YKUT - BACSU - GREMLIN Contacts

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YKUT - Uncharacterized MscS family protein YkuT

UniProt:	O34897	Sequences: MDFIKQYDWAGLITNAGVLLIKLAIMILLYFIVRSLGMKIIKHLFAKFEEQNSLSIGRAHTLRSLTLNIFAYTLIFIFFVMVLDLFHYDPSALLAGAGIVGLAVGFGAQGLVSDIVTGFFILLEKQLDVGDYITVSTFDGIVEQVGLRTTQIRSFDGTLHYIPNRNITNVSNHSRGTMQALVDIKVPAERNIDEMIHILQQVCDETAAALPQIKEGPNVIGIQELGTSEIVIRVIAKTENMEQWRVERVLRKEIKNAFDRAFPKETE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	267 (240)
Sequences:	11522 (8482)
Seq/√Len:	547.5

ECOLI - YBIO MSCS YNAI MSCM MSCK YBDG
BACSU - YKUT YFKC YHDY
HALSA - Q9HQH2 Q9HNG6 Q9HQ04
SULSO - Q97V08 Q97V66 Q7LXV0 Q97V46

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
255_K	259_D	3.781	1.00
193_D	256_N	3.422	1.00
134_T	139_D	3.385	1.00
143_E	153_R	3.141	1.00
196_I	252_K	3.093	1.00
224_E	231_V	2.967	1.00
257_A	260_R	2.782	1.00
200_Q	204_D	2.765	1.00
257_A	261_A	2.711	1.00
194_E	261_A	2.626	1.00
132_Y	139_D	2.495	1.00
191_N	194_E	2.448	1.00
226_G	231_V	2.404	1.00
197_H	201_Q	2.377	1.00
185_K	229_E	2.373	1.00
206_T	249_V	2.365	1.00
201_Q	257_A	2.350	1.00
223_Q	233_R	2.332	1.00
109_Q	113_S	2.291	1.00
194_E	197_H	2.181	1.00
183_D	233_R	2.132	1.00
183_D	231_V	2.033	1.00
31_F	35_S	1.993	1.00
132_Y	141_I	1.947	1.00
144_Q	151_Q	1.933	1.00
34_R	78_F	1.912	1.00
187_P	264_K	1.892	1.00
186_V	195_M	1.868	1.00
253_E	256_N	1.861	1.00
201_Q	205_E	1.851	1.00
247_E	251_R	1.826	1.00
222_I	230_I	1.814	1.00
196_I	200_Q	1.800	1.00
198_I	257_A	1.799	1.00
185_K	231_V	1.776	1.00
194_E	198_I	1.720	1.00
143_E	159_L	1.720	1.00
199_L	254_I	1.710	1.00
205_E	253_E	1.698	1.00
190_R	264_K	1.676	1.00
124_E	148_R	1.673	1.00
134_T	173_H	1.669	1.00
249_V	253_E	1.652	1.00
134_T	171_S	1.627	1.00
256_N	260_R	1.622	1.00
30_Y	78_F	1.615	1.00
203_C	234_V	1.612	1.00
236_A	250_L	1.590	1.00
198_I	261_A	1.577	1.00
154_S	160_H	1.555	1.00
34_R	38_M	1.530	1.00
202_V	257_A	1.487	1.00
205_E	257_A	1.480	1.00
181_L	233_R	1.466	1.00
110_G	113_S	1.460	1.00
132_Y	155_F	1.445	1.00
134_T	137_T	1.444	1.00
102_L	105_G	1.417	1.00
193_D	252_K	1.411	1.00
150_T	164_N	1.390	1.00
127_L	150_T	1.386	1.00
160_H	171_S	1.377	1.00
74_L	78_F	1.371	1.00
184_I	254_I	1.349	1.00
195_M	232_I	1.345	1.00
258_F	263_P	1.343	1.00
245_R	249_V	1.327	1.00
252_K	256_N	1.327	1.00
206_T	253_E	1.326	1.00
151_Q	159_L	1.323	1.00
133_I	142_V	1.307	1.00
42_K	67_L	1.307	1.00
238_T	246_V	1.298	1.00
202_V	253_E	1.296	1.00
36_L	40_I	1.296	1.00
198_I	201_Q	1.289	1.00
131_D	175_R	1.282	1.00
140_G	152_I	1.277	1.00
213_I	216_G	1.276	1.00
185_K	228_S	1.263	1.00
201_Q	204_D	1.248	1.00
197_H	200_Q	1.245	1.00
185_K	226_G	1.213	1.00
158_T	171_S	1.211	1.00
180_A	236_A	1.181	1.00
166_N	169_N	1.177	1.00
30_Y	34_R	1.177	1.00
242_E	245_R	1.175	1.00
83_L	88_Y	1.175	1.00
82_V	86_F	1.166	1.00
128_D	175_R	1.163	1.00
154_S	158_T	1.162	1.00
188_A	225_L	1.156	1.00
193_D	196_I	1.146	1.00
190_R	195_M	1.146	1.00
201_Q	261_A	1.143	1.00
189_E	255_K	1.128	1.00
186_V	190_R	1.115	1.00
253_E	257_A	1.114	1.00
35_S	39_K	1.110	1.00
23_L	30_Y	1.109	1.00
71_A	75_I	1.105	1.00
183_D	224_E	1.100	1.00
208_A	249_V	1.099	1.00
187_P	190_R	1.095	1.00
96_G	99_I	1.088	1.00
193_D	197_H	1.083	1.00
227_T	231_V	1.064	1.00
159_L	175_R	1.063	1.00
239_E	242_E	1.058	1.00
178_M	243_Q	1.053	1.00
243_Q	247_E	1.048	1.00
135_V	167_I	1.046	1.00
200_Q	220_I	1.042	1.00
192_I	232_I	1.030	1.00
189_E	264_K	1.027	1.00
92_A	95_A	1.006	1.00
108_A	116_V	0.999	1.00
38_M	42_K	0.996	1.00
27_I	86_F	0.990	1.00
20_L	23_L	0.985	1.00
223_Q	231_V	0.975	1.00
179_Q	237_K	0.971	1.00
224_E	251_R	0.962	1.00
23_L	38_M	0.960	1.00
180_A	247_E	0.957	1.00
220_I	234_V	0.947	1.00
157_G	237_K	0.946	1.00
190_R	194_E	0.943	1.00
26_M	30_Y	0.938	1.00
186_V	232_I	0.934	1.00
64_S	68_N	0.930	1.00
149_T	161_Y	0.926	1.00
188_A	265_E	0.925	1.00
42_K	71_A	0.916	1.00
100_V	104_V	0.912	1.00
146_G	151_Q	0.910	1.00
195_M	199_L	0.908	1.00
99_I	108_A	0.906	1.00
94_L	98_G	0.905	1.00
248_R	252_K	0.901	1.00
199_L	203_C	0.899	1.00
185_K	227_T	0.898	1.00
199_L	234_V	0.898	1.00
185_K	188_A	0.897	1.00
203_C	207_A	0.893	1.00
23_L	27_I	0.887	1.00
133_I	152_I	0.886	1.00
250_L	254_I	0.882	1.00
183_D	223_Q	0.880	1.00
208_A	242_E	0.878	1.00
30_Y	85_L	0.875	1.00
221_G	248_R	0.871	1.00
153_R	159_L	0.871	1.00
225_L	230_I	0.869	1.00
38_M	71_A	0.864	1.00
198_I	202_V	0.863	1.00
187_P	265_E	0.862	1.00
27_I	31_F	0.860	1.00
120_F	168_T	0.859	1.00
199_L	258_F	0.854	1.00
107_G	112_V	0.852	1.00
181_L	235_I	0.851	1.00
111_L	117_T	0.850	1.00
186_V	258_F	0.847	1.00
206_T	250_L	0.845	1.00
125_K	128_D	0.839	1.00
124_E	149_T	0.838	1.00
141_I	153_R	0.836	1.00
244_W	248_R	0.834	1.00
78_F	82_V	0.833	1.00
96_G	100_V	0.831	1.00
192_I	230_I	0.827	1.00
203_C	236_A	0.825	1.00
32_I	36_L	0.825	1.00
43_H	47_K	0.825	1.00
113_S	165_R	0.823	1.00
177_T	216_G	0.823	1.00
222_I	251_R	0.820	1.00
200_Q	218_N	0.818	1.00
100_V	103_A	0.811	1.00
142_V	152_I	0.810	1.00
84_D	89_D	0.810	1.00
192_I	255_K	0.810	1.00
192_I	196_I	0.808	1.00
225_L	251_R	0.803	1.00
19_L	23_L	0.801	1.00
138_F	160_H	0.799	1.00
47_K	50_E	0.799	1.00
136_S	166_N	0.799	1.00
42_K	46_A	0.799	1.00
67_L	71_A	0.799	1.00
46_A	67_L	0.796	1.00
212_Q	216_G	0.796	1.00
184_I	199_L	0.791	1.00
117_T	168_T	0.790	1.00
188_A	230_I	0.777	1.00
198_I	263_P	0.774	1.00
23_L	34_R	0.766	1.00
75_I	79_F	0.766	1.00
226_G	229_E	0.761	1.00
46_A	50_E	0.749	1.00
180_A	238_T	0.748	1.00
45_F	49_E	0.746	1.00
212_Q	242_E	0.745	1.00
197_H	204_D	0.744	1.00
182_V	236_A	0.744	1.00
182_V	251_R	0.742	1.00
223_Q	247_E	0.741	1.00
48_F	51_Q	0.738	1.00
41_I	44_L	0.737	1.00
31_F	34_R	0.734	1.00
249_V	252_K	0.728	1.00
123_L	126_Q	0.726	1.00
94_L	103_A	0.718	1.00
156_D	179_Q	0.714	1.00
26_M	35_S	0.711	1.00
97_A	101_G	0.707	1.00
202_V	250_L	0.707	1.00
208_A	246_V	0.707	1.00
35_S	38_M	0.706	1.00
26_M	31_F	0.706	1.00
197_H	261_A	0.705	1.00
204_D	214_K	0.698	1.00
127_L	133_I	0.697	1.00
19_L	22_K	0.696	1.00
127_L	167_I	0.692	1.00
32_I	35_S	0.691	1.00
203_C	250_L	0.689	1.00
153_R	157_G	0.689	1.00
135_V	162_I	0.689	1.00
135_V	138_F	0.688	1.00
22_K	26_M	0.688	1.00
221_G	233_R	0.687	1.00
113_S	169_N	0.685	1.00
44_L	48_F	0.683	1.00
35_S	45_F	0.682	1.00
20_L	24_A	0.681	1.00
76_F	80_V	0.680	1.00
64_S	144_Q	0.677	1.00
258_F	265_E	0.675	1.00
186_V	263_P	0.674	1.00
188_A	228_S	0.673	1.00
234_V	254_I	0.673	1.00
146_G	149_T	0.673	1.00
179_Q	235_I	0.672	1.00
40_I	44_L	0.669	1.00
104_V	116_V	0.669	1.00
27_I	82_V	0.668	1.00
230_I	255_K	0.667	1.00
188_A	227_T	0.662	1.00
225_L	255_K	0.659	1.00
104_V	112_V	0.657	1.00
35_S	75_I	0.657	1.00
45_F	48_F	0.654	1.00
89_D	92_A	0.654	1.00
196_I	248_R	0.653	1.00
114_D	165_R	0.652	1.00
219_V	235_I	0.648	1.00
195_M	258_F	0.648	1.00
30_Y	33_V	0.647	1.00
112_V	116_V	0.645	1.00
27_I	30_Y	0.644	1.00
192_I	256_N	0.644	1.00
61_T	122_L	0.644	1.00
124_E	151_Q	0.643	1.00
208_A	245_R	0.641	1.00
110_G	165_R	0.637	1.00
99_I	103_A	0.637	1.00
96_G	101_G	0.636	1.00
95_A	98_G	0.633	1.00
40_I	43_H	0.628	1.00
191_N	256_N	0.625	1.00
21_I	25_I	0.623	1.00
244_W	247_E	0.621	1.00
228_S	265_E	0.621	1.00
202_V	205_E	0.620	1.00
29_L	32_I	0.618	1.00
109_Q	165_R	0.617	1.00
78_F	81_M	0.616	1.00
68_N	71_A	0.615	1.00
134_T	138_F	0.610	1.00
221_G	244_W	0.606	1.00
214_K	217_P	0.604	1.00
31_F	38_M	0.604	1.00
99_I	102_L	0.600	1.00
184_I	234_V	0.600	1.00
77_I	81_M	0.597	1.00
188_A	229_E	0.595	1.00
81_M	85_L	0.595	1.00
224_E	247_E	0.594	1.00
60_H	63_R	0.594	1.00
111_L	168_T	0.593	1.00
138_F	171_S	0.593	1.00
225_L	254_I	0.592	1.00
117_T	165_R	0.590	1.00
98_G	101_G	0.586	1.00
141_I	241_M	0.585	1.00
23_L	82_V	0.583	0.99
39_K	43_H	0.582	0.99
133_I	167_I	0.581	0.99
139_D	173_H	0.580	0.99
186_V	192_I	0.578	0.99
203_C	206_T	0.573	0.99
151_Q	161_Y	0.569	0.99
46_A	49_E	0.568	0.99
91_S	95_A	0.566	0.99
25_I	29_L	0.563	0.99
28_L	39_K	0.560	0.99
59_A	125_K	0.560	0.99
202_V	261_A	0.559	0.99
127_L	170_V	0.555	0.99
202_V	206_T	0.554	0.99
34_R	74_L	0.552	0.99
28_L	32_I	0.551	0.99
24_A	28_L	0.551	0.99
68_N	72_Y	0.548	0.99
190_R	230_I	0.548	0.99
177_T	239_E	0.546	0.99
189_E	259_D	0.544	0.99
72_Y	76_F	0.537	0.99
45_F	50_E	0.537	0.99
106_F	109_Q	0.537	0.99
185_K	230_I	0.536	0.99
23_L	26_M	0.536	0.99
42_K	49_E	0.536	0.99
141_I	155_F	0.535	0.99
138_F	152_I	0.534	0.99
106_F	111_L	0.533	0.99
200_Q	203_C	0.531	0.99
198_I	258_F	0.530	0.99
60_H	64_S	0.530	0.99
202_V	258_F	0.529	0.99
68_N	144_Q	0.528	0.99
97_A	100_V	0.526	0.99
61_T	65_L	0.524	0.99
180_A	243_Q	0.524	0.99
184_I	225_L	0.523	0.99
258_F	261_A	0.522	0.99
203_C	220_I	0.520	0.99
256_N	259_D	0.520	0.99
106_F	110_G	0.519	0.99
38_M	78_F	0.519	0.99
196_I	220_I	0.517	0.99
194_E	201_Q	0.515	0.99
172_N	175_R	0.514	0.99
162_I	167_I	0.512	0.99
102_L	110_G	0.511	0.99
111_L	120_F	0.510	0.99
63_R	67_L	0.510	0.99
127_L	164_N	0.508	0.99
108_A	112_V	0.508	0.99
196_I	232_I	0.505	0.99
23_L	31_F	0.504	0.99
143_E	151_Q	0.504	0.99
31_F	42_K	0.503	0.99
98_G	109_Q	0.502	0.99
212_Q	246_V	0.502	0.99
101_G	107_G	0.502	0.99
191_N	195_M	0.500	0.98

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
5ajiA	3	0.9326	100	0.163	Contact Map
4hw9A	3	0.8951	100	0.163	Contact Map
3udcA	3	0.9438	100	0.173	Contact Map
1nz9A	1	0.1798	35.3	0.937	Contact Map
2mi6A	1	0.1948	20.7	0.944	Contact Map
2e6zA	1	0.191	19.6	0.944	Contact Map
3mlqE	1	0.1461	17.8	0.945	Contact Map
2mq8A	1	0.3184	14.1	0.948	Contact Map
1j8uA	2	0.3221	13.7	0.948	Contact Map
4p7oA	1	0.3184	12.3	0.949	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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