YKGA - BACSU - GREMLIN Contacts

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YKGA - Uncharacterized protein YkgA

UniProt:	O34497	Sequences: MDVSIPKSQHKTVCRTEYGTLQKVILCKPEHMTIKDVINETQKHFEDDNIHVKTANDQHSRLVEALRSHNVEVVLLPVRDGLPEQVFTRDIGFVIGEKAFLSSMTEPIRQGEEAVIKDFFHSQGISYTRMLDTSIEGGDVIIDDDIVYVGISQRTDISAIGQLEEALPEYTIVPVKLHEKFLHLDCVFNIISESEALIYSQAIEPDAADMLAKRYDLIEVPEDEQFTLGTNVLSIGKKTIISLPGNRHVNQQLSKRGYHIIEIDLSEIIKSGGSFRCCTMPLIRGE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	286 (263)
Sequences:	3112 (1985)
Seq/√Len:	122.4

BACSU - YKGA
SULSO - Q97TX4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
64_E	68_S	4.110	1.00
28_K	60_S	3.561	1.00
145_D	170_Y	3.506	1.00
23_K	72_E	3.135	1.00
250_N	254_S	3.099	1.00
54_T	57_D	2.949	1.00
267_E	270_K	2.907	1.00
26_L	63_V	2.851	1.00
251_Q	255_K	2.682	1.00
117_K	121_H	2.613	1.00
254_S	262_E	2.571	1.00
251_Q	254_S	2.521	1.00
64_E	67_R	2.447	1.00
233_L	279_T	2.437	1.00
65_A	263_I	2.435	1.00
25_I	282_L	2.416	1.00
58_Q	266_S	2.412	1.00
216_D	256_R	2.396	1.00
149_V	163_L	2.369	1.00
157_I	161_G	2.289	1.00
239_T	261_I	2.243	1.00
63_V	67_R	2.226	1.00
61_R	64_E	2.125	1.00
87_F	271_S	2.085	1.00
239_T	259_H	2.079	1.00
109_R	112_E	2.006	1.00
244_P	262_E	2.005	1.00
192_S	195_E	1.966	1.00
23_K	74_V	1.954	1.00
92_G	280_M	1.887	1.00
252_Q	256_R	1.871	1.00
191_I	258_Y	1.843	1.00
146_I	173_V	1.801	1.00
139_D	155_T	1.794	1.00
63_V	75_L	1.789	1.00
56_N	60_S	1.788	1.00
149_V	155_T	1.775	1.00
62_L	279_T	1.769	1.00
244_P	264_D	1.764	1.00
252_Q	255_K	1.747	1.00
61_R	264_D	1.705	1.00
92_G	120_F	1.675	1.00
69_H	259_H	1.660	1.00
100_F	167_L	1.647	1.00
248_H	252_Q	1.643	1.00
195_E	258_Y	1.638	1.00
250_N	262_E	1.615	1.00
208_A	212_A	1.593	1.00
52_V	56_N	1.538	1.00
82_L	111_G	1.529	1.00
89_R	185_D	1.512	1.00
22_Q	283_I	1.500	1.00
88_T	116_I	1.498	1.00
265_L	278_C	1.497	1.00
60_S	64_E	1.486	1.00
146_I	171_T	1.481	1.00
209_D	212_A	1.469	1.00
54_T	266_S	1.462	1.00
57_D	61_R	1.456	1.00
100_F	163_L	1.456	1.00
51_H	54_T	1.438	1.00
65_A	261_I	1.432	1.00
67_R	72_E	1.408	1.00
243_L	246_N	1.400	1.00
188_F	196_A	1.394	1.00
200_S	219_E	1.378	1.00
117_K	129_R	1.377	1.00
265_L	275_F	1.375	1.00
119_F	123_Q	1.367	1.00
24_V	279_T	1.367	1.00
65_A	69_H	1.358	1.00
126_S	131_L	1.348	1.00
99_A	120_F	1.341	1.00
238_K	259_H	1.339	1.00
54_T	264_D	1.323	1.00
93_F	102_S	1.318	1.00
231_N	277_C	1.316	1.00
239_T	242_S	1.316	1.00
151_I	160_I	1.314	1.00
62_L	241_I	1.314	1.00
133_T	159_A	1.309	1.00
23_K	283_I	1.302	1.00
70_N	73_V	1.277	1.00
149_V	160_I	1.273	1.00
69_H	239_T	1.271	1.00
160_I	174_P	1.269	1.00
248_H	251_Q	1.266	1.00
163_L	167_L	1.265	1.00
151_I	157_I	1.263	1.00
158_S	161_G	1.263	1.00
240_I	260_I	1.251	0.99
61_R	65_A	1.232	0.99
26_L	279_T	1.228	0.99
101_L	113_E	1.202	0.99
103_S	110_Q	1.190	0.99
69_H	261_I	1.189	0.99
156_D	159_A	1.183	0.99
107_P	110_Q	1.177	0.99
127_Y	130_M	1.174	0.99
151_I	176_K	1.173	0.99
209_D	256_R	1.172	0.99
221_P	248_H	1.168	0.99
164_E	174_P	1.168	0.99
54_T	58_Q	1.138	0.99
94_V	280_M	1.138	0.99
198_I	217_L	1.131	0.99
133_T	162_Q	1.124	0.99
209_D	213_K	1.123	0.99
189_N	232_V	1.122	0.99
268_I	278_C	1.117	0.99
98_K	126_S	1.110	0.99
236_G	239_T	1.106	0.99
58_Q	264_D	1.099	0.99
134_S	156_D	1.098	0.99
249_V	253_L	1.097	0.99
143_D	146_I	1.095	0.99
161_G	165_E	1.093	0.99
68_S	261_I	1.091	0.99
69_H	235_I	1.084	0.99
21_L	24_V	1.081	0.99
89_R	276_R	1.077	0.98
58_Q	267_E	1.077	0.98
26_L	66_L	1.062	0.98
66_L	235_I	1.057	0.98
183_H	277_C	1.048	0.98
118_D	122_S	1.047	0.98
220_V	230_T	1.045	0.98
38_I	41_T	1.044	0.98
93_F	100_F	1.032	0.98
126_S	130_M	1.031	0.98
161_G	164_E	1.028	0.98
176_K	207_A	1.017	0.98
167_L	172_I	1.010	0.98
93_F	140_V	1.008	0.98
132_D	162_Q	1.003	0.98
143_D	148_Y	0.999	0.98
71_V	235_I	0.994	0.97
254_S	260_I	0.988	0.97
61_R	68_S	0.983	0.97
273_G	277_C	0.975	0.97
268_I	271_S	0.969	0.97
84_E	154_R	0.957	0.97
249_V	254_S	0.956	0.97
237_K	259_H	0.954	0.97
27_C	32_M	0.953	0.97
191_I	253_L	0.953	0.97
125_I	131_L	0.952	0.97
208_A	211_L	0.947	0.97
126_S	129_R	0.942	0.96
191_I	195_E	0.941	0.96
195_E	216_D	0.937	0.96
53_K	57_D	0.936	0.96
201_Q	222_E	0.936	0.96
233_L	276_R	0.930	0.96
234_S	237_K	0.928	0.96
151_I	174_P	0.925	0.96
66_L	233_L	0.924	0.96
98_K	166_A	0.923	0.96
197_L	232_V	0.920	0.96
136_E	186_C	0.919	0.96
67_R	75_L	0.914	0.96
66_L	71_V	0.912	0.96
86_V	278_C	0.912	0.96
97_E	126_S	0.903	0.95
125_I	130_M	0.903	0.95
164_E	172_I	0.902	0.95
133_T	156_D	0.898	0.95
183_H	231_N	0.893	0.95
62_L	263_I	0.890	0.95
23_K	282_L	0.889	0.95
26_L	75_L	0.885	0.95
100_F	166_A	0.884	0.95
194_S	215_Y	0.879	0.95
186_C	228_L	0.876	0.95
90_D	182_L	0.876	0.95
242_S	262_E	0.873	0.95
191_I	240_I	0.872	0.95
160_I	164_E	0.872	0.95
93_F	135_I	0.872	0.95
249_V	256_R	0.869	0.94
59_H	278_C	0.868	0.94
218_I	252_Q	0.866	0.94
224_E	249_V	0.855	0.94
43_K	47_D	0.854	0.94
36_D	39_N	0.852	0.94
135_I	140_V	0.851	0.94
136_E	183_H	0.849	0.94
162_Q	166_A	0.848	0.94
117_K	127_Y	0.844	0.94
150_G	177_L	0.843	0.94
30_E	77_P	0.843	0.94
190_I	215_Y	0.843	0.94
91_I	116_I	0.843	0.94
64_E	255_K	0.838	0.93
105_T	156_D	0.834	0.93
128_T	131_L	0.833	0.93
20_T	236_G	0.825	0.93
142_I	147_V	0.825	0.93
133_T	158_S	0.821	0.93
182_L	186_C	0.820	0.93
244_P	247_R	0.810	0.92
84_E	182_L	0.808	0.92
87_F	154_R	0.806	0.92
127_Y	131_L	0.802	0.92
67_R	73_V	0.800	0.92
91_I	102_S	0.799	0.92
26_L	73_V	0.797	0.91
135_I	163_L	0.796	0.91
27_C	33_T	0.794	0.91
198_I	203_I	0.793	0.91
28_K	56_N	0.789	0.91
195_E	256_R	0.789	0.91
138_G	154_R	0.787	0.91
239_T	260_I	0.784	0.91
224_E	248_H	0.782	0.91
39_N	42_Q	0.781	0.91
186_C	274_S	0.774	0.90
84_E	87_F	0.770	0.90
116_I	120_F	0.767	0.90
34_I	39_N	0.767	0.90
154_R	182_L	0.765	0.90
186_C	276_R	0.762	0.90
92_G	99_A	0.760	0.89
33_T	36_D	0.758	0.89
74_V	282_L	0.755	0.89
94_V	282_L	0.755	0.89
265_L	269_I	0.754	0.89
242_S	250_N	0.750	0.89
28_K	77_P	0.750	0.89
101_L	117_K	0.750	0.89
94_V	99_A	0.736	0.88
95_I	98_K	0.734	0.88
143_D	190_I	0.721	0.87
32_M	84_E	0.721	0.87
247_R	262_E	0.717	0.87
151_I	155_T	0.705	0.86
147_V	170_Y	0.704	0.86
223_D	248_H	0.700	0.85
30_E	56_N	0.699	0.85
185_D	276_R	0.699	0.85
37_V	40_E	0.697	0.85
89_R	281_P	0.697	0.85
241_I	275_F	0.695	0.85
164_E	171_T	0.693	0.85
157_I	165_E	0.693	0.85
147_V	172_I	0.692	0.85
57_D	60_S	0.691	0.84
60_S	67_R	0.691	0.84
196_A	217_L	0.689	0.84
93_F	163_L	0.688	0.84
157_I	174_P	0.686	0.84
138_G	277_C	0.685	0.84
65_A	240_I	0.682	0.84
218_I	256_R	0.682	0.84
37_V	44_H	0.679	0.83
92_G	116_I	0.677	0.83
65_A	68_S	0.677	0.83
150_G	155_T	0.675	0.83
87_F	138_G	0.673	0.83
210_M	213_K	0.673	0.83
139_D	184_L	0.671	0.83
229_G	246_N	0.669	0.83
144_D	193_E	0.668	0.82
28_K	75_L	0.667	0.82
192_S	234_S	0.660	0.82
91_I	104_M	0.656	0.81
222_E	226_F	0.656	0.81
144_D	170_Y	0.654	0.81
102_S	135_I	0.653	0.81
135_I	138_G	0.652	0.81
59_H	63_V	0.650	0.81
101_L	131_L	0.647	0.80
186_C	272_G	0.646	0.80
43_K	80_D	0.643	0.80
228_L	269_I	0.641	0.80
125_I	129_R	0.641	0.80
154_R	273_G	0.631	0.79
223_D	226_F	0.630	0.79
54_T	267_E	0.630	0.79
183_H	186_C	0.629	0.78
120_F	280_M	0.628	0.78
48_D	270_K	0.627	0.78
145_D	171_T	0.626	0.78
95_I	142_I	0.626	0.78
112_E	154_R	0.624	0.78
186_C	278_C	0.622	0.78
198_I	207_A	0.618	0.77
88_T	91_I	0.618	0.77
220_V	229_G	0.617	0.77
160_I	172_I	0.615	0.77
118_D	121_H	0.613	0.77
239_T	243_L	0.610	0.76
241_I	265_L	0.609	0.76
121_H	125_I	0.609	0.76
137_G	150_G	0.607	0.76
248_H	254_S	0.607	0.76
36_D	40_E	0.605	0.76
50_I	270_K	0.605	0.76
29_P	154_R	0.603	0.76
125_I	128_T	0.600	0.75
49_N	57_D	0.596	0.75
185_D	279_T	0.594	0.74
62_L	265_L	0.592	0.74
146_I	215_Y	0.591	0.74
53_K	56_N	0.590	0.74
150_G	184_L	0.589	0.74
89_R	279_T	0.589	0.74
191_I	194_S	0.588	0.74
154_R	183_H	0.587	0.74
98_K	128_T	0.587	0.74
142_I	170_Y	0.585	0.73
85_Q	115_V	0.585	0.73
59_H	75_L	0.584	0.73
20_T	126_S	0.584	0.73
62_L	275_F	0.583	0.73
27_C	58_Q	0.579	0.73
269_I	274_S	0.578	0.72
106_E	155_T	0.577	0.72
68_S	264_D	0.575	0.72
138_G	281_P	0.575	0.72
146_I	214_R	0.574	0.72
78_V	155_T	0.571	0.72
89_R	272_G	0.571	0.72
24_V	73_V	0.567	0.71
154_R	277_C	0.567	0.71
148_Y	175_V	0.565	0.71
137_G	154_R	0.563	0.71
99_A	158_S	0.563	0.71
200_S	211_L	0.561	0.70
80_D	111_G	0.560	0.70
60_S	75_L	0.560	0.70
197_L	211_L	0.560	0.70
53_K	255_K	0.559	0.70
138_G	182_L	0.556	0.70
143_D	215_Y	0.554	0.69
25_I	119_F	0.553	0.69
177_L	276_R	0.552	0.69
158_S	259_H	0.551	0.69
209_D	255_K	0.550	0.69
154_R	271_S	0.549	0.69
221_P	224_E	0.549	0.69
243_L	265_L	0.546	0.68
79_R	115_V	0.543	0.68
100_F	140_V	0.542	0.68
173_V	210_M	0.541	0.67
67_R	70_N	0.539	0.67
104_M	113_E	0.537	0.67
129_R	132_D	0.536	0.67
33_T	52_V	0.535	0.67
24_V	71_V	0.532	0.66
130_M	162_Q	0.530	0.66
37_V	42_Q	0.529	0.66
221_P	247_R	0.529	0.66
198_I	201_Q	0.528	0.66
231_N	273_G	0.528	0.66
205_P	209_D	0.528	0.66
188_F	198_I	0.528	0.66
152_S	177_L	0.527	0.65
90_D	149_V	0.525	0.65
276_R	281_P	0.524	0.65
247_R	251_Q	0.524	0.65
50_I	267_E	0.523	0.65
64_E	69_H	0.523	0.65
138_G	183_H	0.523	0.65
34_I	38_I	0.522	0.65
83_P	278_C	0.521	0.65
182_L	228_L	0.518	0.64
24_V	233_L	0.517	0.64
104_M	276_R	0.517	0.64
140_V	163_L	0.516	0.64
198_I	202_A	0.514	0.64
57_D	77_P	0.513	0.63
106_E	153_Q	0.513	0.63
74_V	77_P	0.511	0.63
102_S	186_C	0.510	0.63
181_F	187_V	0.510	0.63
240_I	243_L	0.510	0.63
38_I	42_Q	0.509	0.63
195_E	209_D	0.509	0.63
232_V	242_S	0.507	0.63
182_L	272_G	0.506	0.62
102_S	113_E	0.504	0.62
233_L	281_P	0.504	0.62
39_N	218_I	0.504	0.62
48_D	53_K	0.503	0.62
35_K	38_I	0.503	0.62
84_E	89_R	0.503	0.62
58_Q	274_S	0.502	0.62
154_R	231_N	0.502	0.62
272_G	276_R	0.502	0.62
229_G	245_G	0.502	0.62
76_L	116_I	0.502	0.62
157_I	176_K	0.500	0.61
110_Q	114_A	0.500	0.61

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
2a9gA	3	0.9685	100	0.21	Contact Map
4e4jA	4	0.965	100	0.216	Contact Map
1bwdA	1	0.965	100	0.219	Contact Map
1s9rA	2	0.993	100	0.223	Contact Map
4bofA	4	0.9825	100	0.226	Contact Map
1jdwA	2	0.965	100	0.258	Contact Map
3i4aA	1	0.9126	100	0.29	Contact Map
2ci1A	1	0.9056	100	0.298	Contact Map
1h70A	1	0.8741	100	0.298	Contact Map
2ewoA	4	0.9755	100	0.563	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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