YCLQ - BACSU - GREMLIN Contacts

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YCLQ - Uncharacterized ABC transporter solute-binding protein YclQ

UniProt:	P94421	Sequences: MKKFALLFIALVTAVVISACGNQSTSSKGSDTKKEQITVKHQLDKNGTKVPKNPKKVVVFDFGSLDTLDKLGLDDIVAGLPKQVLPKYLSKFKDDKYADVGSLKEPDFDKVAELDPDLIIISARQSESYKEFSKIAPTIYLGVDTAKYMESFKSDAETIGKIFDKEDKVKDELANIDHSIADVKKTAEKLNKNGLVIMANDGKISAFGPKSRYGLIHDVFGVAPADQNIKASTHGQSVSYEYISKTNPDYLFVIDRGTAIGETSSTKQVVENDYVKNVNAVKNGHVIYLDSATWYLSGGGLESMTQMIKEVKDGLEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	317 (280)
Sequences:	14089 (11195)
Seq/√Len:	669.0

ECOLI - FECB FEPB FHUD BTUF
BACSU - YCLQ FEUA YHFQ YFIY YFMC YVRC FHUD YXEB BTR
HALSA - BTUFA Q9HPB0 Q9HMF9 Q9HMG8 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
157_E	170_K	4.124	1.00
247_N	279_N	4.108	1.00
160_G	169_V	4.064	1.00
153_K	177_D	3.948	1.00
165_K	168_K	3.427	1.00
179_S	309_K	3.284	1.00
161_K	166_E	3.105	1.00
279_N	283_N	3.061	1.00
59_V	65_L	2.925	1.00
40_K	47_G	2.897	1.00
157_E	173_L	2.799	1.00
168_K	171_D	2.688	1.00
181_A	185_K	2.597	1.00
217_H	222_V	2.597	1.00
170_K	174_A	2.530	1.00
174_A	178_H	2.517	1.00
38_T	47_G	2.484	1.00
110_K	113_E	2.469	1.00
242_Y	245_K	2.355	1.00
58_V	111_V	2.295	1.00
41_H	48_T	2.137	1.00
57_V	163_F	2.131	1.00
68_L	163_F	2.109	1.00
177_D	181_A	2.103	1.00
179_S	305_T	2.072	1.00
178_H	182_D	1.999	1.00
214_G	218_D	1.994	1.00
73_L	165_K	1.977	1.00
73_L	163_F	1.958	1.00
249_D	279_N	1.942	1.00
182_D	186_T	1.926	1.00
67_T	156_A	1.925	1.00
193_N	223_A	1.906	1.00
129_Y	133_S	1.841	1.00
171_D	175_N	1.836	1.00
270_V	284_G	1.829	1.00
36_Q	49_K	1.828	1.00
131_E	134_K	1.804	1.00
278_V	281_V	1.798	1.00
38_T	49_K	1.766	1.00
120_I	159_I	1.745	1.00
250_Y	287_I	1.744	1.00
151_S	154_S	1.674	1.00
181_A	184_K	1.672	1.00
167_D	171_D	1.670	1.00
279_N	282_K	1.636	1.00
250_Y	285_H	1.633	1.00
130_K	134_K	1.595	1.00
154_S	157_E	1.584	1.00
86_P	89_L	1.576	1.00
168_K	172_E	1.569	1.00
267_K	271_E	1.556	1.00
37_I	161_K	1.552	1.00
175_N	179_S	1.533	1.00
106_P	111_V	1.530	1.00
267_K	270_V	1.528	1.00
277_N	282_K	1.525	1.00
266_T	270_V	1.525	1.00
58_V	114_L	1.510	1.00
98_A	110_K	1.501	1.00
195_L	198_M	1.471	1.00
107_D	110_K	1.455	1.00
154_S	158_T	1.406	1.00
240_Y	272_N	1.397	1.00
56_K	78_A	1.395	1.00
112_A	135_I	1.378	1.00
275_V	281_V	1.374	1.00
12_V	15_V	1.371	1.00
166_E	170_K	1.357	1.00
59_V	68_L	1.356	1.00
153_K	173_L	1.348	1.00
185_K	188_E	1.346	1.00
109_D	241_E	1.337	1.00
242_Y	246_T	1.333	1.00
183_V	312_K	1.321	1.00
157_E	177_D	1.320	1.00
174_A	177_D	1.297	1.00
251_L	280_A	1.294	1.00
178_H	181_A	1.287	1.00
50_V	53_N	1.278	1.00
203_K	237_S	1.266	1.00
192_K	250_Y	1.262	1.00
13_T	16_V	1.262	1.00
179_S	182_D	1.252	1.00
126_S	130_K	1.245	1.00
108_F	131_E	1.241	1.00
194_G	222_V	1.238	1.00
172_E	175_N	1.237	1.00
180_I	308_I	1.233	1.00
55_K	76_I	1.228	1.00
310_E	313_D	1.226	1.00
71_L	165_K	1.222	1.00
130_K	133_S	1.217	1.00
68_L	73_L	1.210	1.00
55_K	117_D	1.207	1.00
167_D	170_K	1.203	1.00
158_T	161_K	1.203	1.00
156_A	169_V	1.200	1.00
85_L	88_Y	1.199	1.00
228_N	246_T	1.198	1.00
225_A	228_N	1.178	1.00
182_D	185_K	1.171	1.00
225_A	246_T	1.168	1.00
184_K	219_V	1.161	1.00
183_V	308_I	1.160	1.00
56_K	115_D	1.159	1.00
69_D	74_D	1.157	1.00
54_P	117_D	1.151	1.00
226_D	246_T	1.149	1.00
125_Q	128_S	1.142	1.00
209_P	218_D	1.135	1.00
187_A	190_L	1.118	1.00
173_L	177_D	1.107	1.00
41_H	129_Y	1.090	1.00
175_N	178_H	1.087	1.00
70_K	172_E	1.082	1.00
223_A	227_Q	1.082	1.00
36_Q	53_N	1.080	1.00
196_V	217_H	1.066	1.00
186_T	312_K	1.063	1.00
87_K	90_S	1.055	1.00
76_I	165_K	1.054	1.00
268_Q	271_E	1.048	1.00
57_V	118_L	1.046	1.00
184_K	188_E	1.041	1.00
191_N	223_A	1.041	1.00
77_V	114_L	1.041	1.00
83_Q	86_P	1.038	1.00
73_L	76_I	1.031	1.00
36_Q	51_P	1.027	1.00
302_E	305_T	1.018	1.00
36_Q	52_K	1.017	1.00
195_L	199_A	1.009	1.00
309_K	313_D	1.006	1.00
85_L	89_L	1.002	1.00
180_I	184_K	0.998	1.00
128_S	131_E	0.976	1.00
290_D	293_T	0.974	1.00
41_H	47_G	0.973	1.00
89_L	92_F	0.971	1.00
88_Y	91_K	0.969	1.00
160_G	173_L	0.968	1.00
197_I	200_N	0.965	1.00
69_D	92_F	0.964	1.00
157_E	161_K	0.963	1.00
68_L	77_V	0.961	1.00
275_V	278_V	0.950	1.00
158_T	162_I	0.950	1.00
86_P	90_S	0.948	1.00
79_G	114_L	0.946	1.00
57_V	68_L	0.945	1.00
147_K	150_E	0.944	1.00
43_L	133_S	0.942	1.00
82_K	99_D	0.942	1.00
53_N	165_K	0.941	1.00
279_N	285_H	0.938	1.00
56_K	76_I	0.936	1.00
77_V	80_L	0.935	1.00
193_N	249_D	0.928	1.00
176_I	219_V	0.925	1.00
140_Y	162_I	0.922	1.00
67_T	159_I	0.917	1.00
84_V	88_Y	0.916	1.00
15_V	18_S	0.911	1.00
179_S	183_V	0.909	1.00
264_S	267_K	0.909	1.00
169_V	173_L	0.909	1.00
66_D	302_E	0.907	1.00
68_L	120_I	0.906	1.00
71_L	172_E	0.905	1.00
247_N	251_L	0.898	1.00
20_C	23_Q	0.896	1.00
211_S	214_G	0.894	1.00
59_V	77_V	0.894	1.00
281_V	286_V	0.892	1.00
119_I	136_A	0.886	1.00
226_D	242_Y	0.880	1.00
148_Y	151_S	0.875	1.00
273_D	276_K	0.869	1.00
159_I	163_F	0.866	1.00
194_G	197_I	0.863	1.00
64_S	120_I	0.862	1.00
50_V	54_P	0.852	1.00
215_L	219_V	0.846	1.00
215_L	218_D	0.838	1.00
120_I	162_I	0.837	1.00
78_A	114_L	0.836	1.00
77_V	97_Y	0.832	1.00
248_P	251_L	0.830	1.00
54_P	118_L	0.829	1.00
90_S	95_D	0.829	1.00
80_L	99_D	0.828	1.00
13_T	17_I	0.826	1.00
243_I	278_V	0.826	1.00
265_S	268_Q	0.825	1.00
155_D	158_T	0.823	1.00
74_D	77_V	0.822	1.00
194_G	198_M	0.821	1.00
14_A	17_I	0.819	1.00
305_T	309_K	0.815	1.00
276_K	281_V	0.810	1.00
50_V	138_T	0.809	1.00
84_V	87_K	0.809	1.00
170_K	173_L	0.808	1.00
252_F	311_V	0.807	1.00
157_E	160_G	0.805	1.00
53_N	164_D	0.804	1.00
119_I	137_P	0.803	1.00
61_D	122_S	0.803	1.00
85_L	90_S	0.800	1.00
118_L	162_I	0.799	1.00
69_D	91_K	0.799	1.00
58_V	79_G	0.797	1.00
194_G	217_H	0.797	1.00
20_C	24_S	0.797	1.00
60_F	119_I	0.795	1.00
140_Y	158_T	0.794	1.00
66_D	300_G	0.794	1.00
176_I	180_I	0.789	1.00
35_E	52_K	0.788	1.00
84_V	89_L	0.787	1.00
195_L	248_P	0.785	1.00
35_E	164_D	0.785	1.00
192_K	285_H	0.785	1.00
244_S	278_V	0.785	1.00
226_D	229_I	0.784	1.00
37_I	50_V	0.783	1.00
171_D	174_A	0.782	1.00
244_S	277_N	0.780	1.00
194_G	199_A	0.779	1.00
207_F	235_G	0.779	1.00
192_K	222_V	0.775	1.00
300_G	303_S	0.769	1.00
290_D	310_E	0.765	1.00
111_V	132_F	0.765	1.00
159_I	162_I	0.764	1.00
253_V	288_Y	0.764	1.00
150_E	154_S	0.763	1.00
70_K	156_A	0.761	1.00
209_P	227_Q	0.757	1.00
116_P	119_I	0.754	1.00
52_K	55_K	0.753	1.00
112_A	137_P	0.752	1.00
98_A	101_G	0.752	1.00
206_A	226_D	0.750	1.00
253_V	286_V	0.744	1.00
195_L	206_A	0.742	1.00
224_P	228_N	0.741	1.00
252_F	287_I	0.741	1.00
41_H	44_D	0.736	1.00
153_K	157_E	0.736	1.00
71_L	163_F	0.731	1.00
187_A	312_K	0.731	1.00
272_N	276_K	0.730	1.00
80_L	97_Y	0.729	1.00
179_S	312_K	0.723	1.00
195_L	243_I	0.721	1.00
149_M	152_F	0.718	1.00
270_V	286_V	0.712	1.00
16_V	19_A	0.710	1.00
180_I	219_V	0.709	1.00
83_Q	88_Y	0.708	1.00
127_E	130_K	0.707	1.00
238_V	246_T	0.703	1.00
75_D	79_G	0.701	1.00
131_E	135_I	0.698	1.00
20_C	25_T	0.697	1.00
156_A	172_E	0.697	1.00
299_G	307_M	0.691	1.00
118_L	140_Y	0.691	1.00
172_E	176_I	0.691	1.00
71_L	168_K	0.690	1.00
183_V	187_A	0.688	1.00
309_K	312_K	0.684	1.00
56_K	117_D	0.683	1.00
150_E	153_K	0.680	1.00
86_P	91_K	0.680	1.00
163_F	166_E	0.679	1.00
216_I	308_I	0.674	1.00
298_G	303_S	0.671	1.00
74_D	91_K	0.669	1.00
72_G	168_K	0.667	1.00
153_K	180_I	0.664	1.00
191_N	194_G	0.664	1.00
298_G	301_L	0.663	1.00
74_D	96_K	0.662	1.00
71_L	156_A	0.662	1.00
256_R	291_S	0.660	1.00
255_D	288_Y	0.657	1.00
121_I	140_Y	0.656	1.00
76_I	163_F	0.656	1.00
39_V	50_V	0.656	1.00
136_A	139_I	0.651	1.00
254_I	289_L	0.651	1.00
119_I	135_I	0.647	1.00
14_A	18_S	0.645	1.00
69_D	77_V	0.643	1.00
18_S	21_G	0.640	1.00
251_L	275_V	0.638	1.00
176_I	179_S	0.636	1.00
186_T	189_K	0.636	1.00
264_S	268_Q	0.633	1.00
102_S	105_E	0.632	1.00
133_S	138_T	0.629	1.00
42_Q	158_T	0.628	1.00
239_S	242_Y	0.628	1.00
71_L	160_G	0.628	1.00
152_F	176_I	0.628	1.00
83_Q	87_K	0.626	1.00
244_S	248_P	0.626	1.00
266_T	269_V	0.624	1.00
157_E	166_E	0.623	1.00
153_K	176_I	0.622	1.00
184_K	220_F	0.620	1.00
54_P	163_F	0.618	1.00
197_I	206_A	0.618	1.00
59_V	64_S	0.617	1.00
19_A	23_Q	0.613	1.00
224_P	227_Q	0.612	1.00
108_F	135_I	0.610	1.00
50_V	118_L	0.608	1.00
64_S	159_I	0.608	1.00
119_I	132_F	0.607	1.00
197_I	251_L	0.606	1.00
23_Q	26_S	0.606	1.00
37_I	52_K	0.605	1.00
108_F	128_S	0.604	1.00
58_V	119_I	0.604	1.00
88_Y	92_F	0.601	1.00
57_V	76_I	0.599	1.00
109_D	112_A	0.599	1.00
58_V	100_V	0.595	1.00
58_V	116_P	0.595	1.00
68_L	159_I	0.595	1.00
70_K	302_E	0.594	1.00
61_D	64_S	0.594	1.00
53_N	117_D	0.594	1.00
191_N	195_L	0.592	1.00
87_K	92_F	0.591	1.00
208_G	214_G	0.590	1.00
12_V	18_S	0.590	1.00
72_G	75_D	0.589	1.00
222_V	250_Y	0.588	1.00
293_T	310_E	0.588	1.00
196_V	213_Y	0.584	1.00
173_L	176_I	0.582	1.00
50_V	162_I	0.581	1.00
156_A	173_L	0.580	1.00
272_N	275_V	0.579	1.00
209_P	228_N	0.577	1.00
207_F	211_S	0.574	1.00
308_I	312_K	0.574	1.00
71_L	169_V	0.572	1.00
210_K	233_T	0.571	1.00
212_R	215_L	0.568	1.00
251_L	254_I	0.566	1.00
240_Y	275_V	0.565	1.00
177_D	180_I	0.564	1.00
176_I	304_M	0.563	1.00
108_F	111_V	0.562	1.00
43_L	126_S	0.561	1.00
247_N	278_V	0.560	1.00
67_T	70_K	0.558	1.00
112_A	241_E	0.556	1.00
195_L	251_L	0.556	1.00
73_L	77_V	0.555	1.00
183_V	186_T	0.552	1.00
152_F	156_A	0.551	1.00
183_V	220_F	0.550	1.00
238_V	243_I	0.550	1.00
209_P	229_I	0.549	1.00
217_H	220_F	0.547	1.00
214_G	227_Q	0.547	1.00
109_D	239_S	0.547	1.00
243_I	246_T	0.546	1.00
72_G	165_K	0.546	1.00
187_A	220_F	0.545	1.00
266_T	288_Y	0.545	1.00
12_V	16_V	0.544	1.00
226_D	238_V	0.542	1.00
303_S	307_M	0.541	1.00
250_Y	254_I	0.541	1.00
244_S	274_Y	0.538	1.00
304_M	307_M	0.538	1.00
84_V	90_S	0.535	1.00
58_V	78_A	0.534	1.00
160_G	165_K	0.534	1.00
110_K	114_L	0.532	1.00
100_V	114_L	0.532	1.00
129_Y	139_I	0.531	1.00
294_W	307_M	0.530	1.00
86_P	92_F	0.529	1.00
83_Q	89_L	0.528	1.00
98_A	114_L	0.528	1.00
119_I	139_I	0.528	1.00
132_F	138_T	0.526	0.99
301_L	305_T	0.526	0.99
128_S	132_F	0.521	0.99
185_K	189_K	0.520	0.99
193_N	250_Y	0.517	0.99
19_A	22_N	0.517	0.99
127_E	131_E	0.517	0.99
205_S	235_G	0.517	0.99
195_L	200_N	0.515	0.99
85_L	91_K	0.515	0.99
35_E	53_N	0.510	0.99
150_E	177_D	0.509	0.99
184_K	187_A	0.507	0.99
20_C	26_S	0.507	0.99
153_K	219_V	0.506	0.99
60_F	121_I	0.505	0.99
113_E	245_K	0.504	0.99
60_F	106_P	0.504	0.99
157_E	169_V	0.503	0.99
229_I	236_Q	0.503	0.99
36_Q	50_V	0.502	0.99
220_F	308_I	0.502	0.99
194_G	252_F	0.501	0.99
132_F	135_I	0.501	0.99
69_D	97_Y	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
4n01A	1	0.8738	100	0.214	Contact Map
3gfvA	1	0.8927	100	0.234	Contact Map
4mlzA	1	0.8612	100	0.244	Contact Map
4hn9A	1	0.8738	100	0.258	Contact Map
4ovkA	1	0.8644	100	0.269	Contact Map
4mo9A	1	0.858	100	0.269	Contact Map
5a1jA	1	0.9054	100	0.27	Contact Map
4jccA	1	0.8864	100	0.272	Contact Map
4mx8A	1	0.8959	100	0.273	Contact Map
3tlkA	1	0.8517	100	0.277	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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