YHFQ - BACSU - GREMLIN Contacts

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YHFQ - Putative ABC transporter substrate-binding lipoprotein YhfQ

UniProt:	C0SP94	Sequences: MKKTLIILTVLLLSVLTAACSSSSGNQNSKEHKVAVTHDLGKTNVPEHPKRVVVLELGFIDTLLDLGITPVGVADDNKAKQLINKDVLKKIDGYTSVGTRSQPSMEKIASLKPDLIIADTTRHKKVYDQLKKIAPTIALNNLNADYQDTIDASLTIAKAVGKEKEMEKKLTAHEEKLSETKQKISANSQSVLLIGNTNDTIMARDENFFTSRLLTQVGYRYAISTSGNSDSSNGGDSVNMKMTLEQLLKTDPDVIILMTGKTDDLDADGKRPIEKNVLWKKLKAVKNGHVYHVDRAVWSLRRSVDGANAILDELQKEMPAAKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	323 (288)
Sequences:	14058 (11224)
Seq/√Len:	661.4

ECOLI - FECB FEPB FHUD BTUF
BACSU - YHFQ YFIY FEUA YCLQ YFMC YXEB FHUD YVRC BTR
HALSA - BTUFA Q9HPB0 Q9HMG8 Q9HMF9 Q9HSB2
SULSO - Q97ZU2 Q980Z0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
251_D	283_K	4.119	1.00
157_A	166_M	4.056	1.00
154_L	167_E	3.789	1.00
162_K	165_E	3.490	1.00
176_K	312_D	3.248	1.00
150_I	174_E	3.187	1.00
158_K	163_E	3.163	1.00
283_K	287_N	3.049	1.00
37_T	42_K	2.992	1.00
54_V	60_I	2.916	1.00
165_E	168_K	2.691	1.00
178_S	182_Q	2.657	1.00
35_A	42_K	2.588	1.00
154_L	170_L	2.588	1.00
167_E	171_T	2.557	1.00
171_T	175_E	2.552	1.00
214_L	219_Y	2.540	1.00
107_K	110_S	2.429	1.00
246_Q	249_K	2.300	1.00
38_H	43_T	2.245	1.00
53_V	108_I	2.193	1.00
63_L	160_V	2.147	1.00
190_S	220_R	2.106	1.00
176_K	308_N	2.091	1.00
52_V	160_V	2.086	1.00
174_E	178_S	2.078	1.00
211_S	215_T	2.058	1.00
51_R	71_V	2.021	1.00
175_E	179_E	2.008	1.00
179_E	183_K	1.985	1.00
68_I	160_V	1.976	1.00
129_Q	132_K	1.972	1.00
274_E	288_G	1.953	1.00
253_D	283_K	1.951	1.00
68_I	162_K	1.908	1.00
148_D	151_D	1.873	1.00
35_A	44_N	1.855	1.00
168_K	172_A	1.842	1.00
62_T	153_S	1.839	1.00
271_R	275_K	1.831	1.00
117_I	156_I	1.749	1.00
127_Y	131_K	1.728	1.00
72_G	111_L	1.728	1.00
164_K	168_K	1.728	1.00
282_L	285_V	1.716	1.00
254_V	291_Y	1.697	1.00
33_K	44_N	1.695	1.00
178_S	181_K	1.671	1.00
254_V	289_H	1.627	1.00
283_K	286_K	1.612	1.00
103_P	108_I	1.562	1.00
34_V	158_K	1.553	1.00
145_D	148_D	1.550	1.00
172_A	176_K	1.536	1.00
151_D	154_L	1.528	1.00
281_K	286_K	1.502	1.00
128_D	132_K	1.490	1.00
270_K	274_E	1.483	1.00
165_E	169_K	1.467	1.00
279_W	285_V	1.467	1.00
53_V	111_L	1.466	1.00
104_S	107_K	1.454	1.00
95_T	107_K	1.452	1.00
191_V	219_Y	1.449	1.00
124_K	128_D	1.447	1.00
271_R	274_E	1.442	1.00
312_D	316_K	1.437	1.00
135_P	140_N	1.415	1.00
244_L	276_N	1.404	1.00
189_Q	254_V	1.403	1.00
109_A	133_I	1.393	1.00
291_Y	317_E	1.390	1.00
154_L	174_E	1.380	1.00
182_Q	185_S	1.373	1.00
180_T	311_L	1.369	1.00
128_D	131_K	1.368	1.00
66_L	162_K	1.364	1.00
53_V	72_G	1.359	1.00
71_V	111_L	1.353	1.00
200_T	241_K	1.352	1.00
255_I	284_A	1.346	1.00
163_E	167_E	1.343	1.00
180_T	315_Q	1.327	1.00
38_H	41_G	1.312	1.00
54_V	63_L	1.297	1.00
171_T	174_E	1.294	1.00
188_S	220_R	1.284	1.00
246_Q	250_T	1.278	1.00
106_E	245_E	1.275	1.00
169_K	172_A	1.272	1.00
176_K	179_E	1.265	1.00
74_A	77_N	1.257	1.00
164_K	167_E	1.253	1.00
49_P	114_D	1.240	1.00
151_D	155_T	1.234	1.00
63_L	68_I	1.229	1.00
179_E	182_Q	1.225	1.00
50_K	114_D	1.223	1.00
313_E	316_K	1.218	1.00
175_E	178_S	1.215	1.00
12_L	15_V	1.215	1.00
192_L	195_G	1.200	1.00
225_T	250_T	1.199	1.00
155_T	158_K	1.197	1.00
13_L	16_L	1.185	1.00
45_V	48_H	1.182	1.00
150_I	170_L	1.182	1.00
105_M	129_Q	1.182	1.00
51_R	112_K	1.174	1.00
206_E	215_T	1.170	1.00
222_A	250_T	1.169	1.00
123_H	126_V	1.168	1.00
170_L	174_E	1.159	1.00
20_C	23_S	1.148	1.00
223_I	250_T	1.143	1.00
144_A	147_Q	1.132	1.00
147_Q	150_I	1.128	1.00
183_K	315_Q	1.122	1.00
268_D	271_R	1.114	1.00
181_K	216_Q	1.112	1.00
135_P	138_A	1.106	1.00
190_S	253_D	1.101	1.00
172_A	175_E	1.100	1.00
38_H	127_Y	1.099	1.00
147_Q	174_E	1.098	1.00
193_L	214_L	1.082	1.00
136_T	140_N	1.081	1.00
137_I	159_A	1.071	1.00
50_K	69_T	1.050	1.00
116_I	134_A	1.045	1.00
52_V	115_L	1.044	1.00
118_A	138_A	1.040	1.00
33_K	47_E	1.037	1.00
181_K	185_S	1.037	1.00
146_Y	149_T	1.036	1.00
126_V	129_Q	1.022	1.00
65_D	169_K	1.020	1.00
220_R	224_S	1.016	1.00
189_Q	289_H	1.008	1.00
177_L	311_L	1.008	1.00
279_W	282_L	1.004	1.00
251_D	255_I	0.982	1.00
90_K	94_Y	0.979	1.00
70_P	94_Y	0.978	1.00
153_S	166_M	0.975	1.00
177_L	181_K	0.973	1.00
32_H	161_G	0.969	1.00
223_I	226_S	0.965	1.00
173_H	216_Q	0.963	1.00
63_L	117_I	0.962	1.00
191_V	214_L	0.955	1.00
176_K	180_T	0.955	1.00
95_T	98_G	0.946	1.00
157_A	170_L	0.945	1.00
223_I	246_Q	0.945	1.00
45_V	49_P	0.945	1.00
40_L	131_K	0.944	1.00
192_L	203_A	0.938	1.00
63_L	70_P	0.930	1.00
219_Y	318_M	0.927	1.00
91_I	94_Y	0.925	1.00
311_L	315_Q	0.920	1.00
254_V	318_M	0.918	1.00
38_H	42_K	0.917	1.00
75_D	96_S	0.917	1.00
155_T	159_A	0.914	1.00
10_V	14_S	0.913	1.00
154_L	158_K	0.913	1.00
33_K	48_H	0.910	1.00
166_M	170_L	0.906	1.00
305_D	308_N	0.902	1.00
167_E	170_L	0.901	1.00
285_V	290_V	0.896	1.00
283_K	289_H	0.891	1.00
73_V	94_Y	0.891	1.00
137_I	155_T	0.891	1.00
212_R	215_T	0.883	1.00
48_H	162_K	0.882	1.00
277_V	280_K	0.881	1.00
52_V	63_L	0.878	1.00
272_P	275_K	0.878	1.00
64_L	91_I	0.875	1.00
252_P	255_I	0.874	1.00
69_T	162_K	0.873	1.00
15_V	18_A	0.871	1.00
191_V	195_G	0.866	1.00
247_L	282_L	0.865	1.00
212_R	216_Q	0.864	1.00
40_L	138_A	0.861	1.00
85_K	88_L	0.861	1.00
32_H	47_E	0.861	1.00
11_L	15_V	0.855	1.00
191_V	194_I	0.853	1.00
194_I	276_N	0.852	1.00
156_I	160_V	0.851	1.00
192_L	252_P	0.851	1.00
9_T	12_L	0.850	1.00
14_S	17_T	0.849	1.00
66_L	160_V	0.846	1.00
48_H	161_G	0.845	1.00
49_P	115_L	0.843	1.00
34_V	45_V	0.841	1.00
222_A	225_T	0.840	1.00
66_L	169_K	0.838	1.00
62_T	156_I	0.837	1.00
274_E	290_V	0.836	1.00
248_L	282_L	0.835	1.00
115_L	137_I	0.825	1.00
91_I	95_T	0.824	1.00
117_I	159_A	0.824	1.00
184_I	315_Q	0.823	1.00
189_Q	219_Y	0.823	1.00
54_V	70_P	0.822	1.00
115_L	159_A	0.820	1.00
294_D	313_E	0.816	1.00
168_K	171_T	0.815	1.00
173_H	177_L	0.812	1.00
294_D	297_V	0.812	1.00
298_W	301_R	0.811	1.00
47_E	50_K	0.810	1.00
81_Q	85_K	0.805	1.00
113_P	116_I	0.800	1.00
64_L	70_P	0.797	1.00
33_K	46_P	0.795	1.00
116_I	133_I	0.788	1.00
192_L	196_N	0.788	1.00
312_D	315_Q	0.784	1.00
194_I	197_T	0.783	1.00
55_L	116_I	0.779	1.00
59_F	117_I	0.779	1.00
257_L	292_H	0.773	1.00
308_N	312_D	0.765	1.00
125_K	128_D	0.764	1.00
248_L	281_K	0.764	1.00
61_D	305_D	0.762	1.00
56_E	119_D	0.762	1.00
280_K	285_V	0.760	1.00
66_L	157_A	0.759	1.00
66_L	165_E	0.757	1.00
256_I	314_L	0.756	1.00
192_L	247_L	0.754	1.00
73_V	96_S	0.754	1.00
156_I	159_A	0.752	1.00
196_N	199_D	0.751	1.00
311_L	316_K	0.748	1.00
65_D	305_D	0.742	1.00
146_Y	150_I	0.734	1.00
11_L	14_S	0.731	1.00
72_G	98_G	0.727	1.00
169_K	173_H	0.726	1.00
268_D	272_P	0.726	1.00
176_K	315_Q	0.725	1.00
147_Q	151_D	0.725	1.00
269_G	272_P	0.724	1.00
221_Y	225_T	0.723	1.00
204_R	208_F	0.721	1.00
256_I	291_Y	0.721	1.00
61_D	303_S	0.719	1.00
276_N	280_K	0.719	1.00
297_V	301_R	0.714	1.00
131_K	136_T	0.713	1.00
193_L	258_M	0.713	1.00
32_H	48_H	0.713	1.00
67_G	165_E	0.713	1.00
206_E	226_S	0.712	1.00
90_K	93_G	0.712	1.00
13_L	17_T	0.710	1.00
17_T	20_C	0.706	1.00
139_L	155_T	0.704	1.00
180_T	184_I	0.703	1.00
89_K	92_D	0.702	1.00
86_D	89_K	0.701	1.00
194_I	199_D	0.700	1.00
203_A	223_I	0.700	1.00
177_L	216_Q	0.698	1.00
36_V	45_V	0.697	1.00
9_T	13_L	0.692	1.00
242_M	250_T	0.692	1.00
45_V	135_P	0.691	1.00
160_V	163_E	0.689	1.00
53_V	113_P	0.685	1.00
97_V	111_L	0.684	1.00
208_F	211_S	0.684	1.00
16_L	19_A	0.679	1.00
18_A	21_S	0.678	1.00
243_T	246_Q	0.676	1.00
150_I	154_L	0.673	1.00
99_T	102_Q	0.672	1.00
153_S	169_K	0.669	1.00
213_L	311_L	0.668	1.00
45_V	115_L	0.667	1.00
257_L	290_V	0.667	1.00
152_A	155_T	0.666	1.00
137_I	141_N	0.662	1.00
183_K	186_A	0.659	1.00
297_V	300_L	0.659	1.00
136_T	142_L	0.659	1.00
303_S	306_G	0.657	1.00
206_E	224_S	0.657	1.00
154_L	157_A	0.657	1.00
122_R	126_V	0.652	1.00
67_G	162_K	0.652	1.00
51_R	114_D	0.651	1.00
304_V	308_N	0.650	1.00
53_V	97_V	0.650	1.00
45_V	159_A	0.649	1.00
10_V	16_L	0.648	1.00
10_V	13_L	0.648	1.00
248_L	252_P	0.645	1.00
124_K	127_Y	0.644	1.00
149_T	153_S	0.642	1.00
259_T	292_H	0.642	1.00
181_K	217_V	0.640	1.00
95_T	111_L	0.638	1.00
258_M	293_V	0.638	1.00
14_S	18_A	0.634	1.00
92_D	95_T	0.632	1.00
297_V	313_E	0.630	1.00
310_I	314_L	0.627	1.00
72_G	97_V	0.626	1.00
204_R	239_N	0.626	1.00
191_V	256_I	0.626	1.00
313_E	317_E	0.623	1.00
105_M	108_I	0.618	1.00
20_C	24_S	0.618	1.00
19_A	23_S	0.617	1.00
270_K	292_H	0.617	1.00
193_L	210_T	0.615	1.00
66_L	166_M	0.614	1.00
106_E	109_A	0.612	1.00
273_I	276_N	0.611	1.00
43_T	137_I	0.609	1.00
53_V	116_I	0.606	1.00
64_L	90_K	0.605	1.00
192_L	255_I	0.604	1.00
9_T	16_L	0.603	1.00
255_I	258_M	0.603	1.00
150_I	173_H	0.600	1.00
194_I	255_I	0.599	1.00
194_I	203_A	0.598	1.00
298_W	310_I	0.596	1.00
293_V	298_W	0.595	1.00
173_H	176_K	0.595	1.00
29_S	32_H	0.595	1.00
135_P	139_L	0.589	1.00
63_L	156_I	0.586	1.00
32_H	46_P	0.585	1.00
39_D	155_T	0.580	1.00
170_L	173_H	0.580	1.00
214_L	217_V	0.579	1.00
108_I	130_L	0.577	1.00
221_Y	224_S	0.575	1.00
306_G	310_I	0.571	1.00
180_T	217_V	0.571	1.00
182_Q	186_A	0.570	1.00
54_V	59_F	0.568	1.00
276_N	279_W	0.567	1.00
127_Y	130_L	0.564	1.00
135_P	141_N	0.562	1.00
247_L	250_T	0.562	1.00
49_P	160_V	0.561	1.00
48_H	114_D	0.561	1.00
223_I	242_M	0.560	1.00
105_M	133_I	0.558	1.00
207_N	211_S	0.558	1.00
208_F	238_V	0.558	1.00
244_L	279_W	0.555	1.00
147_Q	216_Q	0.552	1.00
53_V	71_V	0.552	1.00
126_V	130_L	0.551	1.00
98_G	103_P	0.551	1.00
107_K	111_L	0.550	1.00
32_H	49_P	0.547	1.00
217_V	315_Q	0.545	1.00
310_I	313_E	0.544	1.00
60_I	73_V	0.542	1.00
254_V	258_M	0.542	1.00
59_F	156_I	0.541	1.00
173_H	307_A	0.541	1.00
136_T	139_L	0.539	1.00
177_L	307_A	0.539	1.00
255_I	279_W	0.538	1.00
192_L	222_A	0.537	1.00
62_T	65_D	0.536	1.00
179_E	312_D	0.536	1.00
54_V	73_V	0.535	1.00
180_T	183_K	0.534	1.00
190_S	254_V	0.532	1.00
105_M	126_V	0.532	1.00
248_L	278_L	0.532	1.00
260_G	295_R	0.530	1.00
181_K	184_I	0.529	0.99
79_A	305_D	0.528	0.99
120_T	140_N	0.528	0.99
149_T	152_A	0.527	0.99
65_D	153_S	0.527	0.99
204_R	211_S	0.527	0.99
211_S	224_S	0.526	0.99
204_R	210_T	0.526	0.99
298_W	313_E	0.525	0.99
242_M	247_L	0.525	0.99
202_M	241_K	0.524	0.99
151_D	167_E	0.523	0.99
177_L	180_T	0.522	0.99
163_E	166_M	0.520	0.99
135_P	142_L	0.518	0.99
106_E	243_T	0.518	0.99
34_V	47_E	0.516	0.99
40_L	124_K	0.516	0.99
36_V	155_T	0.515	0.99
279_W	290_V	0.514	0.99
130_L	136_T	0.513	0.99
49_P	52_V	0.513	0.99
205_D	211_S	0.513	0.99
19_A	22_S	0.512	0.99
40_L	127_Y	0.511	0.99
62_T	304_V	0.511	0.99
251_D	282_L	0.509	0.99
215_T	224_S	0.508	0.99
70_P	73_V	0.508	0.99
59_F	62_T	0.507	0.99
150_I	177_L	0.507	0.99
208_F	239_N	0.506	0.99
191_V	196_N	0.505	0.99
201_I	204_R	0.504	0.99
137_I	140_N	0.504	0.99
59_F	139_L	0.503	0.99
56_E	59_F	0.503	0.99
149_T	306_G	0.502	0.99
314_L	318_M	0.502	0.99
69_T	160_V	0.501	0.99
307_A	310_I	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
3lhsA	1	0.8978	100	0.249	Contact Map
4n01A	1	0.8638	100	0.255	Contact Map
4mlzA	1	0.8638	100	0.265	Contact Map
3tlkA	1	0.87	100	0.284	Contact Map
3mwfA	1	0.87	100	0.287	Contact Map
3tnyA	1	0.8545	100	0.288	Contact Map
2x4lA	1	0.8607	100	0.29	Contact Map
3tefA	1	0.8514	100	0.293	Contact Map
4hn9A	1	0.8545	100	0.295	Contact Map
4ovkA	1	0.8545	100	0.302	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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