YQBB - BACSU - GREMLIN Contacts

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YQBB - Uncharacterized protein YqbB

UniProt:	P45918	Sequences: MNKTDKLLESLNVFIQKAEENQYKQLGEMVPDFPGKSNIPKYVEEYEKGIARLLRRQHKKFLDGLKGFVSKDSEETLKALLVFFTQNLFAEDDFEEEFQELTEGFLQQTIEEMAEVIMDSIDPEVPFKVLSNRTINWIKDWSKKLAEIMKLNTHEVVEDVLTNAIENGSSIQDIELTLKDMPQFDRERARTTAITEVLAASSAAQHESYAQSPAVKKKKWRHSGGKKNNPRENHIDLDGTVIGVDEEFQIPGSSETCMFPRDPKLSTRERVNCHCVLSPVVDSKILGLSPEEKEEIQREVLANME	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	305 (239)
Sequences:	757 (669)
Seq/√Len:	43.3

BACSU - YQBB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
231_R	275_C	5.529	1.00
222_H	230_P	5.167	1.00
231_R	234_H	4.662	1.00
169_S	177_T	4.006	1.00
225_G	274_H	3.858	1.00
220_W	275_C	3.832	1.00
217_K	243_G	3.535	1.00
164_A	174_I	3.309	1.00
188_R	191_T	3.087	1.00
194_I	272_N	3.071	1.00
209_Y	279_P	2.933	1.00
220_W	261_R	2.820	1.00
237_L	242_I	2.820	1.00
209_Y	277_L	2.802	1.00
221_R	278_S	2.733	1.00
225_G	230_P	2.586	1.00
225_G	229_N	2.530	1.00
219_K	241_V	2.492	1.00
243_G	246_E	2.441	1.00
224_G	230_P	2.427	1.00
223_S	230_P	2.382	1.00
229_N	274_H	2.323	1.00
191_T	272_N	2.278	1.00
160_V	177_T	2.243	1.00
146_A	150_K	2.126	0.99
230_P	274_H	2.097	0.99
106_L	207_E	1.994	0.99
207_E	210_A	1.968	0.99
142_S	148_I	1.949	0.99
218_K	242_I	1.927	0.99
222_H	238_D	1.915	0.99
217_K	282_D	1.904	0.99
220_W	259_F	1.866	0.99
224_G	238_D	1.826	0.98
230_P	275_C	1.795	0.98
225_G	231_R	1.742	0.98
207_E	211_Q	1.742	0.98
225_G	275_C	1.715	0.98
184_F	187_E	1.682	0.97
222_H	225_G	1.649	0.97
217_K	241_V	1.647	0.97
234_H	261_R	1.630	0.97
148_I	192_T	1.582	0.96
193_A	220_W	1.554	0.96
219_K	278_S	1.520	0.95
203_A	206_H	1.515	0.95
178_L	193_A	1.479	0.94
220_W	234_H	1.478	0.94
188_R	192_T	1.475	0.94
222_H	275_C	1.448	0.94
220_W	237_L	1.426	0.93
261_R	275_C	1.426	0.93
234_H	259_F	1.388	0.92
221_R	276_V	1.374	0.92
196_E	199_A	1.368	0.92
220_W	231_R	1.367	0.92
169_S	173_D	1.357	0.91
150_K	192_T	1.344	0.91
220_W	257_C	1.334	0.91
218_K	248_F	1.325	0.90
147_E	153_T	1.314	0.90
223_S	275_C	1.311	0.90
109_T	113_M	1.306	0.90
231_R	235_I	1.304	0.90
234_H	242_I	1.294	0.89
191_T	195_T	1.293	0.89
258_M	275_C	1.279	0.89
203_A	207_E	1.270	0.88
220_W	258_M	1.253	0.88
187_E	191_T	1.252	0.88
54_L	58_H	1.248	0.87
193_A	275_C	1.248	0.87
30_V	33_F	1.242	0.87
168_G	274_H	1.230	0.87
206_H	247_E	1.212	0.86
84_F	161_L	1.208	0.86
146_A	192_T	1.200	0.85
206_H	210_A	1.190	0.85
32_D	36_K	1.190	0.85
242_I	248_F	1.180	0.84
145_L	149_M	1.163	0.83
231_R	261_R	1.153	0.83
218_K	277_L	1.142	0.82
257_C	261_R	1.124	0.81
156_V	181_M	1.121	0.81
247_E	258_M	1.120	0.81
142_S	146_A	1.118	0.81
218_K	259_F	1.118	0.81
99_Q	103_E	1.104	0.80
200_A	204_A	1.097	0.80
222_H	274_H	1.085	0.79
272_N	280_V	1.066	0.78
98_F	102_T	1.064	0.77
223_S	226_K	1.057	0.77
234_H	257_C	1.052	0.77
149_M	153_T	1.046	0.76
149_M	184_F	1.044	0.76
219_K	280_V	1.042	0.76
242_I	246_E	1.042	0.76
218_K	245_D	1.041	0.76
218_K	279_P	1.030	0.75
157_V	189_A	1.021	0.74
160_V	174_I	1.019	0.74
241_V	280_V	1.014	0.74
194_I	229_N	1.014	0.74
221_R	239_G	0.994	0.72
184_F	188_R	0.991	0.72
54_L	101_L	0.990	0.72
68_F	72_D	0.988	0.72
43_V	47_E	0.982	0.71
111_E	115_E	0.965	0.70
231_R	259_F	0.957	0.70
218_K	234_H	0.953	0.69
216_K	279_P	0.948	0.69
194_I	202_S	0.947	0.69
55_R	59_K	0.926	0.67
217_K	280_V	0.921	0.67
248_F	252_G	0.909	0.65
168_G	194_I	0.908	0.65
37_S	41_K	0.904	0.65
239_G	242_I	0.895	0.64
220_W	248_F	0.892	0.64
198_L	202_S	0.892	0.64
237_L	275_C	0.891	0.64
69_V	73_S	0.891	0.64
222_H	229_N	0.889	0.64
220_W	242_I	0.883	0.63
234_H	252_G	0.878	0.63
224_G	274_H	0.877	0.63
218_K	231_R	0.864	0.62
146_A	149_M	0.864	0.62
235_I	275_C	0.863	0.61
64_G	83_F	0.862	0.61
163_N	167_N	0.862	0.61
143_K	146_A	0.861	0.61
118_M	122_D	0.858	0.61
177_T	180_D	0.853	0.61
234_H	248_F	0.851	0.60
160_V	164_A	0.851	0.60
224_G	275_C	0.847	0.60
222_H	235_I	0.847	0.60
102_T	121_I	0.844	0.60
36_K	40_P	0.842	0.60
175_E	190_R	0.839	0.59
87_N	90_A	0.838	0.59
181_M	184_F	0.834	0.59
48_K	136_N	0.833	0.59
206_H	244_V	0.831	0.58
231_R	242_I	0.825	0.58
234_H	275_C	0.821	0.58
198_L	231_R	0.820	0.57
150_K	153_T	0.807	0.56
114_A	118_M	0.807	0.56
208_S	212_S	0.806	0.56
76_T	102_T	0.806	0.56
150_K	234_H	0.802	0.56
125_V	178_L	0.795	0.55
258_M	261_R	0.792	0.55
223_S	231_R	0.792	0.55
230_P	238_D	0.791	0.55
197_V	212_S	0.791	0.55
170_S	173_D	0.791	0.55
216_K	219_K	0.787	0.54
130_L	135_I	0.786	0.54
205_Q	276_V	0.785	0.54
146_A	204_A	0.783	0.54
209_Y	244_V	0.783	0.54
117_I	122_D	0.781	0.54
213_P	229_N	0.780	0.54
247_E	257_C	0.778	0.54
142_S	192_T	0.773	0.53
43_V	275_C	0.772	0.53
135_I	139_K	0.765	0.52
148_I	196_E	0.764	0.52
176_L	179_K	0.759	0.52
144_K	157_V	0.758	0.52
176_L	180_D	0.758	0.52
131_S	134_T	0.758	0.52
237_L	240_T	0.756	0.51
174_I	197_V	0.753	0.51
190_R	194_I	0.752	0.51
210_A	245_D	0.747	0.51
216_K	243_G	0.745	0.50
205_Q	279_P	0.743	0.50
52_R	183_Q	0.740	0.50
178_L	218_K	0.738	0.50
32_D	35_G	0.734	0.49
171_I	198_L	0.730	0.49
41_K	45_E	0.729	0.49
84_F	93_D	0.726	0.49
235_I	238_D	0.725	0.48
142_S	150_K	0.719	0.48
192_T	196_E	0.715	0.48
42_Y	45_E	0.713	0.47
195_T	204_A	0.713	0.47
183_Q	208_S	0.700	0.46
191_T	196_E	0.698	0.46
123_P	178_L	0.695	0.46
233_N	275_C	0.693	0.45
34_P	37_S	0.693	0.45
213_P	274_H	0.693	0.45
54_L	197_V	0.690	0.45
202_S	261_R	0.688	0.45
183_Q	209_Y	0.684	0.45
217_K	281_V	0.684	0.45
146_A	151_L	0.683	0.44
195_T	199_A	0.683	0.44
199_A	231_R	0.683	0.44
160_V	181_M	0.683	0.44
110_I	115_E	0.682	0.44
151_L	190_R	0.682	0.44
56_R	159_D	0.680	0.44
198_L	261_R	0.676	0.44
218_K	244_V	0.676	0.44
76_T	80_L	0.675	0.44
164_A	169_S	0.673	0.44
94_F	98_F	0.668	0.43
34_P	45_E	0.668	0.43
137_W	207_E	0.668	0.43
132_N	136_N	0.667	0.43
231_R	248_F	0.667	0.43
95_E	103_E	0.666	0.43
192_T	220_W	0.666	0.43
49_G	52_R	0.662	0.43
191_T	208_S	0.661	0.42
143_K	151_L	0.661	0.42
226_K	229_N	0.658	0.42
52_R	213_P	0.654	0.42
45_E	178_L	0.652	0.42
134_T	138_I	0.650	0.41
54_L	148_I	0.649	0.41
92_D	96_E	0.648	0.41
40_P	46_Y	0.647	0.41
115_E	118_M	0.647	0.41
218_K	247_E	0.646	0.41
194_I	274_H	0.646	0.41
209_Y	234_H	0.646	0.41
223_S	238_D	0.646	0.41
116_V	119_D	0.644	0.41
118_M	183_Q	0.644	0.41
76_T	168_G	0.643	0.41
56_R	211_Q	0.643	0.41
30_V	35_G	0.642	0.41
237_L	281_V	0.639	0.40
97_E	100_E	0.639	0.40
32_D	81_L	0.639	0.40
161_L	208_S	0.639	0.40
106_L	204_A	0.638	0.40
175_E	194_I	0.634	0.40
259_F	275_C	0.627	0.39
41_K	132_N	0.624	0.39
142_S	196_E	0.624	0.39
186_R	190_R	0.624	0.39
189_A	199_A	0.623	0.39
127_F	208_S	0.617	0.38
33_F	37_S	0.617	0.38
95_E	121_I	0.615	0.38
259_F	277_L	0.615	0.38
198_L	234_H	0.614	0.38
113_M	117_I	0.605	0.37
35_G	39_I	0.605	0.37
218_K	261_R	0.603	0.37
213_P	217_K	0.601	0.37
114_A	120_S	0.600	0.37
189_A	193_A	0.599	0.37
165_I	171_I	0.599	0.37
113_M	116_V	0.598	0.37
246_E	251_P	0.598	0.37
140_D	155_E	0.596	0.37
195_T	272_N	0.596	0.37
226_K	275_C	0.595	0.36
143_K	152_N	0.594	0.36
214_A	281_V	0.593	0.36
209_Y	218_K	0.591	0.36
133_R	136_N	0.591	0.36
184_F	189_A	0.591	0.36
193_A	234_H	0.589	0.36
150_K	191_T	0.589	0.36
179_K	189_A	0.588	0.36
242_I	259_F	0.587	0.36
139_K	243_G	0.587	0.36
83_F	165_I	0.585	0.36
141_W	198_L	0.584	0.35
40_P	44_E	0.583	0.35
111_E	118_M	0.581	0.35
175_E	189_A	0.578	0.35
157_V	178_L	0.578	0.35
35_G	42_Y	0.574	0.35
113_M	122_D	0.573	0.34
159_D	163_N	0.573	0.34
247_E	251_P	0.572	0.34
110_I	119_D	0.572	0.34
212_S	217_K	0.570	0.34
58_H	182_P	0.569	0.34
145_L	231_R	0.568	0.34
202_S	206_H	0.568	0.34
133_R	180_D	0.567	0.34
192_T	234_H	0.566	0.34
49_G	97_E	0.563	0.34
137_W	140_D	0.562	0.34
205_Q	209_Y	0.562	0.34
221_R	238_D	0.559	0.33
230_P	235_I	0.554	0.33
186_R	199_A	0.554	0.33
106_L	118_M	0.553	0.33
96_E	103_E	0.553	0.33
115_E	238_D	0.552	0.33
94_F	176_L	0.550	0.33
204_A	208_S	0.549	0.32
38_N	135_I	0.546	0.32
59_K	63_D	0.544	0.32
218_K	251_P	0.544	0.32
72_D	75_E	0.543	0.32
104_G	203_A	0.543	0.32
224_G	235_I	0.541	0.32
95_E	165_I	0.540	0.32
44_E	278_S	0.540	0.32
224_G	231_R	0.539	0.32
175_E	193_A	0.538	0.32
211_Q	246_E	0.538	0.32
39_I	42_Y	0.537	0.31
53_L	93_D	0.536	0.31
78_K	81_L	0.535	0.31
134_T	232_E	0.534	0.31
178_L	217_K	0.533	0.31
206_H	277_L	0.532	0.31
138_I	161_L	0.532	0.31
78_K	82_V	0.532	0.31
65_L	125_V	0.530	0.31
164_A	168_G	0.527	0.31
81_L	194_I	0.527	0.31
125_V	278_S	0.526	0.31
50_I	106_L	0.526	0.31
48_K	214_A	0.526	0.31
77_L	152_N	0.526	0.31
84_F	98_F	0.526	0.31
157_V	192_T	0.525	0.30
162_T	169_S	0.525	0.30
185_D	204_A	0.524	0.30
110_I	118_M	0.523	0.30
61_F	84_F	0.522	0.30
123_P	155_E	0.522	0.30
171_I	202_S	0.521	0.30
199_A	248_F	0.520	0.30
121_I	138_I	0.517	0.30
146_A	152_N	0.516	0.30
149_M	189_A	0.514	0.30
30_V	34_P	0.509	0.29
62_L	66_K	0.508	0.29
149_M	235_I	0.507	0.29
234_H	247_E	0.507	0.29
112_E	117_I	0.507	0.29
240_T	249_Q	0.505	0.29
40_P	49_G	0.505	0.29
104_G	108_Q	0.504	0.29
199_A	275_C	0.502	0.29
111_E	116_V	0.501	0.29
222_H	237_L	0.500	0.28

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
3ojaA	1	0.341	18.4	0.955	Contact Map
3ojaB	1	0.3967	16.4	0.956	Contact Map
2gd5A	2	0.3934	16.4	0.956	Contact Map
1eq1A	1	0.4918	12.7	0.958	Contact Map
4y66A	1	0.4066	11.8	0.958	Contact Map
4tqlA	1	0.6984	10.4	0.96	Contact Map
4jneA	2	0.3213	10.2	0.96	Contact Map
4kblA	2	0.4033	8.6	0.961	Contact Map
4f01A	2	0.3213	8.4	0.961	Contact Map
4jioA	1	0.4557	7.9	0.962	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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