_C	3.346	0.99
6_C	19_C	3.346	0.99
6_C	16_C	3.346	0.99
16_C	20_G	3.284	0.99
10_T	23_L	3.013	0.97
73_I	77_V	2.908	0.97
122_I	138_S	2.844	0.96
4_P	23_L	2.796	0.96
84_P	104_F	2.692	0.95
53_V	147_I	2.672	0.95
214_T	218_I	2.661	0.94
15_F	20_G	2.654	0.94
6_C	20_G	2.454	0.92
3_C	20_G	2.454	0.92
104_F	108_T	2.182	0.86
88_Y	100_F	2.167	0.85
100_F	143_G	2.129	0.84
141_R	186_M	2.083	0.83
127_K	174_G	2.030	0.81
113_L	201_I	1.992	0.80
113_L	118_L	1.937	0.78
94_G	209_L	1.932	0.78
7_G	15_F	1.864	0.75
127_K	218_I	1.840	0.74
119_H	135_F	1.839	0.74
117_G	124_F	1.837	0.74
30_Q	174_G	1.801	0.73
10_T	17_E	1.755	0.71
200_F	210_I	1.725	0.69
15_F	19_C	1.722	0.69
49_F	53_V	1.722	0.69
78_L	150_T	1.638	0.65
104_F	150_T	1.616	0.64
134_S	172_A	1.601	0.63
105_L	217_L	1.596	0.63
171_L	215_F	1.589	0.63
127_K	216_Q	1.579	0.62
41_Q	44_K	1.563	0.61
171_L	213_V	1.559	0.61
47_G	79_F	1.539	0.60
117_G	128_I	1.537	0.60
22_P	25_G	1.529	0.60
86_M	153_L	1.467	0.56
173_V	205_I	1.464	0.56
70_I	140_S	1.449	0.55
49_F	79_F	1.403	0.53
26_Q	34_Q	1.394	0.52
142_F	171_L	1.390	0.52
123_F	127_K	1.363	0.51
57_P	199_D	1.347	0.50
72_A	140_S	1.331	0.49
140_S	147_I	1.318	0.48
77_V	111_F	1.302	0.47
75_T	150_T	1.270	0.46
116_F	120_A	1.243	0.44
51_L	84_P	1.242	0.44
109_I	220_E	1.226	0.43
82_L	154_I	1.224	0.43
158_F	205_I	1.221	0.43
54_L	151_A	1.216	0.43
117_G	221_H	1.196	0.42
3_C	7_G	1.191	0.41
140_S	143_G	1.155	0.40
208_Y	215_F	1.135	0.38
66_G	224_K	1.120	0.38
43_A	135_F	1.119	0.38
81_L	213_V	1.114	0.37
109_I	161_L	1.112	0.37
134_S	227_F	1.111	0.37
77_V	139_F	1.109	0.37
6_C	15_F	1.094	0.36
3_C	15_F	1.094	0.36
23_L	201_I	1.081	0.36
158_F	217_L	1.080	0.36
124_F	161_L	1.056	0.35
13_G	143_G	1.048	0.34
136_K	151_A	1.046	0.34
109_I	226_I	1.044	0.34
81_L	174_G	1.039	0.34
49_F	144_A	1.037	0.34
69_L	136_K	1.030	0.33
182_I	186_M	1.029	0.33
53_V	138_S	1.028	0.33
122_I	150_T	1.022	0.33
75_T	202_Y	1.020	0.33
114_F	155_L	1.017	0.33
28_G	32_A	1.013	0.32
123_F	138_S	1.011	0.32
111_F	203_S	1.009	0.32
5_Q	8_H	1.002	0.32
46_F	190_Y	0.990	0.31
12_G	18_K	0.989	0.31
79_F	144_A	0.988	0.31
206_V	210_I	0.987	0.31
30_Q	120_A	0.987	0.31
72_A	183_P	0.978	0.31
40_K	43_A	0.975	0.31
5_Q	134_S	0.965	0.30
151_A	221_H	0.965	0.30
81_L	206_V	0.965	0.30
25_G	139_F	0.960	0.30
78_L	125_A	0.943	0.29
71_S	143_G	0.940	0.29
51_L	55_K	0.932	0.29
151_A	154_I	0.931	0.29
146_L	153_L	0.930	0.29
172_A	179_F	0.929	0.29
155_L	178_A	0.926	0.28
69_L	174_G	0.922	0.28
76_M	202_Y	0.920	0.28
206_V	215_F	0.915	0.28
11_D	130_G	0.908	0.28
120_A	184_P	0.907	0.28
54_L	147_I	0.901	0.27
77_V	201_I	0.894	0.27
124_F	174_G	0.893	0.27
223_V	226_I	0.890	0.27
175_L	214_T	0.887	0.27
108_T	217_L	0.879	0.26
76_M	91_F	0.879	0.26
128_I	134_S	0.871	0.26
213_V	217_L	0.870	0.26
87_F	213_V	0.864	0.26
8_H	77_V	0.863	0.26
145_F	203_S	0.862	0.26
99_S	217_L	0.861	0.26
143_G	199_D	0.860	0.26
153_L	157_L	0.859	0.26
180_F	184_P	0.858	0.26
49_F	140_S	0.855	0.25
53_V	140_S	0.846	0.25
81_L	200_F	0.846	0.25
75_T	143_G	0.844	0.25
120_A	158_F	0.840	0.25
169_T	205_I	0.835	0.25
129_A	159_F	0.831	0.24
114_F	172_A	0.830	0.24
5_Q	11_D	0.825	0.24
37_A	82_L	0.824	0.24
79_F	146_L	0.822	0.24
155_L	176_I	0.820	0.24
18_K	49_F	0.816	0.24
113_L	195_K	0.814	0.24
71_S	144_A	0.812	0.24
84_P	107_P	0.808	0.24
38_A	43_A	0.805	0.23
88_Y	143_G	0.805	0.23
58_Y	143_G	0.800	0.23
75_T	129_A	0.799	0.23
182_I	206_V	0.798	0.23
101_T	112_I	0.798	0.23
78_L	104_F	0.798	0.23
41_Q	187_L	0.797	0.23
148_P	183_P	0.791	0.23
87_F	181_A	0.788	0.23
189_S	207_I	0.788	0.23
192_H	198_V	0.778	0.22
45_Q	219_I	0.778	0.22
72_A	199_D	0.774	0.22
119_H	211_I	0.772	0.22
46_F	49_F	0.772	0.22
113_L	183_P	0.771	0.22
114_F	123_F	0.771	0.22
31_H	222_Y	0.770	0.22
80_S	115_L	0.768	0.22
162_L	223_V	0.760	0.22
73_I	134_S	0.760	0.22
85_L	165_D	0.758	0.22
167_C	177_G	0.756	0.22
17_E	49_F	0.756	0.22
77_V	85_L	0.750	0.21
137_D	141_R	0.749	0.21
26_Q	82_L	0.745	0.21
73_I	102_A	0.742	0.21
94_G	118_L	0.739	0.21
134_S	158_F	0.739	0.21
5_Q	18_K	0.737	0.21
93_D	178_A	0.735	0.21
4_P	10_T	0.730	0.21
141_R	189_S	0.726	0.21
91_F	117_G	0.726	0.21
36_G	81_L	0.725	0.20
212_C	223_V	0.725	0.20
53_V	144_A	0.720	0.20
50_V	219_I	0.717	0.20
103_I	150_T	0.714	0.20
169_T	175_L	0.713	0.20
49_F	146_L	0.711	0.20
102_A	178_A	0.709	0.20
17_E	53_V	0.709	0.20
192_H	208_Y	0.707	0.20
142_F	202_Y	0.705	0.20
71_S	147_I	0.704	0.20
61_C	128_I	0.703	0.20
135_F	226_I	0.702	0.20
46_F	57_P	0.701	0.20
217_L	226_I	0.699	0.20
12_G	226_I	0.697	0.20
14_N	146_L	0.696	0.19
13_G	69_L	0.693	0.19
34_Q	40_K	0.693	0.19
112_I	217_L	0.691	0.19
58_Y	148_P	0.691	0.19
82_L	153_L	0.690	0.19
7_G	25_G	0.687	0.19
21_S	164_T	0.686	0.19
158_F	203_S	0.685	0.19
141_R	191_Q	0.684	0.19
123_F	134_S	0.684	0.19
8_H	12_G	0.683	0.19
179_F	210_I	0.681	0.19
124_F	201_I	0.680	0.19
117_G	215_F	0.675	0.19
110_Y	219_I	0.672	0.19
99_S	114_F	0.670	0.19
46_F	78_L	0.669	0.19
7_G	116_F	0.668	0.19
71_S	186_M	0.667	0.19
72_A	80_S	0.665	0.18
65_G	143_G	0.664	0.18
112_I	226_I	0.664	0.18
56_R	113_L	0.663	0.18
197_K	204_T	0.658	0.18
47_G	71_S	0.657	0.18
78_L	130_G	0.657	0.18
45_Q	56_R	0.656	0.18
184_P	191_Q	0.655	0.18
199_D	220_E	0.652	0.18
33_A	111_F	0.651	0.18
47_G	177_G	0.642	0.18
80_S	161_L	0.640	0.18
161_L	184_P	0.637	0.18
158_F	187_L	0.635	0.17
55_K	149_F	0.635	0.17
92_S	216_Q	0.632	0.17
59_Q	101_T	0.631	0.17
69_L	100_F	0.630	0.17
61_C	141_R	0.629	0.17
47_G	199_D	0.627	0.17
95_P	154_I	0.626	0.17
9_Q	76_M	0.625	0.17
161_L	206_V	0.625	0.17
96_G	212_C	0.625	0.17
86_M	155_L	0.623	0.17
161_L	176_I	0.621	0.17
72_A	202_Y	0.620	0.17
153_L	209_L	0.620	0.17
162_L	174_G	0.611	0.17
49_F	93_D	0.610	0.17
155_L	217_L	0.605	0.17
210_I	217_L	0.605	0.17
54_L	79_F	0.599	0.16
209_L	217_L	0.597	0.16
85_L	117_G	0.596	0.16
138_S	147_I	0.595	0.16
44_K	80_S	0.593	0.16
162_L	209_L	0.592	0.16
11_D	14_N	0.590	0.16
67_E	143_G	0.590	0.16
98_V	197_K	0.587	0.16
113_L	208_Y	0.585	0.16
58_Y	139_F	0.585	0.16
82_L	160_F	0.581	0.16
79_F	140_S	0.579	0.16
124_F	209_L	0.577	0.16
93_D	173_V	0.575	0.16
161_L	215_F	0.575	0.16
139_F	187_L	0.574	0.16
157_L	161_L	0.573	0.16
81_L	102_A	0.572	0.16
84_P	142_F	0.571	0.16
182_I	227_F	0.569	0.16
97_S	171_L	0.568	0.15
203_S	214_T	0.567	0.15
35_T	64_T	0.565	0.15
85_L	177_G	0.564	0.15
65_G	178_A	0.564	0.15
172_A	194_Y	0.563	0.15
108_T	171_L	0.561	0.15
29_H	157_L	0.560	0.15
170_I	209_L	0.560	0.15
68_Q	141_R	0.557	0.15
71_S	145_F	0.554	0.15
91_F	214_T	0.553	0.15
84_P	91_F	0.552	0.15
48_S	222_Y	0.551	0.15
49_F	147_I	0.551	0.15
15_F	22_P	0.550	0.15
82_L	209_L	0.548	0.15
69_L	72_A	0.548	0.15
107_P	124_F	0.547	0.15
53_V	201_I	0.546	0.15
158_F	207_I	0.546	0.15
13_G	17_E	0.546	0.15
110_Y	214_T	0.545	0.15
154_I	201_I	0.545	0.15
130_G	204_T	0.542	0.15
41_Q	156_A	0.541	0.15
93_D	139_F	0.539	0.15
28_G	222_Y	0.537	0.15
146_L	190_Y	0.533	0.15
176_I	212_C	0.532	0.15
155_L	173_V	0.532	0.15
70_I	119_H	0.531	0.14
8_H	143_G	0.528	0.14
77_V	194_Y	0.527	0.14
77_V	121_C	0.527	0.14
172_A	210_I	0.524	0.14
37_A	103_I	0.524	0.14
75_T	156_A	0.523	0.14
43_A	55_K	0.523	0.14
137_D	207_I	0.522	0.14
74_I	146_L	0.519	0.14
38_A	46_F	0.517	0.14
59_Q	227_F	0.514	0.14
113_L	172_A	0.513	0.14
37_A	152_I	0.511	0.14
37_A	113_L	0.511	0.14
33_A	135_F	0.509	0.14
135_F	166_I	0.509	0.14
110_Y	218_I	0.508	0.14
158_F	170_I	0.506	0.14
13_G	183_P	0.502	0.14
158_F	193_S	0.501	0.14
84_P	114_F	0.501	0.14
91_F	161_L	0.501	0.14
92_S	152_I	0.500	0.14

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
3wwlA	1	0.194	94.5	0.89	Contact Map
2k4xA	1	0.1379	93.8	0.894	Contact Map
1h7bA	2	0.0819	93.7	0.894	Contact Map
3h0gL	1	0.1638	93.5	0.895	Contact Map
1vw4W	1	0.2759	93	0.897	Contact Map
3ga8A	1	0.1983	92.8	0.898	Contact Map
3j21g	1	0.1379	92.7	0.898	Contact Map
3j7y0	1	0.2629	91.8	0.9	Contact Map
3o9xA	2	0.4526	90.6	0.904	Contact Map
4qiwP	1	0.1552	89.7	0.905	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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