YYAK - BACSU - GREMLIN Contacts

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YYAK - Uncharacterized protein YyaK

UniProt:	P37513	Sequences: MNSFIRPIEGNNTLWRYFFAFLVMVGLYVLGNIAYLFAILFTVIVNPNITFDLDEAVLSDPLVDLYLSHVIYLFAIPGVWLAVRFILKRPFRTVITPNSKMNWRRISFGFIAYFLLMIAVQLIDFVIHPDSYSMQEFNASRFIWLLAAALILVPIQTSAEELFFRGFLLQAFGRLTKNPLFLTLIVGGLFGVLHFANPEMNNGAVWAGIEYLTFGFVWTYYTIKTGSIEISLGAHAANNMFLCMFITEKNSVYGGIPSLFTVTRGNPMWEAFFTIAVNLVFAGIALWYHKKSKSKQQGS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	299 (252)
Sequences:	3574 (3128)
Seq/√Len:	197.0

BACSU - YYAK YDIL YPBD
HALSA - Q9HS87 Q9HMZ0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
191_G	212_L	5.377	1.00
183_T	219_T	4.850	1.00
222_T	231_S	4.335	1.00
157_T	236_A	4.020	1.00
169_L	223_I	3.683	1.00
188_G	212_L	3.406	1.00
221_Y	234_A	3.203	1.00
191_G	211_Y	3.198	1.00
183_T	223_I	3.119	1.00
214_F	218_W	3.023	1.00
191_G	215_G	2.954	1.00
207_A	211_Y	2.898	1.00
238_N	242_L	2.844	1.00
187_G	212_L	2.697	1.00
187_G	216_F	2.461	1.00
228_I	232_L	2.443	1.00
227_S	230_I	2.426	1.00
164_F	193_L	2.323	1.00
169_L	219_T	2.294	1.00
158_S	232_L	2.290	1.00
111_I	115_L	2.258	1.00
186_V	219_T	2.255	1.00
153_V	240_M	2.202	1.00
187_G	219_T	2.178	1.00
173_G	223_I	2.077	1.00
183_T	216_F	2.044	1.00
282_A	286_L	2.042	1.00
81_L	85_F	2.007	1.00
157_T	239_N	1.962	1.00
179_P	183_T	1.941	1.00
222_T	225_T	1.925	1.00
153_V	156_Q	1.909	1.00
107_S	111_I	1.907	1.00
181_F	185_I	1.883	1.00
196_A	207_A	1.872	1.00
236_A	240_M	1.868	1.00
232_L	236_A	1.823	1.00
122_L	126_V	1.809	1.00
170_Q	173_G	1.781	1.00
220_Y	224_K	1.748	1.00
207_A	210_E	1.741	1.00
177_K	181_F	1.741	1.00
154_P	236_A	1.738	1.00
156_Q	236_A	1.723	1.00
169_L	182_L	1.705	1.00
153_V	157_T	1.692	1.00
80_W	84_R	1.665	1.00
221_Y	230_I	1.603	1.00
172_F	185_I	1.556	1.00
221_Y	231_S	1.553	1.00
179_P	223_I	1.543	1.00
216_F	219_T	1.535	1.00
218_W	234_A	1.530	1.00
164_F	190_F	1.522	1.00
180_L	184_L	1.494	1.00
166_G	227_S	1.487	1.00
169_L	186_V	1.481	1.00
166_G	228_I	1.479	1.00
233_G	237_A	1.464	1.00
229_E	232_L	1.422	1.00
191_G	208_G	1.409	1.00
194_H	239_N	1.402	1.00
104_R	108_F	1.394	1.00
283_G	286_L	1.385	1.00
194_H	235_H	1.384	1.00
82_A	86_I	1.377	1.00
170_Q	222_T	1.318	1.00
227_S	231_S	1.293	1.00
170_Q	174_R	1.283	1.00
169_L	173_G	1.278	1.00
222_T	227_S	1.265	1.00
173_G	182_L	1.262	1.00
182_L	186_V	1.255	1.00
265_G	268_M	1.245	1.00
206_W	210_E	1.225	1.00
211_Y	215_G	1.196	1.00
176_T	181_F	1.190	1.00
22_L	26_G	1.184	1.00
154_P	229_E	1.183	1.00
173_G	226_G	1.179	1.00
204_A	207_A	1.174	1.00
196_A	211_Y	1.168	1.00
273_F	277_V	1.163	1.00
156_Q	239_N	1.163	1.00
277_V	280_V	1.156	1.00
187_G	191_G	1.152	1.00
76_I	162_L	1.146	1.00
168_L	186_V	1.141	1.00
128_H	131_S	1.140	1.00
219_T	223_I	1.130	1.00
28_Y	32_N	1.125	1.00
169_L	222_T	1.123	1.00
210_E	238_N	1.119	1.00
215_G	219_T	1.104	1.00
113_Y	237_A	1.099	1.00
210_E	242_L	1.099	1.00
30_L	33_I	1.095	1.00
164_F	189_L	1.092	1.00
20_A	24_M	1.075	1.00
79_V	82_A	1.072	1.00
222_T	230_I	1.069	1.00
24_M	28_Y	1.069	1.00
162_L	232_L	1.053	1.00
210_E	213_T	1.050	1.00
100_K	104_R	1.045	1.00
152_L	156_Q	1.039	1.00
176_T	185_I	1.037	1.00
279_L	283_G	1.020	1.00
270_E	273_F	1.019	1.00
184_L	216_F	1.018	1.00
118_I	246_I	1.015	1.00
190_F	194_H	1.014	1.00
154_P	157_T	1.006	1.00
159_A	163_F	0.999	1.00
110_F	114_F	0.998	1.00
206_W	209_I	0.993	1.00
209_I	213_T	0.993	1.00
76_I	80_W	0.990	1.00
74_F	77_P	0.987	1.00
142_F	146_L	0.985	1.00
166_G	222_T	0.973	0.99
156_Q	232_L	0.973	0.99
208_G	211_Y	0.970	0.99
190_F	211_Y	0.969	0.99
80_W	83_V	0.966	0.99
89_R	93_T	0.965	0.99
222_T	226_G	0.957	0.99
84_R	87_L	0.957	0.99
24_M	27_L	0.938	0.99
216_F	220_Y	0.932	0.99
113_Y	117_M	0.929	0.99
65_L	68_S	0.928	0.99
179_P	182_L	0.927	0.99
267_P	270_E	0.927	0.99
160_E	194_H	0.923	0.99
262_V	270_E	0.923	0.99
274_T	278_N	0.898	0.99
207_A	242_L	0.898	0.99
172_F	176_T	0.890	0.99
17_Y	23_V	0.888	0.99
186_V	215_G	0.885	0.99
155_I	239_N	0.879	0.99
187_G	215_G	0.872	0.99
79_V	83_V	0.870	0.99
280_V	284_I	0.868	0.99
147_A	151_I	0.867	0.99
90_P	93_T	0.863	0.99
157_T	196_A	0.853	0.99
164_F	168_L	0.849	0.99
17_Y	20_A	0.847	0.99
271_A	274_T	0.847	0.99
18_F	22_L	0.846	0.99
156_Q	159_A	0.844	0.98
174_R	182_L	0.839	0.98
76_I	79_V	0.838	0.98
18_F	21_F	0.837	0.98
229_E	233_G	0.837	0.98
166_G	169_L	0.835	0.98
218_W	231_S	0.834	0.98
109_G	233_G	0.834	0.98
281_F	285_A	0.823	0.98
167_F	171_A	0.821	0.98
157_T	232_L	0.820	0.98
37_F	41_F	0.818	0.98
171_A	222_T	0.817	0.98
131_S	134_M	0.813	0.98
155_I	159_A	0.813	0.98
272_F	276_A	0.810	0.98
80_W	85_F	0.810	0.98
129_P	133_S	0.809	0.98
58_L	62_L	0.809	0.98
263_T	270_E	0.808	0.98
105_R	227_S	0.805	0.98
182_L	219_T	0.805	0.98
177_K	182_L	0.804	0.98
180_L	220_Y	0.804	0.98
112_A	116_L	0.803	0.98
75_A	78_G	0.796	0.98
71_I	75_A	0.794	0.98
190_F	193_L	0.792	0.98
281_F	284_I	0.791	0.98
180_L	183_T	0.790	0.98
208_G	212_L	0.788	0.98
81_L	84_R	0.787	0.98
37_F	40_L	0.787	0.98
72_Y	76_I	0.784	0.98
20_A	23_V	0.782	0.98
176_T	182_L	0.782	0.98
92_R	95_I	0.778	0.97
85_F	89_R	0.770	0.97
165_R	190_F	0.770	0.97
105_R	225_T	0.764	0.97
79_V	84_R	0.763	0.97
263_T	268_M	0.763	0.97
25_V	29_V	0.762	0.97
23_V	30_L	0.757	0.97
276_A	279_L	0.756	0.97
260_F	268_M	0.755	0.97
158_S	229_E	0.753	0.97
160_E	235_H	0.753	0.97
277_V	281_F	0.752	0.97
206_W	213_T	0.748	0.97
276_A	280_V	0.745	0.97
27_L	31_G	0.744	0.97
103_W	107_S	0.744	0.97
118_I	122_L	0.742	0.97
187_G	193_L	0.738	0.96
60_D	63_V	0.736	0.96
157_T	204_A	0.735	0.96
44_I	81_L	0.732	0.96
190_F	235_H	0.731	0.96
211_Y	238_N	0.727	0.96
263_T	266_N	0.723	0.96
261_T	266_N	0.723	0.96
129_P	132_Y	0.720	0.96
171_A	174_R	0.719	0.96
218_W	222_T	0.719	0.96
275_I	282_A	0.712	0.96
72_Y	159_A	0.710	0.96
268_M	272_F	0.705	0.95
266_N	270_E	0.697	0.95
225_T	230_I	0.697	0.95
212_L	219_T	0.696	0.95
19_F	22_L	0.693	0.95
166_G	170_Q	0.692	0.95
233_G	239_N	0.691	0.95
149_A	243_C	0.687	0.95
31_G	35_Y	0.686	0.95
153_V	243_C	0.683	0.95
27_L	33_I	0.679	0.94
133_S	205_V	0.676	0.94
87_L	167_F	0.674	0.94
226_G	231_S	0.674	0.94
109_G	238_N	0.671	0.94
195_F	208_G	0.671	0.94
105_R	113_Y	0.671	0.94
259_L	262_V	0.667	0.94
261_T	265_G	0.666	0.94
32_N	39_I	0.666	0.94
42_T	46_N	0.666	0.94
92_R	97_P	0.661	0.94
146_L	150_L	0.660	0.94
158_S	236_A	0.656	0.93
184_L	187_G	0.655	0.93
223_I	227_S	0.655	0.93
163_F	190_F	0.649	0.93
101_M	104_R	0.648	0.93
114_F	118_I	0.648	0.93
180_L	216_F	0.645	0.93
26_G	29_V	0.643	0.93
117_M	120_V	0.642	0.93
274_T	277_V	0.638	0.92
183_T	220_Y	0.637	0.92
66_Y	70_V	0.635	0.92
181_F	184_L	0.634	0.92
186_V	222_T	0.634	0.92
164_F	207_A	0.633	0.92
237_A	242_L	0.633	0.92
278_N	281_F	0.632	0.92
193_L	243_C	0.629	0.92
38_A	59_S	0.628	0.92
61_P	65_L	0.625	0.92
243_C	250_N	0.625	0.92
59_S	62_L	0.623	0.91
21_F	28_Y	0.622	0.91
141_R	145_L	0.621	0.91
107_S	205_V	0.620	0.91
224_K	230_I	0.620	0.91
102_N	227_S	0.620	0.91
260_F	270_E	0.620	0.91
163_F	211_Y	0.619	0.91
109_G	113_Y	0.615	0.91
70_V	73_L	0.614	0.91
68_S	71_I	0.614	0.91
128_H	271_A	0.614	0.91
148_A	152_L	0.612	0.91
154_P	158_S	0.610	0.91
279_L	282_A	0.606	0.90
139_A	148_A	0.604	0.90
33_I	37_F	0.604	0.90
82_A	167_F	0.603	0.90
204_A	211_Y	0.603	0.90
18_F	26_G	0.600	0.90
277_V	285_A	0.598	0.90
238_N	241_F	0.598	0.90
262_V	271_A	0.596	0.90
190_F	239_N	0.595	0.89
240_M	244_M	0.594	0.89
17_Y	28_Y	0.591	0.89
220_Y	230_I	0.589	0.89
115_L	118_I	0.588	0.89
192_V	208_G	0.586	0.89
33_I	36_L	0.586	0.89
95_I	162_L	0.583	0.89
108_F	115_L	0.583	0.89
259_L	263_T	0.582	0.88
192_V	195_F	0.582	0.88
111_I	118_I	0.582	0.88
196_A	220_Y	0.580	0.88
271_A	280_V	0.580	0.88
208_G	213_T	0.578	0.88
116_L	234_A	0.578	0.88
72_Y	79_V	0.577	0.88
245_F	248_E	0.577	0.88
38_A	42_T	0.576	0.88
175_L	178_N	0.575	0.88
145_L	244_M	0.574	0.88
160_E	215_G	0.573	0.88
92_R	96_T	0.572	0.88
153_V	242_L	0.569	0.87
280_V	283_G	0.567	0.87
153_V	164_F	0.567	0.87
36_L	40_L	0.567	0.87
151_I	228_I	0.566	0.87
220_Y	281_F	0.565	0.87
259_L	271_A	0.565	0.87
156_Q	222_T	0.564	0.87
146_L	244_M	0.559	0.86
42_T	48_N	0.556	0.86
72_Y	77_P	0.554	0.86
79_V	159_A	0.552	0.86
275_I	278_N	0.551	0.86
234_A	240_M	0.549	0.85
260_F	263_T	0.549	0.85
169_L	183_T	0.548	0.85
234_A	237_A	0.547	0.85
262_V	266_N	0.546	0.85
172_F	177_K	0.546	0.85
116_L	120_V	0.545	0.85
275_I	279_L	0.545	0.85
153_V	236_A	0.542	0.85
266_N	269_W	0.540	0.84
271_A	277_V	0.538	0.84
75_A	79_V	0.538	0.84
164_F	187_G	0.537	0.84
279_L	285_A	0.537	0.84
104_R	184_L	0.536	0.84
19_F	23_V	0.535	0.84
139_A	146_L	0.535	0.84
60_D	64_D	0.534	0.84
149_A	240_M	0.534	0.84
64_D	67_L	0.533	0.84
76_I	83_V	0.532	0.84
78_G	237_A	0.532	0.84
73_L	206_W	0.531	0.83
71_I	78_G	0.530	0.83
211_Y	239_N	0.526	0.83
118_I	121_Q	0.526	0.83
153_V	244_M	0.525	0.83
24_M	36_L	0.525	0.83
228_I	231_S	0.524	0.83
220_Y	223_I	0.522	0.82
36_L	42_T	0.518	0.82
43_V	49_I	0.517	0.82
81_L	107_S	0.516	0.82
21_F	25_V	0.516	0.82
172_F	182_L	0.514	0.81
187_G	208_G	0.514	0.81
69_H	76_I	0.511	0.81
91_F	96_T	0.509	0.81
78_G	85_F	0.509	0.81
62_L	254_G	0.508	0.81
262_V	268_M	0.508	0.81
243_C	246_I	0.507	0.81
115_L	267_P	0.507	0.81
282_A	285_A	0.507	0.81
175_L	191_G	0.506	0.80
35_Y	77_P	0.505	0.80
73_L	132_Y	0.505	0.80
191_G	207_A	0.504	0.80
264_R	269_W	0.504	0.80
18_F	25_V	0.503	0.80
172_F	208_G	0.502	0.80
32_N	35_Y	0.501	0.80
272_F	283_G	0.501	0.80
171_A	186_V	0.501	0.80
230_I	233_G	0.500	0.80
151_I	156_Q	0.500	0.80

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
4cadC	1	0.796	99.9	0.523	Contact Map
3kcuA	3	0.806	52.8	0.926	Contact Map
2onkC	2	0.8127	34.2	0.934	Contact Map
4lz6A	1	0.9431	27.5	0.937	Contact Map
3klyA	3	0.8094	26.8	0.937	Contact Map
2m20A	2	0.1237	23.4	0.939	Contact Map
2ks1B	1	0.1438	22.5	0.939	Contact Map
3d31C	2	0.8094	20.6	0.94	Contact Map
2kluA	1	0.1472	18.4	0.942	Contact Map
2jwaA	2	0.1438	18.1	0.942	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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