YKNZ - BACSU - GREMLIN Contacts

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YKNZ - Uncharacterized ABC transporter permease YknZ

UniProt:	O31712	Sequences: MSLLENIRMALSSVLAHKMRSILTMLGIIIGVGSVIVVVAVGQGGEQMLKQSISGPGNTVELYYMPSDEELASNPNAAAESTFTENDIKGLKGIEGIKQVVASTSESMKARYHEEETDATVNGINDGYMNVNSLKIESGRTFTDNDFLAGNRVGIISQKMAKELFDKTSPLGEVVWINGQPVEIIGVLKKVTGLLSFDLSEMYVPFNMMKSSFGTSDFSNVSLQVESADDIKSAGKEAAQLVNDNHGTEDSYQVMNMEEIAAGIGKVTAIMTTIIGSIAGISLLVGGIGVMNIMLVSVTERTREIGIRKSLGATRGQILTQFLIESVVLTLIGGLVGIGIGYGGAALVSAIAGWPSLISWQVVCGGVLFSMLIGVIFGMLPANKAAKLDPIEALRYE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	397 (357)
Sequences:	36529 (31326)
Seq/√Len:	1658.0

ECOLI - LOLE LOLC YBBP MACB FTSX
BACSU - YKNZ YVRN YTRF YCLI YXDM YVCS BCEB FTSX
HALSA - Q9HT02
SULSO - Q7LXM6 Q97Z54 Q97XD5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
174_V	181_P	3.566	1.00
158_Q	189_K	3.539	1.00
176_W	181_P	3.320	1.00
305_I	322_F	3.296	1.00
174_V	183_E	3.265	1.00
158_Q	162_K	2.961	1.00
153_V	183_E	2.720	1.00
153_V	185_I	2.652	1.00
170_P	173_E	2.622	1.00
389_D	392_E	2.593	1.00
161_A	187_V	2.551	1.00
84_T	87_D	2.549	1.00
301_R	325_E	2.545	1.00
154_G	202_M	2.484	1.00
169_S	173_E	2.471	1.00
235_G	239_A	2.406	1.00
334_G	367_V	2.364	1.00
15_L	18_K	2.331	1.00
135_K	189_K	2.331	1.00
309_K	315_R	2.299	1.00
314_T	317_Q	2.288	1.00
230_D	233_S	2.249	1.00
379_M	383_N	2.247	1.00
155_I	186_G	2.242	1.00
88_I	92_K	2.220	1.00
154_G	182_V	2.185	1.00
383_N	387_K	2.144	1.00
59_T	63_Y	2.123	1.00
326_S	378_G	2.078	1.00
89_K	92_K	2.031	1.00
156_I	161_A	2.002	1.00
155_I	188_L	2.001	1.00
330_T	374_G	1.982	1.00
98_K	226_E	1.962	1.00
337_G	341_G	1.943	1.00
233_S	237_E	1.917	1.00
96_G	226_E	1.913	1.00
256_N	259_E	1.908	1.00
29_I	336_V	1.894	1.00
359_S	362_V	1.893	1.00
25_M	29_I	1.854	1.00
136_I	141_T	1.824	1.00
36_I	341_G	1.806	1.00
160_M	164_L	1.802	1.00
140_R	185_I	1.799	1.00
152_R	208_M	1.788	1.00
85_E	89_K	1.783	1.00
96_G	237_E	1.783	1.00
169_S	184_I	1.780	1.00
207_N	210_K	1.736	1.00
90_G	93_G	1.736	1.00
89_K	93_G	1.735	1.00
319_L	383_N	1.735	1.00
138_S	169_S	1.725	1.00
205_P	208_M	1.725	1.00
301_R	304_E	1.718	1.00
154_G	204_V	1.713	1.00
60_V	64_Y	1.710	1.00
98_K	224_Q	1.653	1.00
87_D	90_G	1.637	1.00
182_V	208_M	1.626	1.00
237_E	240_Q	1.606	1.00
232_K	235_G	1.605	1.00
204_V	209_M	1.597	1.00
29_I	340_I	1.569	1.00
159_K	190_K	1.565	1.00
33_G	340_I	1.563	1.00
156_I	202_M	1.557	1.00
124_I	128_Y	1.556	1.00
236_K	239_A	1.553	1.00
47_Q	51_Q	1.547	1.00
154_G	175_V	1.537	1.00
317_Q	320_T	1.528	1.00
156_I	184_I	1.525	1.00
231_I	235_G	1.518	1.00
12_S	15_L	1.503	1.00
236_K	240_Q	1.500	1.00
156_I	160_M	1.499	1.00
25_M	333_G	1.497	1.00
155_I	185_I	1.485	1.00
86_N	90_G	1.478	1.00
171_L	187_V	1.466	1.00
225_V	234_A	1.455	1.00
157_S	188_L	1.455	1.00
159_K	162_K	1.454	1.00
137_E	158_Q	1.446	1.00
206_F	210_K	1.438	1.00
360_W	364_C	1.438	1.00
204_V	208_M	1.437	1.00
157_S	160_M	1.419	1.00
140_R	153_V	1.407	1.00
94_I	237_E	1.394	1.00
316_G	320_T	1.394	1.00
315_R	386_A	1.390	1.00
333_G	337_G	1.385	1.00
112_Y	115_E	1.383	1.00
237_E	241_L	1.379	1.00
152_R	180_Q	1.378	1.00
382_A	386_A	1.362	1.00
343_G	347_L	1.351	1.00
361_Q	365_G	1.346	1.00
377_F	381_P	1.337	1.00
14_V	21_S	1.336	1.00
20_R	300_E	1.331	1.00
43_Q	359_S	1.327	1.00
232_K	236_K	1.320	1.00
13_S	325_E	1.319	1.00
330_T	334_G	1.315	1.00
52_S	55_G	1.312	1.00
302_T	393_A	1.308	1.00
138_S	170_P	1.304	1.00
29_I	33_G	1.296	1.00
276_G	280_G	1.282	1.00
221_V	225_V	1.281	1.00
32_V	337_G	1.280	1.00
129_M	141_T	1.263	1.00
99_Q	224_Q	1.263	1.00
313_A	317_Q	1.263	1.00
83_F	87_D	1.262	1.00
305_I	318_I	1.256	1.00
137_E	189_K	1.254	1.00
86_N	89_K	1.246	1.00
141_T	155_I	1.241	1.00
262_A	266_K	1.234	1.00
343_G	346_A	1.230	1.00
85_E	88_I	1.222	1.00
103_S	220_N	1.220	1.00
142_F	185_I	1.210	1.00
28_I	333_G	1.210	1.00
304_E	308_R	1.202	1.00
339_G	343_G	1.192	1.00
47_Q	357_L	1.190	1.00
33_G	344_G	1.183	1.00
40_A	345_A	1.182	1.00
306_G	310_S	1.179	1.00
142_F	153_V	1.179	1.00
157_S	200_S	1.171	1.00
227_S	230_D	1.161	1.00
302_T	388_L	1.161	1.00
10_A	324_I	1.160	1.00
94_I	241_L	1.159	1.00
308_R	313_A	1.156	1.00
164_L	169_S	1.155	1.00
159_K	163_E	1.153	1.00
142_F	155_I	1.152	1.00
127_G	130_N	1.152	1.00
320_T	324_I	1.151	1.00
287_G	377_F	1.150	1.00
96_G	234_A	1.148	1.00
33_G	341_G	1.147	1.00
335_L	339_G	1.146	1.00
136_I	186_G	1.143	1.00
61_E	64_Y	1.133	1.00
165_F	169_S	1.130	1.00
19_M	22_I	1.120	1.00
341_G	345_A	1.120	1.00
33_G	337_G	1.120	1.00
171_L	185_I	1.120	1.00
306_G	393_A	1.116	1.00
140_R	143_T	1.113	1.00
384_K	387_K	1.113	1.00
364_C	368_L	1.112	1.00
239_A	243_N	1.105	1.00
51_Q	54_S	1.104	1.00
97_I	100_V	1.104	1.00
308_R	321_Q	1.104	1.00
158_Q	190_K	1.099	1.00
46_E	50_K	1.096	1.00
221_V	224_Q	1.095	1.00
51_Q	55_G	1.094	1.00
36_I	366_G	1.079	1.00
156_I	187_V	1.067	1.00
31_G	279_A	1.067	1.00
357_L	360_W	1.060	1.00
21_S	329_L	1.055	1.00
47_Q	50_K	1.052	1.00
255_M	260_I	1.052	1.00
273_T	277_S	1.050	1.00
209_M	213_F	1.035	1.00
294_M	326_S	1.034	1.00
165_F	170_P	1.030	1.00
43_Q	46_E	1.029	1.00
94_I	97_I	1.028	1.00
200_S	203_Y	1.024	1.00
17_H	300_E	1.023	1.00
383_N	386_A	1.023	1.00
201_E	204_V	1.021	1.00
336_V	339_G	1.021	1.00
46_E	272_T	1.020	1.00
347_L	350_A	1.018	1.00
238_A	241_L	1.017	1.00
233_S	236_K	1.016	1.00
87_D	91_L	1.013	1.00
43_Q	362_V	1.010	1.00
334_G	370_S	1.005	1.00
11_L	15_L	0.989	1.00
225_V	231_I	0.987	1.00
240_Q	243_N	0.986	1.00
43_Q	47_Q	0.982	1.00
361_Q	364_C	0.980	1.00
90_G	241_L	0.978	1.00
176_W	179_G	0.975	1.00
347_L	351_I	0.973	1.00
330_T	370_S	0.966	1.00
58_N	61_E	0.964	1.00
48_M	52_S	0.957	1.00
22_I	26_L	0.957	1.00
388_L	392_E	0.955	1.00
138_S	171_L	0.951	1.00
346_A	350_A	0.943	1.00
25_M	332_I	0.943	1.00
225_V	228_A	0.941	1.00
234_A	237_E	0.939	1.00
282_S	289_G	0.938	1.00
94_I	234_A	0.937	1.00
338_I	363_V	0.937	1.00
319_L	379_M	0.936	1.00
269_A	273_T	0.932	1.00
58_N	65_M	0.931	1.00
99_Q	131_V	0.929	1.00
358_I	363_V	0.928	1.00
235_G	256_N	0.921	1.00
25_M	336_V	0.915	1.00
291_M	295_L	0.915	1.00
208_M	211_S	0.907	1.00
265_G	269_A	0.907	1.00
327_V	375_V	0.905	1.00
301_R	322_F	0.904	1.00
384_K	388_L	0.902	1.00
29_I	32_V	0.899	1.00
229_D	233_S	0.898	1.00
382_A	385_A	0.898	1.00
92_K	100_V	0.893	1.00
287_G	373_I	0.885	1.00
157_S	190_K	0.885	1.00
58_N	63_Y	0.885	1.00
100_V	103_S	0.884	1.00
50_K	54_S	0.879	1.00
255_M	259_E	0.875	1.00
28_I	32_V	0.874	1.00
266_K	269_A	0.872	1.00
243_N	250_D	0.864	1.00
370_S	374_G	0.863	1.00
326_S	330_T	0.860	1.00
302_T	306_G	0.860	1.00
257_M	260_I	0.858	1.00
268_T	272_T	0.854	1.00
339_G	342_Y	0.852	1.00
380_L	383_N	0.850	1.00
27_G	31_G	0.850	1.00
313_A	318_I	0.848	1.00
17_H	20_R	0.842	1.00
188_L	192_T	0.836	1.00
27_G	289_G	0.831	1.00
32_V	370_S	0.830	1.00
40_A	44_G	0.827	1.00
234_A	238_A	0.826	1.00
88_I	102_A	0.824	1.00
201_E	205_P	0.823	1.00
88_I	91_L	0.822	1.00
309_K	390_P	0.816	1.00
200_S	205_P	0.816	1.00
315_R	387_K	0.815	1.00
315_R	319_L	0.815	1.00
261_A	265_G	0.814	1.00
130_N	141_T	0.814	1.00
103_S	222_S	0.813	1.00
157_S	201_E	0.811	1.00
345_A	356_S	0.810	1.00
29_I	333_G	0.807	1.00
138_S	187_V	0.801	1.00
231_I	234_A	0.801	1.00
345_A	349_S	0.800	1.00
263_G	266_K	0.794	1.00
388_L	393_A	0.793	1.00
102_A	125_N	0.793	1.00
101_V	125_N	0.793	1.00
390_P	393_A	0.791	1.00
365_G	368_L	0.790	1.00
84_T	88_I	0.788	1.00
366_G	370_S	0.787	1.00
368_L	372_L	0.783	1.00
226_E	230_D	0.782	1.00
338_I	367_V	0.779	1.00
391_I	394_L	0.771	1.00
60_V	63_Y	0.770	1.00
170_P	187_V	0.769	1.00
235_G	241_L	0.767	1.00
323_L	375_V	0.761	1.00
61_E	65_M	0.761	1.00
117_T	163_E	0.760	1.00
134_L	188_L	0.760	1.00
35_V	39_V	0.760	1.00
292_N	296_V	0.759	1.00
37_V	344_G	0.751	1.00
309_K	318_I	0.751	1.00
327_V	374_G	0.749	1.00
59_T	65_M	0.748	1.00
319_L	382_A	0.748	1.00
229_D	234_A	0.747	1.00
319_L	386_A	0.746	1.00
136_I	188_L	0.744	1.00
125_N	128_Y	0.742	1.00
372_L	376_I	0.742	1.00
158_Q	161_A	0.740	1.00
123_G	209_M	0.738	1.00
342_Y	358_I	0.737	1.00
156_I	175_V	0.731	1.00
99_Q	130_N	0.731	1.00
363_V	367_V	0.731	1.00
177_I	182_V	0.730	1.00
298_V	305_I	0.729	1.00
83_F	86_N	0.728	1.00
171_L	186_G	0.726	1.00
48_M	51_Q	0.722	1.00
209_M	212_S	0.721	1.00
125_N	206_F	0.721	1.00
299_T	302_T	0.720	1.00
334_G	338_I	0.719	1.00
324_I	327_V	0.719	1.00
291_M	377_F	0.717	1.00
58_N	62_L	0.717	1.00
303_R	307_I	0.715	1.00
165_F	173_E	0.713	1.00
334_G	374_G	0.710	1.00
280_G	284_L	0.709	1.00
234_A	241_L	0.708	1.00
13_S	301_R	0.704	1.00
297_S	301_R	0.702	1.00
362_V	365_G	0.701	1.00
203_Y	206_F	0.701	1.00
180_Q	211_S	0.701	1.00
369_F	372_L	0.698	1.00
98_K	101_V	0.698	1.00
119_A	160_M	0.698	1.00
332_I	335_L	0.698	1.00
19_M	23_L	0.697	1.00
226_E	229_D	0.696	1.00
380_L	384_K	0.696	1.00
324_I	328_V	0.694	1.00
54_S	57_G	0.690	1.00
175_V	182_V	0.690	1.00
120_T	123_G	0.688	1.00
108_M	121_V	0.687	1.00
214_G	217_D	0.685	1.00
340_I	343_G	0.684	1.00
222_S	225_V	0.683	1.00
109_K	112_Y	0.683	1.00
58_N	64_Y	0.680	1.00
88_I	100_V	0.680	1.00
100_V	223_L	0.679	1.00
270_I	274_I	0.679	1.00
156_I	169_S	0.679	1.00
346_A	356_S	0.675	1.00
297_S	325_E	0.674	1.00
121_V	204_V	0.674	1.00
18_K	22_I	0.673	1.00
119_A	202_M	0.673	1.00
98_K	102_A	0.673	1.00
362_V	366_G	0.673	1.00
53_I	57_G	0.672	1.00
91_L	238_A	0.671	1.00
367_V	371_M	0.671	1.00
97_I	223_L	0.670	1.00
24_T	293_I	0.669	1.00
279_A	283_L	0.669	1.00
251_S	254_V	0.668	1.00
218_F	221_V	0.668	1.00
121_V	202_M	0.666	1.00
378_G	382_A	0.666	1.00
9_M	13_S	0.666	1.00
286_G	289_G	0.665	1.00
13_S	304_E	0.664	1.00
206_F	209_M	0.664	1.00
42_G	272_T	0.660	1.00
131_V	224_Q	0.660	1.00
220_N	223_L	0.660	1.00
142_F	145_N	0.660	1.00
152_R	183_E	0.659	1.00
53_I	56_P	0.657	1.00
259_E	262_A	0.657	1.00
63_Y	255_M	0.656	1.00
365_G	369_F	0.654	1.00
342_Y	346_A	0.654	1.00
307_I	310_S	0.652	1.00
157_S	199_L	0.651	1.00
289_G	292_N	0.649	1.00
132_N	135_K	0.648	1.00
326_S	374_G	0.646	1.00
306_G	390_P	0.646	1.00
24_T	27_G	0.644	1.00
182_V	204_V	0.643	1.00
381_P	385_A	0.643	1.00
9_M	321_Q	0.641	1.00
23_L	27_G	0.641	1.00
172_G	183_E	0.640	1.00
326_S	381_P	0.640	1.00
136_I	155_I	0.638	1.00
369_F	373_I	0.637	1.00
28_I	290_V	0.637	1.00
109_K	116_E	0.635	1.00
294_M	297_S	0.635	1.00
9_M	308_R	0.635	1.00
102_A	218_F	0.632	1.00
169_S	175_V	0.628	1.00
27_G	292_N	0.628	1.00
254_V	257_M	0.626	1.00
331_L	371_M	0.625	1.00
127_G	131_V	0.625	1.00
298_V	385_A	0.621	1.00
235_G	259_E	0.621	1.00
88_I	221_V	0.621	1.00
92_K	95_E	0.620	1.00
262_A	265_G	0.618	1.00
145_N	152_R	0.618	1.00
111_R	115_E	0.617	1.00
239_A	254_V	0.617	1.00
357_L	361_Q	0.616	1.00
220_N	224_Q	0.615	1.00
334_G	371_M	0.615	1.00
49_L	52_S	0.614	1.00
140_R	144_D	0.614	1.00
101_V	104_T	0.611	1.00
60_V	235_G	0.610	1.00
136_I	140_R	0.610	1.00
141_T	145_N	0.610	1.00
154_G	184_I	0.609	1.00
158_Q	187_V	0.608	1.00
330_T	378_G	0.607	1.00
110_A	113_H	0.607	1.00
258_E	262_A	0.606	1.00
293_I	297_S	0.606	1.00
298_V	322_F	0.605	1.00
111_R	114_E	0.604	1.00
31_G	289_G	0.603	1.00
60_V	225_V	0.603	1.00
225_V	229_D	0.602	1.00
266_K	270_I	0.602	1.00
99_Q	102_A	0.600	1.00
137_E	188_L	0.599	1.00
325_E	328_V	0.599	1.00
253_Q	256_N	0.597	1.00
307_I	311_L	0.596	1.00
321_Q	324_I	0.596	1.00
348_V	352_A	0.595	1.00
219_S	223_L	0.595	1.00
342_Y	363_V	0.595	1.00
360_W	363_V	0.594	1.00
238_A	242_V	0.591	1.00
49_L	53_I	0.590	1.00
235_G	254_V	0.589	1.00
37_V	341_G	0.588	1.00
326_S	382_A	0.588	1.00
59_T	224_Q	0.585	1.00
346_A	349_S	0.584	1.00
184_I	187_V	0.582	1.00
381_P	386_A	0.581	1.00
323_L	379_M	0.580	1.00
10_A	321_Q	0.578	1.00
373_I	377_F	0.575	1.00
104_T	209_M	0.575	1.00
139_G	142_F	0.575	1.00
103_S	106_E	0.575	1.00
304_E	307_I	0.574	1.00
282_S	286_G	0.574	1.00
161_A	170_P	0.574	1.00
136_I	189_K	0.572	1.00
46_E	49_L	0.572	1.00
138_S	161_A	0.570	1.00
151_N	183_E	0.569	1.00
90_G	94_I	0.569	1.00
188_L	203_Y	0.567	1.00
299_T	384_K	0.567	1.00
285_V	289_G	0.567	1.00
252_Y	255_M	0.567	1.00
272_T	276_G	0.565	1.00
33_G	37_V	0.565	1.00
29_I	337_G	0.564	1.00
188_L	191_V	0.563	1.00
348_V	351_I	0.561	1.00
121_V	124_I	0.561	1.00
358_I	362_V	0.561	1.00
294_M	378_G	0.560	1.00
319_L	323_L	0.556	1.00
123_G	126_D	0.556	1.00
36_I	40_A	0.554	1.00
161_A	169_S	0.552	1.00
18_K	21_S	0.551	1.00
268_T	271_M	0.550	1.00
11_L	328_V	0.549	1.00
225_V	230_D	0.548	1.00
322_F	326_S	0.547	1.00
302_T	384_K	0.546	1.00
113_H	116_E	0.542	1.00
104_T	107_S	0.540	1.00
199_L	204_V	0.539	1.00
304_E	321_Q	0.539	1.00
110_A	119_A	0.539	1.00
111_R	176_W	0.537	1.00
92_K	99_Q	0.534	1.00
152_R	182_V	0.533	1.00
274_I	278_I	0.533	1.00
310_S	390_P	0.532	1.00
161_A	184_I	0.532	1.00
24_T	28_I	0.531	1.00
304_E	325_E	0.531	1.00
95_E	98_K	0.530	1.00
59_T	64_Y	0.529	1.00
132_N	222_S	0.529	1.00
128_Y	131_V	0.528	1.00
129_M	134_L	0.528	1.00
31_G	34_S	0.526	1.00
36_I	337_G	0.526	1.00
155_I	203_Y	0.523	1.00
39_V	43_Q	0.523	1.00
287_G	291_M	0.518	1.00
227_S	231_I	0.518	1.00
99_Q	127_G	0.518	1.00
374_G	377_F	0.517	1.00
171_L	184_I	0.513	1.00
40_A	341_G	0.512	1.00
309_K	393_A	0.511	1.00
123_G	206_F	0.510	1.00
323_L	327_V	0.508	1.00
43_Q	361_Q	0.508	1.00
376_I	380_L	0.507	1.00
143_T	185_I	0.506	1.00
202_M	205_P	0.505	1.00
162_K	190_K	0.504	1.00
126_D	129_M	0.504	1.00
199_L	202_M	0.504	1.00
35_V	366_G	0.504	1.00
111_R	116_E	0.504	1.00
271_M	275_I	0.503	1.00
326_S	377_F	0.503	1.00
286_G	370_S	0.500	1.00

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
3ftjA	1	0.5315	99.6	0.693	Contact Map
3is6A	2	0.5491	99.2	0.748	Contact Map
4av3A	2	0.272	29.5	0.939	Contact Map
4k0jA	3	0.8539	26.1	0.94	Contact Map
4mt1A	3	0.8287	16.1	0.946	Contact Map
2kogA	1	0.1033	15.8	0.946	Contact Map
3w9iA	3	0.806	15.4	0.946	Contact Map
3ne5A	3	0.8665	14.5	0.947	Contact Map
4pl0A	2	0.2418	13.4	0.948	Contact Map
4dx5A	3	0.8615	9.2	0.951	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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