YPJB - BACSU - GREMLIN Contacts

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YPJB - Uncharacterized protein YpjB

UniProt:	P54393	Sequences: MKRKLTICLLIALIFYNGNAKAAERGSLEELNDLSDTVFQMTRQAKYEEALQVLEYFEKTLKSAEKKQQDPMLTGAQIRQITLGYNDMVRSLKQADTSDTQKLRAAAQFRMLMDAVDNRSDPLWGSLEKPIMEAFTELKRDVQKNGSTSFHEKWNEFISLYDLIYPSLTIDVSEDQLETVGKHIDVIEQEEFQQMTESTKLERLSLLQHDLKNVFDRVEEDDADPSLLWVIITTGSIIITALTYVGYRKYKAEKNKLKKRDYPK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	264 (246)
Sequences:	156 (134)
Seq/√Len:	8.5

BACSU - YPJB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
139_K	208_Q	5.781	1.00
225_P	246_G	3.493	0.95
127_L	215_F	3.321	0.93
187_I	245_V	3.259	0.93
78_I	82_T	2.998	0.89
123_L	246_G	2.699	0.83
85_Y	127_L	2.691	0.83
28_L	207_L	2.576	0.80
35_S	81_I	2.565	0.80
244_Y	250_Y	2.513	0.78
157_F	236_S	2.350	0.73
88_M	247_Y	2.304	0.72
135_F	167_S	2.287	0.71
235_G	248_R	2.251	0.70
249_K	252_A	2.236	0.69
38_V	127_L	2.221	0.69
46_K	49_E	2.151	0.66
244_Y	249_K	2.108	0.65
57_F	167_S	2.098	0.64
167_S	234_T	1.940	0.58
123_L	162_D	1.931	0.57
54_L	238_I	1.888	0.56
93_K	131_I	1.885	0.56
40_Q	43_R	1.869	0.55
39_F	107_A	1.849	0.54
31_L	170_I	1.815	0.53
88_M	106_A	1.812	0.52
184_I	204_L	1.810	0.52
247_Y	252_A	1.809	0.52
32_N	114_D	1.804	0.52
101_Q	186_V	1.800	0.52
228_L	235_G	1.776	0.51
79_R	128_E	1.764	0.50
112_L	239_I	1.728	0.49
63_S	144_K	1.723	0.49
180_V	231_I	1.717	0.48
88_M	132_M	1.701	0.48
129_K	247_Y	1.674	0.47
76_A	85_Y	1.661	0.46
57_F	221_D	1.656	0.46
41_M	49_E	1.651	0.46
86_N	102_K	1.636	0.45
122_P	236_S	1.599	0.43
165_Y	234_T	1.598	0.43
111_M	123_L	1.596	0.43
161_Y	181_G	1.593	0.43
157_F	184_I	1.583	0.43
122_P	181_G	1.560	0.42
12_A	81_I	1.555	0.42
81_I	180_V	1.553	0.42
75_G	78_I	1.517	0.40
228_L	246_G	1.515	0.40
11_I	255_N	1.500	0.39
61_L	78_I	1.495	0.39
102_K	203_R	1.486	0.39
156_E	180_V	1.479	0.39
123_L	150_F	1.469	0.38
133_E	137_E	1.465	0.38
12_A	113_M	1.393	0.35
127_L	160_L	1.391	0.35
39_F	252_A	1.368	0.34
126_S	160_L	1.365	0.34
167_S	238_I	1.361	0.34
221_D	238_I	1.353	0.34
155_N	165_Y	1.351	0.34
180_V	251_K	1.350	0.34
44_Q	52_Q	1.344	0.33
221_D	227_L	1.339	0.33
39_F	127_L	1.339	0.33
226_S	249_K	1.334	0.33
38_V	167_S	1.331	0.33
51_L	93_K	1.319	0.32
81_I	177_L	1.316	0.32
102_K	248_R	1.306	0.32
51_L	102_K	1.303	0.32
207_L	219_E	1.302	0.32
117_D	179_T	1.300	0.32
46_K	106_A	1.296	0.32
85_Y	109_F	1.290	0.31
92_L	108_Q	1.265	0.30
89_V	241_A	1.264	0.30
135_F	249_K	1.259	0.30
124_W	242_L	1.244	0.30
59_K	140_R	1.241	0.30
8_C	13_L	1.237	0.29
58_E	62_K	1.235	0.29
39_F	172_V	1.205	0.28
57_F	79_R	1.198	0.28
97_T	102_K	1.193	0.28
128_E	229_W	1.185	0.28
35_S	82_T	1.178	0.27
31_L	57_F	1.177	0.27
118_N	121_D	1.175	0.27
236_S	253_E	1.167	0.27
220_E	243_T	1.163	0.27
155_N	168_L	1.162	0.27
28_L	187_I	1.146	0.26
62_K	162_D	1.138	0.26
88_M	91_S	1.135	0.26
144_K	180_V	1.134	0.26
92_L	223_A	1.129	0.26
92_L	173_S	1.127	0.26
57_F	234_T	1.125	0.26
224_D	230_V	1.119	0.25
125_G	134_A	1.116	0.25
108_Q	167_S	1.111	0.25
123_L	186_V	1.110	0.25
222_D	234_T	1.106	0.25
68_Q	170_I	1.102	0.25
160_L	214_V	1.101	0.25
126_S	165_Y	1.100	0.25
9_L	14_I	1.097	0.25
242_L	250_Y	1.096	0.25
58_E	238_I	1.091	0.25
153_K	243_T	1.085	0.24
247_Y	255_N	1.079	0.24
13_L	20_A	1.079	0.24
87_D	193_Q	1.076	0.24
10_L	13_L	1.070	0.24
203_R	227_L	1.070	0.24
61_L	112_L	1.068	0.24
31_L	224_D	1.065	0.24
109_F	230_V	1.051	0.23
77_Q	127_L	1.050	0.23
183_H	207_L	1.035	0.23
157_F	186_V	1.030	0.23
182_K	195_M	1.029	0.23
151_H	207_L	1.020	0.22
160_L	168_L	1.019	0.22
52_Q	253_E	1.015	0.22
79_R	106_A	1.014	0.22
17_N	22_A	0.996	0.22
114_D	245_V	0.992	0.22
177_L	214_V	0.990	0.22
57_F	229_W	0.988	0.21
81_I	185_D	0.985	0.21
44_Q	135_F	0.983	0.21
63_S	137_E	0.980	0.21
112_L	216_D	0.979	0.21
79_R	229_W	0.974	0.21
110_R	171_D	0.974	0.21
75_G	207_L	0.970	0.21
167_S	248_R	0.970	0.21
32_N	249_K	0.953	0.20
187_I	207_L	0.949	0.20
241_A	245_V	0.947	0.20
66_K	165_Y	0.943	0.20
63_S	133_E	0.940	0.20
140_R	250_Y	0.938	0.20
221_D	229_W	0.937	0.20
81_I	165_Y	0.936	0.20
44_Q	217_R	0.930	0.20
61_L	219_E	0.929	0.20
47_Y	73_L	0.923	0.20
67_K	177_L	0.923	0.20
94_Q	119_R	0.919	0.20
54_L	168_L	0.919	0.20
81_I	107_A	0.918	0.20
32_N	110_R	0.917	0.20
36_D	157_F	0.910	0.19
133_E	163_L	0.909	0.19
115_A	122_P	0.907	0.19
35_S	51_L	0.900	0.19
95_A	140_R	0.898	0.19
95_A	98_S	0.897	0.19
166_P	244_Y	0.896	0.19
31_L	226_S	0.896	0.19
79_R	224_D	0.891	0.19
106_A	128_E	0.887	0.19
23_A	164_I	0.882	0.19
79_R	234_T	0.876	0.18
113_M	249_K	0.874	0.18
31_L	79_R	0.869	0.18
36_D	110_R	0.862	0.18
175_D	245_V	0.857	0.18
14_I	81_I	0.856	0.18
62_K	154_W	0.848	0.18
28_L	219_E	0.843	0.18
61_L	82_T	0.842	0.18
101_Q	240_T	0.839	0.18
135_F	234_T	0.836	0.17
45_A	123_L	0.832	0.17
158_I	241_A	0.828	0.17
238_I	248_R	0.818	0.17
44_Q	233_T	0.816	0.17
15_F	23_A	0.815	0.17
36_D	118_N	0.813	0.17
132_M	222_D	0.810	0.17
220_E	225_P	0.810	0.17
95_A	105_A	0.809	0.17
75_G	109_F	0.808	0.17
210_D	245_V	0.806	0.17
48_E	122_P	0.803	0.17
54_L	229_W	0.800	0.17
8_C	136_T	0.796	0.16
183_H	210_D	0.793	0.16
165_Y	183_H	0.791	0.16
29_E	198_S	0.787	0.16
142_V	145_N	0.781	0.16
10_L	16_Y	0.779	0.16
172_V	182_K	0.779	0.16
42_T	58_E	0.777	0.16
162_D	228_L	0.766	0.16
45_A	116_V	0.763	0.16
220_E	252_A	0.759	0.16
179_T	209_H	0.758	0.16
42_T	131_I	0.754	0.16
111_M	154_W	0.752	0.15
108_Q	162_D	0.752	0.15
61_L	250_Y	0.752	0.15
110_R	166_P	0.748	0.15
121_D	241_A	0.748	0.15
9_L	46_K	0.743	0.15
39_F	77_Q	0.742	0.15
31_L	219_E	0.735	0.15
105_A	130_P	0.733	0.15
54_L	180_V	0.732	0.15
202_E	239_I	0.732	0.15
88_M	180_V	0.731	0.15
77_Q	210_D	0.731	0.15
207_L	247_Y	0.730	0.15
33_D	140_R	0.729	0.15
8_C	18_G	0.727	0.15
9_L	186_V	0.722	0.15
235_G	246_G	0.721	0.15
201_L	205_S	0.714	0.15
85_Y	165_Y	0.713	0.15
27_S	99_D	0.713	0.15
123_L	223_A	0.702	0.14
168_L	214_V	0.701	0.14
163_L	191_E	0.696	0.14
54_L	114_D	0.695	0.14
51_L	121_D	0.692	0.14
57_F	223_A	0.684	0.14
138_L	154_W	0.681	0.14
11_I	14_I	0.678	0.14
24_E	196_T	0.676	0.14
94_Q	99_D	0.675	0.14
10_L	214_V	0.673	0.14
226_S	244_Y	0.672	0.14
99_D	185_D	0.671	0.14
19_N	168_L	0.669	0.14
173_S	255_N	0.669	0.14
230_V	238_I	0.666	0.14
58_E	61_L	0.665	0.14
29_E	246_G	0.664	0.14
161_Y	234_T	0.664	0.14
75_G	191_E	0.658	0.14
87_D	108_Q	0.657	0.14
28_L	152_E	0.656	0.13
101_Q	243_T	0.655	0.13
80_Q	139_K	0.655	0.13
50_A	167_S	0.654	0.13
48_E	249_K	0.652	0.13
109_F	187_I	0.651	0.13
62_K	78_I	0.646	0.13
65_E	108_Q	0.643	0.13
43_R	88_M	0.643	0.13
19_N	248_R	0.643	0.13
40_Q	158_I	0.640	0.13
167_S	244_Y	0.640	0.13
115_A	187_I	0.638	0.13
29_E	87_D	0.638	0.13
156_E	164_I	0.638	0.13
132_M	216_D	0.637	0.13
102_K	224_D	0.637	0.13
10_L	159_S	0.634	0.13
78_I	206_L	0.634	0.13
181_G	208_Q	0.632	0.13
185_D	233_T	0.631	0.13
65_E	115_A	0.629	0.13
238_I	242_L	0.627	0.13
16_Y	22_A	0.625	0.13
8_C	16_Y	0.623	0.13
45_A	66_K	0.623	0.13
145_N	148_T	0.621	0.13
38_V	164_I	0.618	0.13
85_Y	234_T	0.617	0.13
145_N	217_R	0.616	0.13
162_D	208_Q	0.614	0.13
87_D	211_L	0.613	0.13
77_Q	172_V	0.611	0.13
42_T	90_R	0.609	0.13
168_L	177_L	0.608	0.13
12_A	17_N	0.606	0.13
62_K	123_L	0.605	0.13
242_L	246_G	0.605	0.13
209_H	240_T	0.605	0.13
74_T	180_V	0.605	0.13
81_I	210_D	0.604	0.12
118_N	229_W	0.603	0.12
128_E	158_I	0.601	0.12
57_F	219_E	0.601	0.12
242_L	249_K	0.601	0.12
43_R	107_A	0.598	0.12
109_F	249_K	0.597	0.12
115_A	183_H	0.593	0.12
40_Q	176_Q	0.590	0.12
184_I	194_Q	0.590	0.12
54_L	171_D	0.589	0.12
109_F	233_T	0.585	0.12
82_T	107_A	0.584	0.12
234_T	237_I	0.581	0.12
158_I	196_T	0.581	0.12
120_S	138_L	0.578	0.12
82_T	109_F	0.578	0.12
79_R	221_D	0.577	0.12
57_F	230_V	0.567	0.12
18_G	149_S	0.566	0.12
225_P	229_W	0.566	0.12
80_Q	194_Q	0.566	0.12
118_N	128_E	0.565	0.12
221_D	224_D	0.564	0.12
90_R	108_Q	0.563	0.12
112_L	117_D	0.563	0.12
113_M	134_A	0.562	0.12
13_L	24_E	0.560	0.12
40_Q	235_G	0.558	0.12
53_V	220_E	0.556	0.12
9_L	196_T	0.555	0.12
168_L	207_L	0.555	0.12
42_T	184_I	0.555	0.12
57_F	224_D	0.552	0.12
55_E	255_N	0.550	0.12
105_A	116_V	0.547	0.11
160_L	165_Y	0.547	0.11
86_N	94_Q	0.546	0.11
50_A	245_V	0.546	0.11
153_K	214_V	0.545	0.11
38_V	173_S	0.542	0.11
22_A	115_A	0.541	0.11
105_A	201_L	0.539	0.11
34_L	181_G	0.539	0.11
241_A	249_K	0.537	0.11
114_D	242_L	0.536	0.11
74_T	133_E	0.536	0.11
80_Q	208_Q	0.535	0.11
151_H	236_S	0.533	0.11
128_E	224_D	0.531	0.11
151_H	243_T	0.530	0.11
61_L	226_S	0.530	0.11
226_S	252_A	0.528	0.11
72_M	178_E	0.528	0.11
39_F	43_R	0.526	0.11
171_D	229_W	0.526	0.11
163_L	167_S	0.525	0.11
220_E	236_S	0.524	0.11
126_S	135_F	0.521	0.11
52_Q	101_Q	0.521	0.11
44_Q	152_E	0.519	0.11
115_A	242_L	0.519	0.11
140_R	214_V	0.517	0.11
110_R	161_Y	0.517	0.11
28_L	253_E	0.512	0.11
132_M	235_G	0.511	0.11
67_K	81_I	0.510	0.11
122_P	248_R	0.509	0.11
54_L	234_T	0.509	0.11
250_Y	253_E	0.508	0.11
61_L	191_E	0.507	0.11
45_A	99_D	0.506	0.11
114_D	247_Y	0.506	0.11
86_N	93_K	0.505	0.11
78_I	191_E	0.505	0.11
167_S	215_F	0.503	0.11
243_T	250_Y	0.502	0.11
110_R	234_T	0.502	0.11
57_F	75_G	0.502	0.11
40_Q	204_L	0.500	0.11

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
2micA	2	0.1553	32.1	0.959	Contact Map
3zbiC	1	0.1061	29.7	0.96	Contact Map
3n71A	1	0.678	16.5	0.964	Contact Map
2f95B	2	0.0758	16.4	0.964	Contact Map
2w2uA	1	0.2803	15.6	0.964	Contact Map
3v57A	1	0.4773	15.2	0.965	Contact Map
2w84A	1	0.2045	14.3	0.965	Contact Map
3ezhA	3	0.3712	12.8	0.966	Contact Map
4uy3A	1	0.2462	9.5	0.968	Contact Map
2m3eA	1	0.1553	9.2	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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