YOAV - BACSU - GREMLIN Contacts

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YOAV - Uncharacterized transporter YoaV

UniProt:	O34416	Sequences: MVKVMLGIISVTLIWGYTWVAMKVGIHDIPPLLFSGLRLFIGAVPLFLILFIQRKKLSIQKEHLKSYIIMSLLMGLGYMGILTYGMQFVDSGKTSVLVYTMPIFVTVISHFSLNEKMNVYKTMGLVCGLFGLLFIFGKEMLNIDQSALFGELCVLVAALSWGIANVFSKLQFKHIDIIHMNAWHLMMGAVMLLVFSFIFEAVPSAEWTYQAVWSLLFNGLLSTGFTFVVWFWVLNQIQASKASMALMFVPVLALFFGWLQLHEQITINIILGALLICCGIFMNTFTFSRRKV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	292 (274)
Sequences:	37878 (28095)
Seq/√Len:	1697.3

ECOLI - YTFF YIJE YICL YHBE YDDG EAMA YEDA RARD RHTA YIGM
BACSU - YOAV YDEK YCBK YETK YCXC YDFC YVBV YDED YWFM YBFH YYAM YXXF YRDR YOJE
HALSA - Q9HHP6 Q9HQ34 Q9HPI0
SULSO - Q97UX3 Q97X73 Q97UE8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
85_G	154_V	3.522	1.00
7_G	232_W	2.941	1.00
93_K	151_E	2.897	1.00
232_W	236_Q	2.747	1.00
257_G	263_E	2.712	1.00
84_Y	153_C	2.580	1.00
43_A	186_M	2.527	1.00
81_I	156_V	2.489	1.00
124_G	279_G	2.474	1.00
36_G	193_L	2.407	1.00
21_A	217_F	2.382	1.00
104_F	158_A	2.304	1.00
232_W	235_N	2.287	1.00
60_Q	63_H	2.254	1.00
108_I	166_V	2.181	1.00
115_E	169_K	2.164	1.00
23_K	263_E	2.122	1.00
81_I	153_C	2.117	1.00
16_G	252_L	2.105	1.00
95_S	253_A	2.048	1.00
22_M	83_T	1.999	1.00
110_H	117_M	1.995	1.00
40_F	189_A	1.961	1.00
41_I	219_G	1.957	1.00
8_I	233_V	1.947	1.00
89_V	151_E	1.876	1.00
109_S	115_E	1.870	1.00
77_G	160_S	1.861	1.00
105_V	243_S	1.818	1.00
106_T	125_L	1.810	1.00
219_G	224_G	1.804	1.00
152_L	156_V	1.798	1.00
47_F	182_A	1.792	1.00
100_T	104_F	1.759	1.00
89_V	150_G	1.754	1.00
63_H	174_H	1.728	1.00
16_G	256_F	1.725	1.00
118_N	121_K	1.704	1.00
190_V	194_V	1.673	1.00
81_I	160_S	1.662	1.00
88_F	149_F	1.643	1.00
43_A	189_A	1.643	1.00
48_L	51_F	1.628	1.00
209_Y	213_W	1.626	1.00
128_G	247_M	1.621	1.00
194_V	197_F	1.617	1.00
13_L	252_L	1.608	1.00
176_D	179_H	1.601	1.00
238_Q	241_K	1.601	1.00
17_Y	217_F	1.593	1.00
29_I	211_A	1.584	1.00
104_F	162_G	1.565	1.00
266_T	269_I	1.540	1.00
94_T	154_V	1.521	1.00
84_Y	88_F	1.478	1.00
148_L	151_E	1.472	1.00
11_V	233_V	1.470	1.00
108_I	112_S	1.430	1.00
36_G	189_A	1.429	1.00
104_F	159_L	1.429	1.00
124_G	283_N	1.425	1.00
47_F	51_F	1.406	1.00
62_E	66_S	1.402	1.00
267_I	271_L	1.394	1.00
168_S	231_F	1.375	1.00
256_F	260_Q	1.370	1.00
28_D	211_A	1.358	1.00
89_V	93_K	1.353	1.00
91_S	257_G	1.353	1.00
44_V	48_L	1.351	1.00
270_I	274_L	1.342	1.00
88_F	153_C	1.341	1.00
134_F	275_L	1.336	1.00
42_G	185_L	1.336	1.00
208_T	211_A	1.334	1.00
109_S	113_L	1.328	1.00
62_E	65_K	1.322	1.00
48_L	52_I	1.320	1.00
45_P	224_G	1.318	1.00
15_W	226_T	1.312	1.00
25_G	34_F	1.309	1.00
210_Q	213_W	1.291	1.00
7_G	229_V	1.285	1.00
252_L	256_F	1.265	1.00
61_K	65_K	1.265	1.00
84_Y	87_Q	1.261	1.00
162_G	166_V	1.259	1.00
61_K	64_L	1.256	1.00
20_V	256_F	1.255	1.00
68_I	71_S	1.255	1.00
108_I	163_I	1.254	1.00
119_V	123_M	1.254	1.00
131_G	272_G	1.250	1.00
24_V	214_S	1.247	1.00
274_L	278_C	1.246	1.00
96_V	273_A	1.245	1.00
90_D	93_K	1.244	1.00
134_F	268_N	1.237	1.00
34_F	218_N	1.235	1.00
128_G	279_G	1.232	1.00
122_T	126_V	1.230	1.00
92_G	254_L	1.221	1.00
265_I	270_I	1.219	1.00
120_Y	282_M	1.212	1.00
126_V	130_F	1.211	1.00
248_F	252_L	1.206	1.00
14_I	221_L	1.203	1.00
148_L	152_L	1.200	1.00
65_K	69_I	1.196	1.00
191_M	194_V	1.190	1.00
30_P	33_L	1.187	1.00
49_I	53_Q	1.174	1.00
210_Q	214_S	1.174	1.00
6_L	10_S	1.163	1.00
124_G	282_M	1.161	1.00
213_W	217_F	1.143	1.00
86_M	94_T	1.141	1.00
169_K	238_Q	1.139	1.00
23_K	27_H	1.136	1.00
105_V	239_A	1.117	1.00
88_F	150_G	1.114	1.00
21_A	214_S	1.113	1.00
11_V	229_V	1.108	1.00
135_I	272_G	1.108	1.00
43_A	182_A	1.106	1.00
36_G	40_F	1.101	1.00
36_G	196_S	1.099	1.00
38_R	223_T	1.097	1.00
66_S	167_F	1.097	1.00
65_K	68_I	1.091	1.00
113_L	166_V	1.091	1.00
206_E	209_Y	1.091	1.00
17_Y	256_F	1.090	1.00
234_L	242_A	1.087	1.00
10_S	229_V	1.079	1.00
115_E	121_K	1.076	1.00
68_I	187_M	1.076	1.00
117_M	122_T	1.072	1.00
76_L	191_M	1.071	1.00
88_F	147_A	1.070	1.00
32_L	195_F	1.066	1.00
66_S	70_M	1.061	1.00
35_S	83_T	1.059	1.00
63_H	66_S	1.055	1.00
119_V	122_T	1.049	1.00
131_G	276_I	1.047	1.00
170_L	173_K	1.044	1.00
91_S	261_L	1.043	1.00
149_F	153_C	1.043	1.00
15_W	230_W	1.042	1.00
11_V	15_W	1.040	1.00
22_M	86_M	1.034	1.00
97_L	158_A	1.033	1.00
31_P	35_S	1.032	1.00
108_I	162_G	1.032	1.00
89_V	154_V	1.019	1.00
14_I	229_V	1.016	1.00
110_H	116_K	1.016	1.00
72_L	191_M	1.012	1.00
105_V	165_N	1.010	1.00
100_T	132_L	1.008	1.00
194_V	198_I	1.002	1.00
195_F	199_F	1.000	1.00
25_G	211_A	0.999	1.00
76_L	192_L	0.993	1.00
108_I	159_L	0.993	1.00
169_K	239_A	0.992	1.00
106_T	117_M	0.985	1.00
20_V	260_Q	0.968	1.00
82_L	86_M	0.964	1.00
137_G	266_T	0.962	1.00
149_F	152_L	0.960	1.00
209_Y	212_V	0.959	1.00
195_F	198_I	0.959	1.00
267_I	270_I	0.956	1.00
74_M	164_A	0.947	1.00
213_W	216_L	0.946	1.00
97_L	154_V	0.945	1.00
234_L	238_Q	0.939	1.00
97_L	151_E	0.933	1.00
55_K	176_D	0.931	1.00
111_F	114_N	0.928	1.00
127_C	279_G	0.927	1.00
116_K	120_Y	0.924	1.00
237_I	242_A	0.923	1.00
212_V	216_L	0.923	1.00
25_G	214_S	0.921	1.00
158_A	162_G	0.918	1.00
32_L	80_G	0.913	1.00
108_I	111_F	0.912	1.00
238_Q	242_A	0.902	1.00
118_N	122_T	0.901	1.00
40_F	193_L	0.900	1.00
150_G	154_V	0.896	1.00
63_H	175_I	0.894	1.00
216_L	219_G	0.887	1.00
105_V	162_G	0.884	1.00
205_A	208_T	0.879	1.00
69_I	167_F	0.873	1.00
33_L	196_S	0.872	1.00
237_I	241_K	0.862	1.00
67_Y	71_S	0.861	1.00
91_S	263_E	0.861	1.00
130_F	134_F	0.858	1.00
68_I	72_L	0.857	1.00
12_T	16_G	0.856	1.00
96_V	133_L	0.855	1.00
71_S	187_M	0.843	1.00
132_L	136_F	0.841	1.00
45_P	220_L	0.841	1.00
116_K	119_V	0.841	1.00
70_M	74_M	0.839	1.00
233_V	242_A	0.833	1.00
39_L	188_G	0.833	1.00
130_F	275_L	0.823	1.00
20_V	257_G	0.822	1.00
71_S	74_M	0.819	1.00
80_G	84_Y	0.814	1.00
251_V	273_A	0.813	1.00
258_W	265_I	0.812	1.00
66_S	171_Q	0.810	1.00
69_I	72_L	0.809	1.00
51_F	56_K	0.807	1.00
254_L	265_I	0.801	1.00
64_L	187_M	0.799	1.00
110_H	114_N	0.794	1.00
51_F	54_R	0.792	1.00
145_Q	148_L	0.791	1.00
35_S	192_L	0.789	1.00
186_M	190_V	0.784	1.00
163_I	167_F	0.783	1.00
12_T	252_L	0.780	1.00
73_L	160_S	0.780	1.00
268_N	271_L	0.780	1.00
64_L	68_I	0.779	1.00
47_F	186_M	0.778	1.00
187_M	190_V	0.778	1.00
9_I	252_L	0.774	1.00
134_F	271_L	0.771	1.00
147_A	151_E	0.770	1.00
107_V	111_F	0.769	1.00
103_I	128_G	0.765	1.00
161_W	165_N	0.764	1.00
123_M	127_C	0.763	1.00
78_Y	160_S	0.759	1.00
248_F	251_V	0.759	1.00
271_L	275_L	0.757	1.00
51_F	55_K	0.754	1.00
197_F	200_E	0.753	1.00
104_F	155_L	0.753	1.00
43_A	47_F	0.750	1.00
33_L	37_L	0.748	1.00
76_L	80_G	0.748	1.00
46_L	224_G	0.745	1.00
40_F	44_V	0.745	1.00
154_V	158_A	0.742	1.00
273_A	277_C	0.741	1.00
106_T	121_K	0.741	1.00
170_L	174_H	0.739	1.00
182_A	186_M	0.738	1.00
169_K	173_K	0.735	1.00
214_S	217_F	0.735	1.00
12_T	248_F	0.731	1.00
20_V	91_S	0.727	1.00
133_L	137_G	0.720	1.00
254_L	273_A	0.719	1.00
225_F	229_V	0.717	1.00
8_I	245_A	0.716	1.00
77_G	81_I	0.716	1.00
50_L	182_A	0.713	1.00
66_S	170_L	0.713	1.00
211_A	214_S	0.711	1.00
279_G	283_N	0.707	1.00
64_L	67_Y	0.701	1.00
37_L	41_I	0.701	1.00
257_G	261_L	0.700	1.00
117_M	121_K	0.700	1.00
181_N	184_H	0.696	1.00
60_Q	64_L	0.694	1.00
22_M	26_I	0.693	1.00
45_P	48_L	0.692	1.00
8_I	237_I	0.691	1.00
187_M	191_M	0.690	1.00
183_W	187_M	0.687	1.00
28_D	208_T	0.687	1.00
278_C	282_M	0.685	1.00
85_G	94_T	0.682	1.00
258_W	264_Q	0.679	1.00
215_L	219_G	0.679	1.00
78_Y	164_A	0.678	1.00
221_L	225_F	0.677	1.00
216_L	220_L	0.675	1.00
105_V	166_V	0.674	1.00
265_I	269_I	0.668	1.00
82_L	94_T	0.667	1.00
67_Y	70_M	0.667	1.00
19_W	82_L	0.666	1.00
127_C	282_M	0.665	1.00
100_T	103_I	0.665	1.00
89_V	94_T	0.662	1.00
179_H	183_W	0.662	1.00
24_V	261_L	0.661	1.00
189_A	193_L	0.660	1.00
217_F	221_L	0.660	1.00
49_I	178_I	0.659	1.00
67_Y	175_I	0.658	1.00
97_L	155_L	0.657	1.00
131_G	279_G	0.647	1.00
228_V	232_W	0.647	1.00
161_W	230_W	0.646	1.00
29_I	34_F	0.642	1.00
175_I	180_M	0.639	1.00
73_L	163_I	0.639	1.00
115_E	240_S	0.635	1.00
102_P	247_M	0.629	1.00
99_Y	132_L	0.629	1.00
204_S	207_W	0.628	1.00
52_I	56_K	0.626	1.00
186_M	189_A	0.623	1.00
181_N	231_F	0.622	1.00
113_L	169_K	0.621	1.00
18_T	222_S	0.614	1.00
19_W	95_S	0.613	1.00
112_S	163_I	0.612	1.00
41_I	45_P	0.607	1.00
190_V	193_L	0.606	1.00
14_I	226_T	0.606	1.00
66_S	69_I	0.602	1.00
137_G	140_M	0.599	1.00
81_I	157_A	0.598	1.00
106_T	110_H	0.595	1.00
183_W	186_M	0.594	1.00
264_Q	268_N	0.594	1.00
71_S	76_L	0.592	1.00
153_C	156_V	0.592	1.00
45_P	219_G	0.590	1.00
269_I	273_A	0.588	1.00
82_L	157_A	0.585	1.00
85_G	150_G	0.581	1.00
121_K	238_Q	0.580	1.00
17_Y	222_S	0.578	1.00
42_G	224_G	0.575	1.00
205_A	209_Y	0.573	1.00
247_M	280_I	0.573	1.00
266_T	270_I	0.572	1.00
146_S	149_F	0.572	1.00
76_L	195_F	0.571	1.00
196_S	200_E	0.569	1.00
201_A	204_S	0.568	1.00
280_I	283_N	0.568	1.00
254_L	258_W	0.566	1.00
99_Y	158_A	0.566	1.00
164_A	231_F	0.563	1.00
49_I	52_I	0.562	1.00
207_W	212_V	0.561	1.00
208_T	212_V	0.560	1.00
30_P	200_E	0.560	1.00
255_F	258_W	0.559	1.00
165_N	230_W	0.559	1.00
83_T	87_Q	0.558	1.00
26_I	86_M	0.555	1.00
67_Y	180_M	0.553	1.00
255_F	259_L	0.551	1.00
12_T	249_V	0.549	1.00
100_T	158_A	0.549	1.00
35_S	80_G	0.548	1.00
244_M	283_N	0.546	1.00
9_I	12_T	0.546	1.00
96_V	135_I	0.545	1.00
165_N	243_S	0.545	1.00
136_F	151_E	0.545	1.00
99_Y	102_P	0.543	1.00
229_V	232_W	0.542	1.00
95_S	99_Y	0.536	1.00
10_S	14_I	0.530	1.00
96_V	136_F	0.530	1.00
19_W	23_K	0.528	1.00
258_W	270_I	0.525	1.00
188_G	192_L	0.525	1.00
16_G	253_A	0.524	1.00
18_T	83_T	0.523	1.00
68_I	191_M	0.523	1.00
123_M	130_F	0.523	1.00
256_F	259_L	0.523	1.00
264_Q	269_I	0.520	1.00
60_Q	65_K	0.519	1.00
44_V	47_F	0.519	1.00
233_V	237_I	0.518	1.00
107_V	125_L	0.517	1.00
113_L	170_L	0.516	1.00
145_Q	149_F	0.515	1.00
159_L	163_I	0.515	1.00
164_A	184_H	0.514	1.00
246_L	249_V	0.512	1.00
63_H	67_Y	0.512	1.00
16_G	249_V	0.511	1.00
35_S	39_L	0.510	1.00
80_G	192_L	0.509	1.00
14_I	222_S	0.508	1.00
277_C	281_F	0.507	1.00
85_G	89_V	0.506	1.00
191_M	195_F	0.506	1.00
181_N	185_L	0.505	1.00
109_S	240_S	0.504	1.00
32_L	199_F	0.504	1.00
53_Q	56_K	0.503	1.00
8_I	230_W	0.502	1.00
103_I	125_L	0.501	1.00
50_L	179_H	0.501	1.00
270_I	273_A	0.501	1.00
29_I	33_L	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
2i68A	2	0.2637	98.7	0.76	Contact Map
3b5dA	2	0.3459	98.4	0.778	Contact Map
1u7gA	3	0.7945	29.8	0.928	Contact Map
1pw4A	1	0.9623	8.5	0.944	Contact Map
4xnjA	1	0.7466	6.5	0.947	Contact Map
4j05A	3	0.9418	6.5	0.947	Contact Map
3wdoA	1	0.7671	5.3	0.949	Contact Map
4pgrA	1	0.6575	5.3	0.949	Contact Map
3j01B	1	0.1918	4.9	0.95	Contact Map
2gfpA	2	0.7671	4.9	0.95	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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