YHAX - BACSU - GREMLIN Contacts

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YHAX - Stress response protein YhaX

UniProt:	O07539	Sequences: MSKQLLALNIDGALLRSNGKIHQATKDAIEYVKKKGIYVTLVTNRHFRSAQKIAKSLKLDAKLITHSGAYIAEKIDAPFFEKRISDDHTFNIVQVLESYQCNIRLLHEKYSIGNKKKVNSNLLGKALIHPSDPIFYPVQFVESLSDLLMDEPVSAPVIEVYTEHDIQHDITETITKAFPAVDVIRVNDEKLNIVPKGVSKEAGLALVASELGLSMDDVVAIGHQYDDLPMIELAGLGVAMGNAVPEIKRKADWVTRSNDEQGVAYMMKEYFRMQQRKGFLDKFHMKRV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	288 (257)
Sequences:	10897 (9020)
Seq/√Len:	562.7

ECOLI - YIDA SUPH YBHA YBJI COF YIGL MPGP
BACSU - YHAX YWPJ YXEH YWTE YKRA YITU YCSE NTDB
HALSA - PGP
SULSO - PGP1 PGP2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
256_R	265_Y	4.128	1.00
17_S	259_D	3.535	1.00
220_A	234_A	3.167	1.00
257_S	260_E	2.981	1.00
231_I	237_G	2.915	1.00
4_Q	217_D	2.780	1.00
22_H	261_Q	2.759	1.00
24_A	261_Q	2.636	1.00
208_A	218_V	2.568	1.00
245_P	249_R	2.480	1.00
16_R	20_K	2.471	1.00
24_A	268_K	2.453	1.00
8_L	39_V	2.412	1.00
43_T	50_A	2.410	1.00
232_E	250_K	2.322	1.00
205_A	233_L	2.197	1.00
215_M	233_L	2.038	1.00
199_S	229_P	2.024	1.00
23_Q	27_D	1.966	1.00
31_Y	34_K	1.954	1.00
228_L	247_I	1.871	1.00
228_L	250_K	1.835	1.00
239_A	251_A	1.830	1.00
80_F	206_L	1.830	1.00
225_Y	246_E	1.827	1.00
31_Y	268_K	1.818	1.00
245_P	248_K	1.805	1.00
225_Y	244_V	1.793	1.00
256_R	260_E	1.785	1.00
26_K	56_S	1.777	1.00
5_L	40_T	1.769	1.00
237_G	252_D	1.767	1.00
3_K	219_V	1.763	1.00
29_I	39_V	1.762	1.00
73_E	77_A	1.736	1.00
32_V	37_I	1.733	1.00
7_A	204_L	1.727	1.00
85_S	88_H	1.712	1.00
214_S	217_D	1.701	1.00
205_A	209_S	1.699	1.00
31_Y	35_K	1.657	1.00
236_L	252_D	1.642	1.00
206_L	209_S	1.625	1.00
253_W	270_Y	1.613	1.00
247_I	250_K	1.603	1.00
206_L	210_E	1.602	1.00
238_V	266_M	1.591	1.00
22_H	25_T	1.568	1.00
204_L	230_M	1.562	1.00
10_I	15_L	1.552	1.00
202_A	205_A	1.549	1.00
236_L	253_W	1.537	1.00
201_E	233_L	1.517	1.00
82_K	206_L	1.510	1.00
8_L	221_I	1.506	1.00
38_Y	211_L	1.496	1.00
91_N	180_A	1.471	1.00
97_E	114_N	1.470	1.00
3_K	37_I	1.470	1.00
27_D	31_Y	1.458	1.00
221_I	263_V	1.450	1.00
88_H	180_A	1.426	1.00
220_A	230_M	1.421	1.00
25_T	261_Q	1.416	1.00
24_A	265_Y	1.388	1.00
239_A	243_A	1.378	1.00
3_K	236_L	1.375	1.00
171_T	175_T	1.373	1.00
216_D	235_G	1.358	1.00
26_K	30_E	1.356	1.00
253_W	266_M	1.340	1.00
96_L	160_V	1.340	1.00
143_S	146_D	1.338	1.00
28_A	264_A	1.335	1.00
3_K	217_D	1.331	1.00
221_I	266_M	1.324	1.00
33_K	60_D	1.310	1.00
7_A	42_V	1.285	1.00
231_I	247_I	1.276	1.00
88_H	91_N	1.271	1.00
241_G	257_S	1.270	1.00
215_M	218_V	1.267	1.00
86_D	90_F	1.265	1.00
99_Y	173_T	1.251	1.00
208_A	215_M	1.242	1.00
246_E	249_R	1.235	1.00
228_L	232_E	1.230	1.00
30_E	34_K	1.225	1.00
182_D	229_P	1.221	1.00
253_W	269_E	1.214	1.00
166_I	169_D	1.209	1.00
263_V	267_M	1.205	1.00
82_K	195_P	1.188	1.00
6_L	267_M	1.188	1.00
28_A	268_K	1.186	1.00
78_P	81_E	1.182	1.00
88_H	181_V	1.182	1.00
95_V	99_Y	1.179	1.00
16_R	259_D	1.177	1.00
168_H	172_E	1.173	1.00
248_K	254_V	1.172	1.00
182_D	197_G	1.169	1.00
5_L	213_L	1.168	1.00
70_Y	78_P	1.167	1.00
219_V	270_Y	1.163	1.00
218_V	234_A	1.153	1.00
266_M	270_Y	1.147	1.00
5_L	208_A	1.142	1.00
24_A	28_A	1.140	1.00
40_T	207_V	1.134	1.00
6_L	32_V	1.125	1.00
10_I	53_I	1.113	1.00
220_A	231_I	1.111	1.00
168_H	185_R	1.105	1.00
255_T	266_M	1.102	1.00
64_I	203_G	1.100	1.00
157_V	192_N	1.088	1.00
242_N	258_N	1.086	1.00
238_V	255_T	1.082	1.00
255_T	262_G	1.081	1.00
215_M	235_G	1.074	1.00
7_A	218_V	1.070	1.00
71_I	206_L	1.069	1.00
195_P	198_V	1.067	1.00
6_L	37_I	1.065	1.00
240_M	262_G	1.060	1.00
234_A	237_G	1.058	1.00
23_Q	26_K	1.052	1.00
17_S	258_N	1.046	1.00
62_K	211_L	1.039	1.00
244_V	247_I	1.039	1.00
184_I	194_V	1.036	1.00
199_S	202_A	1.033	1.00
264_A	268_K	1.028	1.00
180_A	196_K	1.025	1.00
33_K	61_A	1.025	1.00
14_L	25_T	1.022	1.00
208_A	233_L	1.019	1.00
71_I	80_F	1.011	1.00
256_R	262_G	1.006	1.00
243_A	248_K	1.004	1.00
30_E	33_K	1.004	1.00
94_Q	98_S	0.994	1.00
219_V	236_L	0.993	1.00
5_L	218_V	0.989	1.00
30_E	58_K	0.987	1.00
224_Q	244_V	0.977	1.00
14_L	29_I	0.972	1.00
201_E	229_P	0.970	1.00
238_V	253_W	0.970	1.00
219_V	238_V	0.969	1.00
90_F	94_Q	0.954	1.00
266_M	269_E	0.953	1.00
241_G	248_K	0.952	1.00
208_A	235_G	0.950	1.00
208_A	213_L	0.949	1.00
207_V	211_L	0.948	1.00
265_Y	269_E	0.947	1.00
32_V	39_V	0.939	1.00
204_L	234_A	0.939	1.00
82_K	197_G	0.937	1.00
219_V	266_M	0.932	1.00
241_G	260_E	0.921	1.00
172_E	175_T	0.920	1.00
169_D	172_E	0.919	1.00
8_L	263_V	0.918	1.00
194_V	199_S	0.915	1.00
47_F	65_T	0.914	1.00
205_A	215_M	0.914	1.00
69_A	198_V	0.913	1.00
225_Y	228_L	0.912	1.00
72_A	78_P	0.910	1.00
121_N	125_K	0.901	1.00
240_M	255_T	0.898	1.00
91_N	94_Q	0.897	1.00
265_Y	268_K	0.891	1.00
51_Q	76_D	0.891	1.00
241_G	256_R	0.891	1.00
218_V	235_G	0.888	1.00
27_D	30_E	0.883	1.00
239_A	247_I	0.878	1.00
95_V	98_S	0.877	1.00
79_F	210_E	0.872	1.00
71_I	203_G	0.871	1.00
43_T	65_T	0.866	1.00
169_D	173_T	0.866	1.00
139_Q	142_E	0.861	1.00
51_Q	55_K	0.860	1.00
32_V	271_F	0.855	1.00
84_I	195_P	0.854	1.00
25_T	264_A	0.854	1.00
65_T	70_Y	0.853	1.00
7_A	40_T	0.839	1.00
87_D	91_N	0.835	1.00
231_I	250_K	0.832	1.00
95_V	178_F	0.829	1.00
42_V	64_I	0.829	1.00
81_E	108_E	0.827	1.00
72_A	76_D	0.824	1.00
98_S	173_T	0.815	1.00
218_V	233_L	0.809	1.00
94_Q	145_S	0.808	1.00
47_F	72_A	0.806	1.00
168_H	171_T	0.803	1.00
8_L	14_L	0.803	1.00
81_E	156_P	0.800	1.00
235_G	252_D	0.800	1.00
110_Y	139_Q	0.800	1.00
246_E	250_K	0.797	1.00
46_H	66_H	0.793	1.00
10_I	41_L	0.792	1.00
256_R	269_E	0.791	1.00
25_T	28_A	0.789	1.00
37_I	219_V	0.788	1.00
142_E	145_S	0.783	1.00
240_M	243_A	0.783	1.00
64_I	207_V	0.780	1.00
162_T	166_I	0.780	1.00
220_A	237_G	0.778	1.00
6_L	219_V	0.778	1.00
183_V	193_I	0.776	1.00
16_R	22_H	0.772	1.00
90_F	149_M	0.770	1.00
28_A	31_Y	0.769	1.00
243_A	247_I	0.762	1.00
65_T	72_A	0.760	1.00
179_P	196_K	0.759	1.00
77_A	210_E	0.759	1.00
14_L	21_I	0.758	1.00
231_I	251_A	0.755	1.00
171_T	185_R	0.753	1.00
91_N	178_F	0.753	1.00
32_V	267_M	0.749	1.00
142_E	146_D	0.747	1.00
121_N	124_G	0.742	1.00
164_H	168_H	0.742	1.00
37_I	271_F	0.737	1.00
217_D	235_G	0.733	1.00
182_D	199_S	0.732	1.00
93_V	97_E	0.730	1.00
237_G	247_I	0.721	1.00
24_A	264_A	0.721	1.00
118_V	121_N	0.719	1.00
253_W	265_Y	0.714	1.00
162_T	167_Q	0.714	1.00
12_G	240_M	0.712	1.00
95_V	173_T	0.708	1.00
40_T	62_K	0.706	1.00
173_T	176_K	0.705	1.00
91_N	95_V	0.705	1.00
41_L	50_A	0.704	1.00
16_R	258_N	0.704	1.00
163_E	166_I	0.701	1.00
223_H	243_A	0.700	1.00
18_N	259_D	0.699	1.00
204_L	220_A	0.699	1.00
198_V	202_A	0.698	1.00
14_L	258_N	0.697	1.00
87_D	90_F	0.694	1.00
50_A	65_T	0.693	1.00
202_A	206_L	0.691	1.00
50_A	63_L	0.689	1.00
122_L	125_K	0.689	1.00
182_D	196_K	0.688	1.00
69_A	195_P	0.688	1.00
223_H	240_M	0.680	1.00
67_S	192_N	0.675	1.00
172_E	176_K	0.675	1.00
42_V	230_M	0.674	1.00
141_V	144_L	0.673	1.00
5_L	207_V	0.662	1.00
62_K	73_E	0.661	1.00
229_P	232_E	0.660	1.00
24_A	27_D	0.656	1.00
99_Y	169_D	0.655	1.00
205_A	208_A	0.655	1.00
93_V	105_L	0.650	1.00
164_H	188_D	0.649	1.00
10_I	50_A	0.648	1.00
40_T	61_A	0.647	1.00
236_L	266_M	0.641	1.00
237_G	251_A	0.641	1.00
157_V	186_V	0.637	1.00
37_I	217_D	0.633	1.00
97_E	103_I	0.633	1.00
221_I	238_V	0.628	1.00
261_Q	264_A	0.627	1.00
62_K	207_V	0.624	1.00
83_R	156_P	0.621	1.00
255_T	265_Y	0.621	1.00
97_E	145_S	0.621	1.00
242_N	248_K	0.620	1.00
239_A	250_K	0.619	1.00
47_F	51_Q	0.617	1.00
90_F	145_S	0.617	1.00
187_N	224_Q	0.616	1.00
167_Q	171_T	0.612	1.00
253_W	256_R	0.608	1.00
134_I	138_V	0.607	1.00
14_L	41_L	0.603	1.00
78_P	108_E	0.601	1.00
10_I	14_L	0.600	1.00
182_D	194_V	0.599	1.00
54_A	63_L	0.595	1.00
201_E	205_A	0.590	1.00
175_T	183_V	0.589	1.00
70_Y	108_E	0.588	1.00
25_T	29_I	0.585	1.00
6_L	221_I	0.584	1.00
256_R	266_M	0.580	1.00
33_K	58_K	0.579	1.00
146_D	149_M	0.578	1.00
221_I	255_T	0.578	1.00
94_Q	97_E	0.577	1.00
41_L	54_A	0.577	1.00
38_Y	61_A	0.577	1.00
164_H	185_R	0.575	0.99
183_V	191_L	0.573	0.99
159_E	192_N	0.572	0.99
73_E	79_F	0.572	0.99
240_M	258_N	0.571	0.99
225_Y	247_I	0.571	0.99
8_L	32_V	0.571	0.99
71_I	210_E	0.570	0.99
21_I	26_K	0.568	0.99
160_V	193_I	0.567	0.99
228_L	231_I	0.567	0.99
89_T	93_V	0.565	0.99
242_N	257_S	0.564	0.99
197_G	202_A	0.563	0.99
42_V	67_S	0.563	0.99
247_I	251_A	0.561	0.99
15_L	258_N	0.560	0.99
66_H	190_K	0.558	0.99
60_D	74_K	0.558	0.99
71_I	207_V	0.556	0.99
3_K	38_Y	0.555	0.99
213_L	218_V	0.550	0.99
27_D	268_K	0.549	0.99
29_I	267_M	0.549	0.99
52_K	55_K	0.549	0.99
73_E	210_E	0.549	0.99
107_H	112_I	0.548	0.99
17_S	257_S	0.548	0.99
32_V	264_A	0.546	0.99
22_H	264_A	0.545	0.99
38_Y	62_K	0.545	0.99
28_A	32_V	0.544	0.99
21_I	45_R	0.543	0.99
221_I	267_M	0.542	0.99
66_H	159_E	0.541	0.99
29_I	33_K	0.541	0.99
104_R	159_E	0.541	0.99
33_K	39_V	0.541	0.99
264_A	267_M	0.540	0.99
236_L	270_Y	0.539	0.99
213_L	235_G	0.539	0.99
66_H	69_A	0.536	0.99
86_D	152_P	0.533	0.99
261_Q	265_Y	0.532	0.99
201_E	218_V	0.529	0.99
215_M	234_A	0.527	0.99
20_K	56_S	0.526	0.99
16_R	261_Q	0.525	0.99
115_K	142_E	0.522	0.99
82_K	198_V	0.521	0.99
238_V	252_D	0.520	0.99
93_V	103_I	0.519	0.99
267_M	271_F	0.519	0.99
84_I	181_V	0.517	0.99
54_A	59_L	0.517	0.99
244_V	248_K	0.517	0.99
38_Y	213_L	0.516	0.99
96_L	103_I	0.515	0.99
95_V	174_I	0.515	0.99
66_H	192_N	0.512	0.99
241_G	254_V	0.511	0.99
107_H	110_Y	0.510	0.99
14_L	263_V	0.509	0.99
92_I	181_V	0.508	0.99
250_K	253_W	0.507	0.99
159_E	190_K	0.507	0.99
46_H	49_S	0.506	0.99
234_A	252_D	0.506	0.99
44_N	226_D	0.502	0.99
85_S	180_A	0.500	0.99

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
3dnpA	2	0.9514	100	0.265	Contact Map
3pgvA	3	0.8889	100	0.277	Contact Map
2b30A	2	0.9201	100	0.283	Contact Map
1nrwA	1	0.9201	100	0.284	Contact Map
3l7yA	1	0.9062	100	0.289	Contact Map
1nf2A	4	0.9201	100	0.299	Contact Map
1rkqA	1	0.9167	100	0.302	Contact Map
4qjbA	1	0.9097	100	0.305	Contact Map
1rlmA	1	0.9236	100	0.309	Contact Map
3daoA	1	0.9062	100	0.313	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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