YOCB - BACSU - GREMLIN Contacts

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YOCB - Uncharacterized protein YocB

UniProt:	O34516	Sequences: MAIDSLINKLQYVQLEPPDKILSLYLNTDMRDPEQQGGEWKIALKSGFSRLKEYLAASDPEEEKCLDGIRAKMNQYLNAMGKDMPRSLVFFVSDSGIWEPIKLQVPVDTRFYWEETAVLDQLKGLRQTYPSTAFILTQQHEVKIIETVLGKIEAVERYEYDMINESWKNSHSAVDKAPPFEENRMREHVTENQSRLYKRLAASLDQKAAAKRWERMVIAGDKETADILDQHMNKPIHSKIQKNLLNENEHKVIEHLIKEA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	260 (247)
Sequences:	196 (167)
Seq/√Len:	10.6

BACSU - YOCB
HALSA - RF1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
23_S	91_F	5.458	1.00
42_I	45_K	3.467	0.97
21_I	30_M	3.129	0.95
10_L	55_L	3.075	0.95
142_V	242_K	2.752	0.90
22_L	73_M	2.611	0.88
54_Y	114_E	2.569	0.87
208_A	213_W	2.478	0.85
87_S	179_P	2.470	0.85
196_L	200_L	2.352	0.82
23_S	112_Y	2.241	0.78
28_T	130_P	2.202	0.77
142_V	200_L	2.176	0.76
7_I	228_L	2.158	0.75
167_W	183_N	2.127	0.74
205_D	233_N	2.105	0.74
25_Y	91_F	2.090	0.73
83_D	218_I	2.080	0.73
7_I	252_V	2.043	0.71
172_S	181_E	2.006	0.70
113_W	167_W	2.005	0.70
83_D	134_F	1.993	0.69
143_K	232_M	1.928	0.67
106_P	165_E	1.923	0.66
228_L	232_M	1.920	0.66
111_F	130_P	1.904	0.66
75_Q	89_V	1.810	0.61
216_M	247_E	1.789	0.61
23_S	182_E	1.769	0.60
168_K	181_E	1.756	0.59
38_G	41_K	1.739	0.58
10_L	122_L	1.726	0.58
68_G	71_A	1.714	0.57
11_Q	123_K	1.655	0.54
46_S	133_A	1.636	0.53
69_I	93_S	1.629	0.53
26_L	44_L	1.625	0.53
106_P	221_D	1.616	0.53
208_A	216_M	1.610	0.52
10_L	91_F	1.599	0.52
130_P	195_R	1.596	0.52
77_L	89_V	1.594	0.51
160_Y	196_L	1.591	0.51
136_L	249_E	1.587	0.51
151_K	179_P	1.577	0.51
88_L	222_K	1.572	0.50
172_S	175_D	1.540	0.49
117_A	135_I	1.538	0.49
39_E	143_K	1.532	0.49
82_K	88_L	1.490	0.47
185_M	217_V	1.481	0.46
86_R	153_E	1.479	0.46
133_A	162_M	1.478	0.46
204_L	228_L	1.478	0.46
31_R	86_R	1.460	0.45
28_T	113_W	1.458	0.45
225_A	237_H	1.447	0.45
191_E	216_M	1.444	0.44
132_T	138_Q	1.421	0.43
7_I	115_E	1.418	0.43
113_W	198_K	1.416	0.43
106_P	150_G	1.405	0.43
154_A	210_A	1.400	0.42
206_Q	252_V	1.389	0.42
176_K	191_E	1.388	0.42
7_I	10_L	1.380	0.41
87_S	189_V	1.371	0.41
117_A	228_L	1.367	0.41
120_D	161_D	1.332	0.39
138_Q	143_K	1.319	0.39
119_L	236_I	1.315	0.39
122_L	142_V	1.315	0.39
218_I	228_L	1.302	0.38
22_L	43_A	1.298	0.38
144_I	207_K	1.292	0.37
110_R	254_E	1.289	0.37
121_Q	125_L	1.284	0.37
51_L	69_I	1.282	0.37
107_V	244_L	1.265	0.36
51_L	228_L	1.236	0.35
29_D	106_P	1.232	0.35
6_L	134_F	1.231	0.35
5_S	210_A	1.227	0.35
87_S	106_P	1.213	0.34
129_Y	220_G	1.211	0.34
55_L	136_L	1.206	0.34
52_K	70_R	1.191	0.33
44_L	48_F	1.187	0.33
49_S	198_K	1.184	0.33
121_Q	196_L	1.176	0.33
55_L	59_D	1.149	0.31
50_R	53_E	1.139	0.31
162_M	228_L	1.138	0.31
109_T	198_K	1.118	0.30
143_K	178_P	1.117	0.30
197_Y	219_A	1.103	0.30
77_L	206_Q	1.101	0.29
125_L	142_V	1.098	0.29
18_P	104_Q	1.095	0.29
172_S	179_P	1.091	0.29
144_I	253_I	1.081	0.29
188_H	196_L	1.077	0.29
177_A	182_E	1.073	0.28
137_T	204_L	1.073	0.28
174_V	178_P	1.051	0.28
23_S	237_H	1.047	0.27
135_I	254_E	1.045	0.27
88_L	212_R	1.040	0.27
143_K	247_E	1.037	0.27
63_E	153_E	1.036	0.27
24_L	247_E	1.035	0.27
182_E	218_I	1.034	0.27
157_R	223_E	1.032	0.27
54_Y	113_W	1.031	0.27
43_A	48_F	1.028	0.27
83_D	135_I	1.027	0.27
33_P	109_T	1.024	0.27
28_T	158_Y	1.023	0.27
61_E	152_I	1.020	0.26
24_L	73_M	1.013	0.26
12_Y	119_L	1.009	0.26
185_M	196_L	1.007	0.26
115_E	232_M	1.003	0.26
200_L	222_K	1.002	0.26
104_Q	133_A	0.996	0.26
89_V	145_I	0.992	0.25
117_A	180_F	0.990	0.25
90_F	198_K	0.989	0.25
74_N	161_D	0.987	0.25
42_I	92_V	0.981	0.25
130_P	243_N	0.980	0.25
17_P	218_I	0.980	0.25
92_V	110_R	0.975	0.25
23_S	118_V	0.972	0.25
248_N	255_H	0.971	0.25
115_E	252_V	0.969	0.25
176_K	180_F	0.965	0.24
27_N	145_I	0.964	0.24
146_E	213_W	0.963	0.24
55_L	65_C	0.955	0.24
104_Q	167_W	0.953	0.24
162_M	170_S	0.949	0.24
133_A	185_M	0.948	0.24
133_A	196_L	0.947	0.24
44_L	109_T	0.946	0.24
166_S	196_L	0.944	0.24
248_N	253_I	0.943	0.24
93_S	113_W	0.935	0.23
13_V	225_A	0.935	0.23
64_K	197_Y	0.932	0.23
195_R	200_L	0.928	0.23
133_A	188_H	0.927	0.23
174_V	177_A	0.926	0.23
22_L	133_A	0.925	0.23
49_S	53_E	0.924	0.23
25_Y	119_L	0.923	0.23
144_I	186_R	0.922	0.23
38_G	219_A	0.922	0.23
201_A	212_R	0.920	0.23
77_L	99_E	0.919	0.23
133_A	213_W	0.919	0.23
27_N	125_L	0.916	0.23
191_E	195_R	0.916	0.23
172_S	176_K	0.913	0.23
112_Y	118_V	0.912	0.23
139_Q	242_K	0.909	0.23
176_K	255_H	0.908	0.23
17_P	20_K	0.902	0.22
133_A	204_L	0.901	0.22
184_R	189_V	0.901	0.22
195_R	243_N	0.900	0.22
136_L	252_V	0.899	0.22
83_D	211_K	0.894	0.22
72_K	194_S	0.892	0.22
127_Q	145_I	0.890	0.22
203_S	206_Q	0.886	0.22
110_R	216_M	0.882	0.22
65_C	134_F	0.882	0.22
9_K	14_Q	0.877	0.22
66_L	135_I	0.876	0.21
101_I	196_L	0.874	0.21
169_N	176_K	0.864	0.21
71_A	231_H	0.859	0.21
106_P	135_I	0.859	0.21
30_M	133_A	0.856	0.21
47_G	132_T	0.855	0.21
64_K	123_K	0.855	0.21
40_W	46_S	0.854	0.21
219_A	236_I	0.851	0.21
117_A	238_S	0.847	0.21
74_N	212_R	0.847	0.21
73_M	254_E	0.843	0.20
139_Q	166_S	0.841	0.20
90_F	155_V	0.838	0.20
24_L	90_F	0.833	0.20
26_L	40_W	0.829	0.20
18_P	75_Q	0.827	0.20
169_N	227_I	0.825	0.20
130_P	147_T	0.819	0.20
183_N	188_H	0.819	0.20
93_S	117_A	0.818	0.20
21_I	248_N	0.812	0.20
59_D	145_I	0.812	0.20
87_S	109_T	0.811	0.19
110_R	119_L	0.808	0.19
39_E	42_I	0.806	0.19
22_L	113_W	0.801	0.19
60_P	226_D	0.801	0.19
134_F	253_I	0.800	0.19
87_S	95_S	0.799	0.19
170_S	189_V	0.796	0.19
166_S	169_N	0.794	0.19
140_H	178_P	0.790	0.19
103_L	164_N	0.790	0.19
229_D	237_H	0.789	0.19
115_E	216_M	0.785	0.19
180_F	186_R	0.784	0.19
10_L	54_Y	0.784	0.19
125_L	130_P	0.784	0.19
146_E	182_E	0.782	0.19
167_W	188_H	0.778	0.19
199_R	252_V	0.776	0.18
226_D	230_Q	0.769	0.18
99_E	161_D	0.767	0.18
21_I	154_A	0.766	0.18
24_L	51_L	0.765	0.18
143_K	251_K	0.764	0.18
186_R	246_N	0.763	0.18
194_S	237_H	0.759	0.18
173_A	181_E	0.758	0.18
75_Q	85_P	0.755	0.18
31_R	217_V	0.747	0.18
8_N	217_V	0.745	0.18
18_P	222_K	0.743	0.18
136_L	209_A	0.742	0.18
85_P	194_S	0.739	0.17
168_K	185_M	0.738	0.17
121_Q	155_V	0.735	0.17
26_L	110_R	0.730	0.17
133_A	191_E	0.730	0.17
175_D	230_Q	0.728	0.17
138_Q	184_R	0.727	0.17
32_D	68_G	0.727	0.17
74_N	125_L	0.723	0.17
165_E	229_D	0.720	0.17
80_M	89_V	0.717	0.17
36_Q	179_P	0.714	0.17
96_G	185_M	0.712	0.17
71_A	252_V	0.711	0.17
47_G	242_K	0.709	0.17
8_N	11_Q	0.704	0.17
40_W	138_Q	0.703	0.16
14_Q	135_I	0.698	0.16
194_S	227_I	0.697	0.16
137_T	190_T	0.689	0.16
68_G	253_I	0.689	0.16
120_D	128_T	0.688	0.16
181_E	184_R	0.687	0.16
116_T	194_S	0.685	0.16
23_S	166_S	0.678	0.16
21_I	143_K	0.674	0.16
173_A	200_L	0.673	0.16
181_E	185_M	0.669	0.16
91_F	128_T	0.666	0.16
45_K	69_I	0.665	0.16
86_R	207_K	0.664	0.15
42_I	195_R	0.661	0.15
134_F	245_L	0.659	0.15
224_T	253_I	0.659	0.15
44_L	207_K	0.657	0.15
64_K	119_L	0.657	0.15
137_T	228_L	0.657	0.15
24_L	101_I	0.654	0.15
79_A	201_A	0.653	0.15
114_E	142_V	0.653	0.15
81_G	197_Y	0.650	0.15
86_R	136_L	0.648	0.15
88_L	162_M	0.645	0.15
233_N	240_I	0.645	0.15
225_A	236_I	0.645	0.15
45_K	152_I	0.644	0.15
67_D	75_Q	0.642	0.15
184_R	187_E	0.638	0.15
171_H	184_R	0.637	0.15
8_N	12_Y	0.637	0.15
48_F	82_K	0.632	0.15
88_L	145_I	0.631	0.15
50_R	186_R	0.628	0.15
65_C	194_S	0.627	0.15
176_K	238_S	0.627	0.15
188_H	195_R	0.627	0.15
131_S	148_V	0.625	0.15
7_I	187_E	0.623	0.15
142_V	196_L	0.623	0.15
122_L	166_S	0.620	0.14
188_H	192_N	0.619	0.14
121_Q	201_A	0.618	0.14
174_V	179_P	0.617	0.14
222_K	225_A	0.616	0.14
163_I	196_L	0.616	0.14
24_L	236_I	0.609	0.14
108_D	119_L	0.607	0.14
200_L	215_R	0.606	0.14
165_E	178_P	0.606	0.14
98_W	109_T	0.603	0.14
77_L	239_K	0.597	0.14
80_M	86_R	0.595	0.14
183_N	200_L	0.590	0.14
163_I	176_K	0.589	0.14
28_T	136_L	0.587	0.14
244_L	253_I	0.582	0.14
26_L	210_A	0.581	0.14
40_W	167_W	0.580	0.14
6_L	103_L	0.580	0.14
61_E	64_K	0.576	0.13
65_C	129_Y	0.575	0.13
46_S	256_L	0.569	0.13
24_L	32_D	0.569	0.13
127_Q	254_E	0.564	0.13
10_L	98_W	0.563	0.13
22_L	206_Q	0.559	0.13
134_F	226_D	0.558	0.13
20_K	86_R	0.556	0.13
18_P	245_L	0.556	0.13
27_N	197_Y	0.555	0.13
229_D	243_N	0.555	0.13
220_G	228_L	0.555	0.13
126_R	140_H	0.555	0.13
18_P	230_Q	0.552	0.13
145_I	251_K	0.547	0.13
40_W	47_G	0.544	0.13
146_E	214_E	0.542	0.13
39_E	170_S	0.541	0.13
26_L	209_A	0.539	0.13
23_S	45_K	0.539	0.13
74_N	170_S	0.539	0.13
45_K	94_D	0.539	0.13
7_I	179_P	0.538	0.13
81_G	245_L	0.537	0.13
28_T	149_L	0.536	0.13
30_M	39_E	0.535	0.13
126_R	188_H	0.534	0.13
49_S	231_H	0.534	0.13
32_D	91_F	0.534	0.13
48_F	66_L	0.532	0.12
104_Q	213_W	0.532	0.12
52_K	119_L	0.531	0.12
59_D	116_T	0.531	0.12
61_E	230_Q	0.529	0.12
116_T	240_I	0.528	0.12
44_L	147_T	0.525	0.12
91_F	227_I	0.523	0.12
135_I	151_K	0.522	0.12
103_L	190_T	0.517	0.12
127_Q	238_S	0.516	0.12
233_N	252_V	0.516	0.12
22_L	93_S	0.516	0.12
69_I	73_M	0.514	0.12
59_D	109_T	0.512	0.12
197_Y	224_T	0.508	0.12
165_E	225_A	0.508	0.12
78_N	234_K	0.506	0.12
149_L	220_G	0.506	0.12
15_L	53_E	0.503	0.12
97_I	100_P	0.503	0.12
40_W	242_K	0.502	0.12
173_A	176_K	0.501	0.12
214_E	242_K	0.501	0.12
30_M	143_K	0.500	0.12
10_L	13_V	0.500	0.12

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
3agkA	1	0.8769	100	0.598	Contact Map
4af1A	1	0.9308	100	0.627	Contact Map
1dt9A	1	0.9192	99.9	0.658	Contact Map
3e20C	1	0.4462	99.9	0.676	Contact Map
4crnX	1	0.9192	99.9	0.679	Contact Map
3j15A	1	0.85	99.6	0.771	Contact Map
3obwA	2	0.7385	99.5	0.783	Contact Map
3wxmB	1	0.8462	99.5	0.784	Contact Map
2vgnA	1	0.8115	99.4	0.798	Contact Map
3obyA	1	0.7615	99.3	0.802	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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