YHBF - BACSU - GREMLIN Contacts

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YHBF - Uncharacterized protein YhbF

UniProt:	P39133	Sequences: METTKLGNLKLYGAGHAAGGAYHNVSIKGEGIVGEGLSAVGCRIYGTGLFLGKAETERLRVLGESECKGDLTAGKINIYGTMKVSGSLQFDRFNLKGQTEIGGNMTGESCDVKGKLSVIGDCETEMFHVTGCVDVSGLLNSGEIKLGLSHDISHVQEIGGTTITVKRRASFFSRKKGKLIADVIEGDRVYLENTEAAVVRGKEVIIGPGCSIGTIEYEYKCECDPHSQIKEKTKL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	235 (215)
Sequences:	276 (238)
Seq/√Len:	16.2

BACSU - YHBF YHBE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
197_A	213_G	4.149	1.00
45_Y	62_L	4.012	1.00
133_V	155_V	3.598	1.00
160_G	163_I	3.534	1.00
28_K	45_Y	3.297	0.99
165_V	179_L	3.248	0.99
191_L	199_V	3.206	0.99
159_G	187_D	2.897	0.98
138_L	159_G	2.838	0.98
79_Y	96_K	2.801	0.97
182_D	197_A	2.693	0.97
125_E	140_N	2.611	0.96
62_L	79_Y	2.553	0.95
142_G	161_T	2.450	0.94
107_G	124_T	2.430	0.94
45_Y	79_Y	2.420	0.94
39_A	42_C	2.307	0.92
56_T	59_L	2.254	0.91
28_K	79_Y	2.240	0.91
47_T	81_T	2.145	0.89
19_G	25_V	2.140	0.89
62_L	96_K	2.044	0.87
25_V	39_A	1.963	0.84
214_T	233_T	1.900	0.82
200_R	216_E	1.849	0.80
148_L	209_G	1.848	0.80
20_G	39_A	1.818	0.79
28_K	62_L	1.811	0.79
202_K	218_E	1.784	0.78
30_E	64_E	1.781	0.78
203_E	219_Y	1.779	0.78
64_E	81_T	1.770	0.77
221_C	232_K	1.712	0.75
20_G	25_V	1.702	0.74
36_G	56_T	1.698	0.74
204_V	215_I	1.657	0.72
135_V	139_L	1.656	0.72
19_G	22_Y	1.649	0.72
36_G	39_A	1.603	0.70
181_A	184_I	1.590	0.69
140_N	159_G	1.573	0.68
112_V	116_L	1.570	0.68
184_I	212_I	1.566	0.68
22_Y	25_V	1.566	0.68
61_V	78_I	1.561	0.67
127_F	135_V	1.555	0.67
87_S	103_G	1.555	0.67
45_Y	96_K	1.554	0.67
206_I	215_I	1.526	0.66
27_I	31_G	1.511	0.65
26_S	77_N	1.495	0.64
121_D	137_G	1.485	0.63
38_S	55_E	1.442	0.61
139_L	216_E	1.433	0.61
19_G	39_A	1.421	0.60
188_R	203_E	1.420	0.60
42_C	50_F	1.417	0.60
121_D	138_L	1.408	0.59
190_Y	227_S	1.391	0.58
127_F	133_V	1.388	0.58
25_V	42_C	1.386	0.58
171_F	204_V	1.384	0.58
47_T	64_E	1.380	0.58
53_K	69_G	1.376	0.57
33_V	36_G	1.373	0.57
122_C	135_V	1.353	0.56
185_E	200_R	1.329	0.55
122_C	139_L	1.327	0.55
33_V	39_A	1.293	0.53
84_V	112_V	1.287	0.52
206_I	212_I	1.283	0.52
165_V	183_V	1.281	0.52
165_V	204_V	1.265	0.51
193_N	212_I	1.264	0.51
208_P	224_D	1.243	0.50
20_G	36_G	1.226	0.49
140_N	187_D	1.219	0.48
156_Q	182_D	1.191	0.47
44_I	48_G	1.163	0.45
127_F	144_I	1.160	0.45
159_G	200_R	1.157	0.45
157_E	187_D	1.153	0.44
186_G	200_R	1.151	0.44
191_L	210_C	1.147	0.44
129_V	167_R	1.130	0.43
127_F	146_L	1.127	0.43
19_G	36_G	1.124	0.43
148_L	179_L	1.124	0.43
25_V	33_V	1.118	0.42
207_G	210_C	1.100	0.41
212_I	227_S	1.093	0.41
137_G	200_R	1.086	0.41
69_G	84_V	1.074	0.40
139_L	200_R	1.069	0.40
70_D	86_G	1.058	0.39
95_L	112_V	1.043	0.38
96_K	113_K	1.039	0.38
65_S	130_T	1.034	0.38
215_I	221_C	1.033	0.38
36_G	42_C	1.021	0.37
195_E	211_S	1.014	0.37
22_Y	105_M	1.011	0.37
36_G	53_K	1.009	0.36
129_V	142_G	1.008	0.36
25_V	73_A	1.003	0.36
144_I	188_R	0.977	0.35
181_A	213_G	0.974	0.35
48_G	65_S	0.970	0.34
22_Y	39_A	0.966	0.34
19_G	33_V	0.958	0.34
187_D	200_R	0.955	0.34
34_G	51_L	0.949	0.33
39_A	56_T	0.947	0.33
157_E	185_E	0.947	0.33
159_G	185_E	0.946	0.33
106_T	144_I	0.946	0.33
221_C	229_I	0.941	0.33
110_C	124_T	0.941	0.33
33_V	56_T	0.938	0.33
105_M	110_C	0.932	0.32
48_G	78_I	0.927	0.32
53_K	70_D	0.915	0.31
144_I	218_E	0.909	0.31
42_C	59_L	0.905	0.31
28_K	96_K	0.896	0.31
85_S	171_F	0.894	0.30
133_V	153_S	0.888	0.30
64_E	118_V	0.887	0.30
28_K	88_L	0.885	0.30
22_Y	36_G	0.873	0.29
139_L	160_G	0.868	0.29
224_D	227_S	0.867	0.29
100_E	155_V	0.864	0.29
30_E	45_Y	0.862	0.29
140_N	200_R	0.861	0.29
211_S	230_K	0.856	0.29
44_I	165_V	0.848	0.28
135_V	160_G	0.840	0.28
205_I	222_E	0.840	0.28
19_G	42_C	0.837	0.28
61_V	116_L	0.836	0.28
139_L	159_G	0.835	0.28
30_E	47_T	0.814	0.27
54_A	118_V	0.814	0.27
70_D	221_C	0.807	0.26
121_D	155_V	0.805	0.26
108_E	192_E	0.804	0.26
56_T	73_A	0.804	0.26
23_H	40_V	0.802	0.26
138_L	187_D	0.802	0.26
21_A	38_S	0.802	0.26
62_L	113_K	0.800	0.26
198_V	214_T	0.789	0.26
208_P	226_H	0.787	0.25
193_N	208_P	0.786	0.25
155_V	181_A	0.785	0.25
122_C	160_G	0.784	0.25
74_G	104_N	0.773	0.25
201_G	207_G	0.770	0.25
121_D	142_G	0.762	0.24
118_V	156_Q	0.760	0.24
196_A	221_C	0.760	0.24
141_S	144_I	0.758	0.24
127_F	141_S	0.755	0.24
112_V	146_L	0.752	0.24
19_G	204_V	0.743	0.24
157_E	182_D	0.741	0.23
155_V	160_G	0.741	0.23
76_I	234_K	0.741	0.23
20_G	33_V	0.734	0.23
27_I	167_R	0.730	0.23
123_E	159_G	0.726	0.23
140_N	185_E	0.725	0.23
163_I	186_G	0.723	0.23
130_T	171_F	0.720	0.23
30_E	79_Y	0.716	0.22
32_I	168_R	0.715	0.22
34_G	37_L	0.713	0.22
130_T	204_V	0.711	0.22
167_R	189_V	0.711	0.22
121_D	200_R	0.710	0.22
30_E	81_T	0.710	0.22
45_Y	64_E	0.708	0.22
25_V	194_T	0.708	0.22
199_V	212_I	0.706	0.22
208_P	212_I	0.703	0.22
72_T	228_Q	0.702	0.22
87_S	120_G	0.697	0.22
133_V	179_L	0.697	0.22
125_E	216_E	0.696	0.22
213_G	234_K	0.694	0.22
205_I	224_D	0.694	0.22
140_N	163_I	0.693	0.21
108_E	222_E	0.691	0.21
31_G	42_C	0.691	0.21
154_H	180_I	0.689	0.21
191_L	196_A	0.689	0.21
157_E	216_E	0.685	0.21
65_S	99_T	0.682	0.21
59_L	70_D	0.680	0.21
116_L	180_I	0.675	0.21
120_G	165_V	0.672	0.21
69_G	163_I	0.669	0.21
219_Y	234_K	0.666	0.20
63_G	97_G	0.666	0.20
122_C	196_A	0.662	0.20
165_V	191_L	0.662	0.20
35_E	51_L	0.657	0.20
31_G	163_I	0.654	0.20
186_G	201_G	0.651	0.20
187_D	198_V	0.648	0.20
187_D	216_E	0.647	0.20
67_C	85_S	0.646	0.20
25_V	52_G	0.644	0.20
22_Y	35_E	0.640	0.19
215_I	227_S	0.637	0.19
137_G	187_D	0.637	0.19
30_E	62_L	0.636	0.19
154_H	230_K	0.635	0.19
73_A	116_L	0.625	0.19
84_V	226_H	0.625	0.19
53_K	93_F	0.624	0.19
156_Q	229_I	0.621	0.19
99_T	177_G	0.621	0.19
23_H	165_V	0.620	0.19
201_G	206_I	0.620	0.19
46_G	97_G	0.620	0.19
122_C	173_S	0.617	0.19
76_I	90_F	0.616	0.19
107_G	158_I	0.611	0.18
22_Y	33_V	0.611	0.18
71_L	88_L	0.609	0.18
125_E	200_R	0.605	0.18
92_R	109_S	0.601	0.18
223_C	232_K	0.599	0.18
22_Y	42_C	0.598	0.18
221_C	224_D	0.597	0.18
52_G	103_G	0.596	0.18
82_M	88_L	0.595	0.18
78_I	161_T	0.593	0.18
142_G	187_D	0.588	0.18
55_E	72_T	0.587	0.18
101_I	146_L	0.587	0.18
20_G	199_V	0.586	0.18
162_T	188_R	0.581	0.17
47_T	98_Q	0.581	0.17
92_R	204_V	0.581	0.17
167_R	193_N	0.578	0.17
189_V	204_V	0.577	0.17
67_C	177_G	0.574	0.17
53_K	67_C	0.573	0.17
66_E	81_T	0.572	0.17
199_V	206_I	0.571	0.17
185_E	216_E	0.568	0.17
90_F	94_N	0.567	0.17
27_I	35_E	0.566	0.17
220_K	225_P	0.566	0.17
79_Y	153_S	0.565	0.17
200_R	214_T	0.563	0.17
59_L	108_E	0.562	0.17
126_M	143_E	0.562	0.17
47_T	84_V	0.562	0.17
93_F	219_Y	0.560	0.17
93_F	172_F	0.560	0.17
87_S	136_S	0.560	0.17
68_K	180_I	0.559	0.17
40_V	221_C	0.559	0.17
103_G	123_E	0.558	0.17
134_D	147_G	0.555	0.17
110_C	119_I	0.550	0.16
207_G	212_I	0.550	0.16
160_G	186_G	0.550	0.16
38_S	76_I	0.550	0.16
89_Q	145_K	0.549	0.16
76_I	230_K	0.549	0.16
27_I	99_T	0.548	0.16
81_T	113_K	0.547	0.16
123_E	140_N	0.545	0.16
221_C	228_Q	0.544	0.16
97_G	131_G	0.544	0.16
58_R	68_K	0.542	0.16
79_Y	113_K	0.541	0.16
104_N	120_G	0.541	0.16
49_L	161_T	0.540	0.16
93_F	99_T	0.540	0.16
80_G	114_G	0.537	0.16
25_V	36_G	0.537	0.16
71_L	226_H	0.536	0.16
85_S	116_L	0.535	0.16
87_S	118_V	0.535	0.16
101_I	205_I	0.535	0.16
122_C	129_V	0.531	0.16
153_S	219_Y	0.531	0.16
142_G	176_K	0.530	0.16
114_G	131_G	0.530	0.16
33_V	37_L	0.530	0.16
37_L	171_F	0.530	0.16
47_T	62_L	0.528	0.16
196_A	227_S	0.527	0.16
141_S	194_T	0.526	0.16
144_I	158_I	0.526	0.16
94_N	155_V	0.518	0.15
90_F	93_F	0.516	0.15
57_E	86_G	0.516	0.15
140_N	198_V	0.514	0.15
193_N	209_G	0.510	0.15
135_V	161_T	0.510	0.15
67_C	209_G	0.509	0.15
59_L	134_D	0.508	0.15
148_L	153_S	0.507	0.15
124_T	183_V	0.507	0.15
78_I	99_T	0.507	0.15
129_V	153_S	0.506	0.15
179_L	194_T	0.506	0.15
33_V	44_I	0.506	0.15
194_T	217_Y	0.505	0.15
35_E	213_G	0.504	0.15
66_E	75_K	0.503	0.15
155_V	158_I	0.503	0.15
127_F	153_S	0.503	0.15
139_L	186_G	0.503	0.15
77_N	181_A	0.500	0.15

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
3lycA	2	0.6638	94.8	0.908	Contact Map
3jx8A	4	0.6383	93.8	0.912	Contact Map
3petA	2	0.5915	93.6	0.913	Contact Map
4opwA	1	0.6383	91.8	0.918	Contact Map
4yguA	3	0.4553	88.7	0.923	Contact Map
5afuV	1	0.4043	37.1	0.948	Contact Map
1xatA	3	0.3787	36	0.949	Contact Map
4eqyA	3	0.2979	22.9	0.953	Contact Map
2pigA	1	0.6638	22.6	0.953	Contact Map
2wlgA	3	0.3404	20.5	0.954	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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