YOXB - BACSU - GREMLIN Contacts

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YOXB - Uncharacterized protein YoxB

UniProt:	P28671	Sequences: MIINRSCLKEFAEKVHFLPSSLTKSDLLTDPFRLHQENELGIYYSPHNEFINRDASLVIAGITPGFSQMKTAYETAAESLLQGGTLEQMAVDTKIAAGFSGSMRHNLITMLDLCGLPQAFGIQSAAKLFGELRHMLHTTSVIKYPVFIQQKNYTGYKPAITHSPILSTYAFGHFPAELNHVTGPALLIPLGKAAETVCETLIRQHSLQNLICLNGFPHPSGANGHRLKQFSKNKEQLERQIRSFAALVDFAIEKRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	256 (235)
Sequences:	133 (113)
Seq/√Len:	7.4

BACSU - YOXB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
71_T	100_S	5.457	1.00
32_F	73_Y	4.286	0.98
112_D	124_S	4.003	0.97
202_I	212_C	3.858	0.96
153_Y	158_P	3.300	0.90
47_H	98_G	2.998	0.85
110_M	224_G	2.769	0.80
60_A	107_L	2.559	0.74
51_I	54_D	2.554	0.74
93_T	143_K	2.525	0.73
15_V	127_K	2.431	0.70
141_V	174_F	2.382	0.68
57_L	188_I	2.381	0.68
145_P	177_E	2.336	0.67
39_E	149_Q	2.317	0.66
137_H	177_E	2.259	0.64
11_F	34_L	2.184	0.61
217_P	223_N	2.123	0.59
103_M	140_S	2.119	0.59
57_L	116_L	1.971	0.53
143_K	174_F	1.929	0.52
96_A	188_I	1.917	0.51
50_F	108_I	1.789	0.46
234_K	242_R	1.787	0.46
217_P	230_F	1.779	0.46
152_N	223_N	1.778	0.46
45_S	144_Y	1.772	0.45
113_L	229_Q	1.741	0.44
45_S	145_P	1.729	0.44
229_Q	239_R	1.717	0.43
107_L	187_L	1.682	0.42
46_P	72_A	1.664	0.41
117_P	125_A	1.662	0.41
136_L	192_K	1.656	0.41
43_Y	207_L	1.627	0.40
69_M	138_T	1.626	0.40
112_D	152_N	1.608	0.39
34_L	122_I	1.583	0.38
123_Q	127_K	1.576	0.38
42_I	97_A	1.563	0.37
60_A	150_Q	1.535	0.36
240_Q	243_S	1.518	0.36
72_A	97_A	1.502	0.35
142_I	155_G	1.490	0.35
30_D	112_D	1.482	0.34
189_P	223_N	1.480	0.34
58_V	93_T	1.480	0.34
49_E	137_H	1.467	0.34
240_Q	244_F	1.452	0.33
127_K	132_L	1.437	0.33
12_A	86_L	1.411	0.32
11_F	132_L	1.403	0.32
68_Q	218_H	1.402	0.32
60_A	187_L	1.393	0.31
97_A	103_M	1.385	0.31
129_F	226_R	1.379	0.31
11_F	17_F	1.374	0.31
108_I	122_I	1.341	0.30
221_G	226_R	1.332	0.29
216_F	229_Q	1.331	0.29
217_P	222_A	1.330	0.29
8_L	49_E	1.326	0.29
146_V	226_R	1.310	0.29
142_I	160_I	1.300	0.28
42_I	142_I	1.298	0.28
224_G	228_K	1.296	0.28
79_S	92_D	1.283	0.28
61_G	68_Q	1.279	0.28
61_G	218_H	1.279	0.28
152_N	158_P	1.272	0.27
120_F	194_A	1.267	0.27
47_H	195_E	1.262	0.27
40_L	112_D	1.249	0.27
152_N	217_P	1.243	0.26
225_H	231_S	1.231	0.26
169_Y	174_F	1.224	0.26
70_K	74_E	1.183	0.25
60_A	198_C	1.183	0.25
107_L	193_A	1.178	0.25
129_F	201_L	1.165	0.24
76_A	98_G	1.164	0.24
42_I	93_T	1.155	0.24
68_Q	220_S	1.150	0.24
116_L	241_I	1.141	0.23
19_P	22_L	1.138	0.23
152_N	230_F	1.126	0.23
57_L	127_K	1.126	0.23
75_T	85_T	1.120	0.23
38_N	76_A	1.114	0.23
200_T	204_Q	1.102	0.22
56_S	135_M	1.101	0.22
134_H	181_V	1.099	0.22
121_G	150_Q	1.098	0.22
122_I	176_A	1.095	0.22
107_L	190_L	1.091	0.22
51_I	118_Q	1.088	0.22
94_K	190_L	1.084	0.22
7_C	13_E	1.078	0.22
60_A	212_C	1.074	0.22
73_Y	103_M	1.073	0.22
189_P	217_P	1.066	0.21
43_Y	112_D	1.066	0.21
103_M	170_A	1.063	0.21
14_K	38_N	1.063	0.21
46_P	177_E	1.055	0.21
72_A	135_M	1.055	0.21
140_S	190_L	1.051	0.21
69_M	98_G	1.050	0.21
26_D	51_I	1.042	0.21
76_A	196_T	1.041	0.21
60_A	141_V	1.037	0.21
108_I	197_V	1.037	0.21
124_S	161_T	1.036	0.21
61_G	220_S	1.034	0.21
144_Y	177_E	1.033	0.21
36_Q	142_I	1.032	0.21
120_F	201_L	1.031	0.20
181_V	201_L	1.022	0.20
72_A	96_A	1.021	0.20
58_V	185_A	1.012	0.20
47_H	136_L	1.008	0.20
23_T	30_D	1.006	0.20
15_V	97_A	1.004	0.20
170_A	195_E	0.999	0.20
16_H	242_R	0.993	0.20
69_M	97_A	0.991	0.19
60_A	78_E	0.991	0.19
15_V	166_L	0.989	0.19
188_I	236_Q	0.988	0.19
36_Q	91_V	0.987	0.19
76_A	83_G	0.982	0.19
156_Y	231_S	0.981	0.19
24_K	136_L	0.980	0.19
229_Q	237_L	0.974	0.19
187_L	216_F	0.974	0.19
111_L	217_P	0.974	0.19
129_F	146_V	0.968	0.19
178_L	187_L	0.966	0.19
49_E	205_H	0.965	0.19
122_I	135_M	0.949	0.18
131_E	160_I	0.945	0.18
108_I	141_V	0.938	0.18
15_V	60_A	0.936	0.18
110_M	216_F	0.921	0.18
27_L	225_H	0.918	0.18
73_Y	98_G	0.917	0.18
227_L	231_S	0.915	0.18
9_K	12_A	0.915	0.18
78_E	127_K	0.915	0.18
83_G	145_P	0.909	0.18
59_I	117_P	0.907	0.17
105_H	168_T	0.904	0.17
98_G	138_T	0.894	0.17
152_N	189_P	0.893	0.17
11_F	184_P	0.885	0.17
47_H	156_Y	0.881	0.17
75_T	169_Y	0.878	0.17
24_K	192_K	0.871	0.17
14_K	32_F	0.871	0.17
51_I	84_G	0.867	0.17
38_N	56_S	0.866	0.17
74_E	118_Q	0.864	0.17
213_L	217_P	0.859	0.16
176_A	204_Q	0.858	0.16
83_G	243_S	0.850	0.16
224_G	227_L	0.850	0.16
110_M	155_G	0.849	0.16
180_H	187_L	0.848	0.16
119_A	211_I	0.848	0.16
55_A	191_G	0.848	0.16
225_H	229_Q	0.847	0.16
83_G	92_D	0.846	0.16
46_P	71_T	0.845	0.16
45_S	127_K	0.842	0.16
116_L	224_G	0.837	0.16
76_A	148_I	0.835	0.16
115_G	238_E	0.829	0.16
157_K	170_A	0.829	0.16
18_L	69_M	0.824	0.16
58_V	133_R	0.819	0.16
66_F	73_Y	0.812	0.15
69_M	187_L	0.810	0.15
51_I	228_K	0.809	0.15
120_F	234_K	0.806	0.15
73_Y	225_H	0.797	0.15
59_I	190_L	0.794	0.15
164_P	179_N	0.792	0.15
51_I	239_R	0.790	0.15
9_K	230_F	0.786	0.15
72_A	80_L	0.785	0.15
12_A	16_H	0.781	0.15
65_G	220_S	0.781	0.15
62_I	147_F	0.779	0.15
131_E	241_I	0.775	0.15
215_G	221_G	0.775	0.15
58_V	70_K	0.772	0.15
65_G	94_K	0.771	0.15
71_T	149_Q	0.770	0.15
89_M	212_C	0.766	0.15
89_M	211_I	0.765	0.14
174_F	200_T	0.764	0.14
88_Q	209_N	0.762	0.14
68_Q	147_F	0.759	0.14
147_F	218_H	0.759	0.14
34_L	93_T	0.753	0.14
16_H	116_L	0.752	0.14
38_N	243_S	0.752	0.14
87_E	116_L	0.751	0.14
147_F	152_N	0.751	0.14
107_L	139_T	0.744	0.14
225_H	244_F	0.741	0.14
137_H	195_E	0.739	0.14
118_Q	123_Q	0.739	0.14
229_Q	240_Q	0.738	0.14
102_S	125_A	0.737	0.14
111_L	201_L	0.731	0.14
137_H	140_S	0.730	0.14
45_S	177_E	0.729	0.14
116_L	170_A	0.721	0.14
31_P	88_Q	0.719	0.14
32_F	69_M	0.718	0.14
45_S	69_M	0.710	0.13
225_H	240_Q	0.709	0.13
93_T	142_I	0.708	0.13
94_K	140_S	0.707	0.13
94_K	107_L	0.706	0.13
177_E	220_S	0.702	0.13
140_S	218_H	0.702	0.13
68_Q	140_S	0.702	0.13
60_A	90_A	0.701	0.13
8_L	90_A	0.700	0.13
115_G	145_P	0.695	0.13
42_I	169_Y	0.695	0.13
177_E	226_R	0.689	0.13
114_C	244_F	0.686	0.13
132_L	137_H	0.685	0.13
165_I	178_L	0.682	0.13
69_M	73_Y	0.680	0.13
111_L	146_V	0.680	0.13
47_H	66_F	0.676	0.13
82_Q	194_A	0.676	0.13
75_T	154_T	0.672	0.13
216_F	225_H	0.664	0.13
213_L	234_K	0.663	0.13
98_G	144_Y	0.660	0.13
220_S	226_R	0.658	0.13
136_L	193_A	0.658	0.13
208_Q	235_E	0.658	0.13
67_S	70_K	0.657	0.13
120_F	158_P	0.655	0.12
131_E	149_Q	0.652	0.12
32_F	103_M	0.650	0.12
204_Q	207_L	0.648	0.12
213_L	222_A	0.646	0.12
97_A	174_F	0.645	0.12
139_T	230_F	0.643	0.12
85_T	186_L	0.642	0.12
187_L	232_K	0.641	0.12
93_T	114_C	0.641	0.12
58_V	139_T	0.641	0.12
57_L	173_H	0.639	0.12
106_N	144_Y	0.637	0.12
40_L	224_G	0.635	0.12
122_I	131_E	0.634	0.12
62_I	162_H	0.634	0.12
69_M	144_Y	0.631	0.12
98_G	141_V	0.631	0.12
92_D	160_I	0.630	0.12
55_A	104_R	0.628	0.12
18_L	194_A	0.626	0.12
112_D	118_Q	0.623	0.12
164_P	203_R	0.623	0.12
98_G	133_R	0.620	0.12
177_E	189_P	0.620	0.12
61_G	147_F	0.619	0.12
49_E	235_E	0.618	0.12
99_F	218_H	0.616	0.12
68_Q	99_F	0.616	0.12
110_M	225_H	0.616	0.12
61_G	140_S	0.614	0.12
93_T	174_F	0.602	0.12
62_I	68_Q	0.601	0.12
62_I	218_H	0.601	0.12
29_T	233_N	0.601	0.12
171_F	200_T	0.598	0.12
121_G	203_R	0.598	0.12
50_F	69_M	0.596	0.11
158_P	226_R	0.594	0.11
11_F	15_V	0.593	0.11
236_Q	243_S	0.592	0.11
146_V	177_E	0.591	0.11
147_F	158_P	0.582	0.11
60_A	174_F	0.581	0.11
80_L	244_F	0.580	0.11
58_V	142_I	0.579	0.11
19_P	41_G	0.576	0.11
166_L	190_L	0.576	0.11
73_Y	142_I	0.574	0.11
19_P	25_S	0.573	0.11
8_L	233_N	0.570	0.11
54_D	172_G	0.568	0.11
20_S	71_T	0.568	0.11
92_D	121_G	0.566	0.11
47_H	192_K	0.565	0.11
11_F	159_A	0.564	0.11
148_I	165_I	0.561	0.11
49_E	89_M	0.558	0.11
31_P	91_V	0.556	0.11
34_L	56_S	0.556	0.11
89_M	141_V	0.551	0.11
239_R	243_S	0.546	0.11
176_A	200_T	0.546	0.11
52_N	55_A	0.545	0.11
63_T	87_E	0.545	0.11
98_G	102_S	0.544	0.11
82_Q	184_P	0.543	0.11
173_H	205_H	0.543	0.11
62_I	106_N	0.543	0.11
189_P	218_H	0.543	0.11
68_Q	189_P	0.543	0.11
149_Q	162_H	0.542	0.11
7_C	211_I	0.542	0.11
160_I	224_G	0.542	0.11
239_R	244_F	0.542	0.11
38_N	193_A	0.539	0.11
85_T	145_P	0.538	0.11
130_G	175_P	0.533	0.11
16_H	235_E	0.533	0.11
86_L	90_A	0.532	0.10
15_V	84_G	0.526	0.10
148_I	170_A	0.525	0.10
185_A	211_I	0.525	0.10
25_S	53_R	0.524	0.10
228_K	236_Q	0.523	0.10
61_G	99_F	0.522	0.10
53_R	204_Q	0.521	0.10
92_D	114_C	0.519	0.10
8_L	156_Y	0.518	0.10
99_F	194_A	0.516	0.10
117_P	172_G	0.510	0.10
94_K	138_T	0.510	0.10
44_Y	215_G	0.509	0.10
129_F	138_T	0.509	0.10
122_I	127_K	0.509	0.10
73_Y	76_A	0.508	0.10
45_S	98_G	0.508	0.10
121_G	171_F	0.507	0.10
115_G	118_Q	0.506	0.10
115_G	176_A	0.505	0.10
88_Q	242_R	0.502	0.10
22_L	91_V	0.501	0.10
59_I	152_N	0.500	0.10

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
1wywA	1	0.6797	97.8	0.922	Contact Map
1mugA	1	0.625	97.6	0.925	Contact Map
1ui0A	1	0.7227	97.6	0.925	Contact Map
2c2qA	1	0.6758	97.6	0.925	Contact Map
1oe4A	2	0.8516	97.6	0.925	Contact Map
1vk2A	1	0.6992	97.4	0.928	Contact Map
2d3yA	1	0.7422	97.3	0.929	Contact Map
2l3fA	1	0.6016	95.1	0.943	Contact Map
3ikbA	1	0.7344	94.4	0.945	Contact Map
1xmkA	1	0.293	41	0.968	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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