YHII - ECOLI - GREMLIN Contacts

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YHII - Uncharacterized protein YhiI

UniProt:	P37626	Sequences: MDKSKRHLAWWVVGLLAVAAIVAWWLLRPAGVPEGFAVSNGRIEATEVDIASKIAGRIDTILVKEGKFVREGEVLAKMDTRVLQEQRLEAIAQIKEAQSAVAAAQALLEQRQSETRAAQSLVNQRQAELDSVAKRHTRSRSLAQRGAISAQQLDDDRAAAESARAALESAKAQVSASKAAIEAARTNIIQAQTRVEAAQATERRIAADIDDSELKAPRDGRVQYRVAEPGEVLAAGGRVLNMVDLSDVYMTFFLPTEQAGTLKLGGEARLILDAAPDLRIPATISFVASVAQFTPKTVETSDERLKLMFRVKARIPPELLQQHLEYVKTGLPGVAWVRVNEELPWPDDLVVRLPQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12224
Length:	355 (307)
Sequences:	16106 (12789)
Seq/√Len:	729.9

ECOLI - YHII YBHG YIBH EMRA MDTN EMRK YIAV MACA YDHJ AAEA ACRA ACRE MDTE MDTA CUSB
BACSU - YVRP YKNX

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
60_T	77_K	3.331	1.00
70_R	219_D	3.299	1.00
74_V	213_E	2.879	1.00
282_A	313_A	2.671	1.00
285_S	314_R	2.664	1.00
133_A	137_T	2.526	1.00
267_E	281_P	2.484	1.00
157_R	161_E	2.410	1.00
140_R	157_R	2.377	1.00
91_I	206_A	2.373	1.00
62_L	77_K	2.301	1.00
139_S	148_I	2.270	1.00
77_K	213_E	2.244	1.00
70_R	73_E	2.210	1.00
80_T	84_Q	2.173	1.00
140_R	144_Q	2.130	1.00
126_Q	171_K	2.116	1.00
139_S	156_D	2.115	1.00
74_V	215_K	2.106	1.00
44_E	251_T	2.031	1.00
98_Q	199_Q	2.027	1.00
87_R	202_E	2.005	1.00
160_A	164_R	1.994	1.00
283_T	316_P	1.974	1.00
133_A	164_R	1.957	1.00
71_E	219_D	1.937	1.00
269_R	279_R	1.930	1.00
53_K	211_D	1.916	1.00
136_H	153_L	1.853	1.00
152_Q	155_D	1.846	1.00
87_R	206_A	1.842	1.00
143_A	150_A	1.833	1.00
129_L	160_A	1.825	1.00
251_T	310_R	1.802	1.00
68_F	221_R	1.800	1.00
267_E	283_T	1.789	1.00
62_L	74_V	1.780	1.00
249_Y	312_K	1.771	1.00
196_E	199_Q	1.770	1.00
133_A	160_A	1.765	1.00
143_A	153_L	1.752	1.00
283_T	314_R	1.724	1.00
269_R	281_P	1.722	1.00
268_A	313_A	1.715	1.00
131_S	135_R	1.703	1.00
126_Q	167_L	1.688	1.00
136_H	140_R	1.671	1.00
168_E	171_K	1.668	1.00
167_L	171_K	1.644	1.00
223_Q	243_V	1.636	1.00
88_L	91_I	1.627	1.00
136_H	160_A	1.625	1.00
43_I	250_M	1.624	1.00
129_L	133_A	1.614	1.00
94_I	202_E	1.605	1.00
286_F	312_K	1.596	1.00
87_R	91_I	1.596	1.00
150_A	154_D	1.587	1.00
119_Q	174_V	1.583	1.00
94_I	98_Q	1.578	1.00
119_Q	178_K	1.550	1.00
84_Q	88_L	1.545	1.00
250_M	333_G	1.542	1.00
58_I	227_A	1.532	1.00
84_Q	209_I	1.530	1.00
95_K	98_Q	1.527	1.00
94_I	195_V	1.519	1.00
122_V	174_V	1.510	1.00
91_I	202_E	1.508	1.00
252_F	335_A	1.505	1.00
21_I	25_W	1.499	1.00
123_N	126_Q	1.493	1.00
89_E	201_T	1.481	1.00
136_H	157_R	1.478	1.00
129_L	164_R	1.477	1.00
64_K	67_K	1.466	1.00
23_A	27_L	1.458	1.00
164_R	168_E	1.458	1.00
122_V	167_L	1.457	1.00
203_R	206_A	1.456	1.00
56_G	78_M	1.445	1.00
101_V	192_Q	1.445	1.00
234_A	237_G	1.441	1.00
76_A	214_L	1.437	1.00
24_W	27_L	1.430	1.00
86_Q	204_R	1.429	1.00
153_L	157_R	1.426	1.00
94_I	199_Q	1.404	1.00
155_D	159_A	1.404	1.00
252_F	313_A	1.396	1.00
58_I	76_A	1.395	1.00
68_F	245_L	1.386	1.00
105_Q	192_Q	1.379	1.00
189_I	192_Q	1.374	1.00
130_D	134_K	1.365	1.00
122_V	171_K	1.360	1.00
159_A	162_S	1.359	1.00
129_L	167_L	1.359	1.00
116_R	119_Q	1.356	1.00
86_Q	89_E	1.354	1.00
206_A	210_D	1.341	1.00
75_L	240_L	1.339	1.00
175_S	178_K	1.319	1.00
101_V	195_V	1.317	1.00
291_A	309_F	1.311	1.00
216_A	242_M	1.307	1.00
207_A	211_D	1.305	1.00
204_R	208_D	1.300	1.00
59_D	79_D	1.290	1.00
87_R	209_I	1.281	1.00
138_R	154_D	1.276	1.00
141_S	145_R	1.268	1.00
60_T	229_P	1.259	1.00
135_R	155_D	1.251	1.00
126_Q	130_D	1.250	1.00
74_V	77_K	1.240	1.00
199_Q	203_R	1.237	1.00
105_Q	188_I	1.235	1.00
161_E	164_R	1.230	1.00
59_D	77_K	1.229	1.00
202_E	206_A	1.226	1.00
102_A	105_Q	1.219	1.00
254_L	262_L	1.206	1.00
222_V	240_L	1.204	1.00
115_T	178_K	1.198	1.00
281_P	316_P	1.193	1.00
269_R	338_R	1.185	1.00
86_Q	208_D	1.182	1.00
83_L	212_S	1.178	1.00
254_L	311_V	1.178	1.00
137_T	141_S	1.177	1.00
220_G	242_M	1.165	1.00
93_Q	197_A	1.160	1.00
132_V	163_A	1.155	1.00
128_E	162_S	1.151	1.00
67_K	73_E	1.150	1.00
262_L	284_I	1.146	1.00
101_V	105_Q	1.146	1.00
98_Q	195_V	1.145	1.00
122_V	126_Q	1.138	1.00
100_A	194_R	1.136	1.00
140_R	153_L	1.135	1.00
124_Q	166_A	1.134	1.00
125_R	163_A	1.133	1.00
137_T	140_R	1.130	1.00
151_Q	155_D	1.115	1.00
49_D	238_R	1.113	1.00
80_T	212_S	1.101	1.00
135_R	151_Q	1.099	1.00
233_L	239_V	1.096	1.00
162_S	166_A	1.094	1.00
96_E	194_R	1.094	1.00
251_T	312_K	1.091	1.00
174_V	178_K	1.088	1.00
272_L	333_G	1.084	1.00
262_L	337_V	1.075	1.00
278_L	326_Y	1.070	1.00
195_V	199_Q	1.069	1.00
154_D	157_R	1.050	1.00
61_I	229_P	1.044	1.00
22_V	26_L	1.038	1.00
88_L	203_R	1.037	1.00
47_E	241_N	1.036	1.00
52_S	214_L	1.034	1.00
89_E	93_Q	1.030	1.00
96_E	100_A	1.021	1.00
64_K	225_R	1.012	1.00
166_A	169_S	1.007	1.00
63_V	73_E	1.007	1.00
48_V	218_R	1.002	1.00
269_R	336_W	1.000	1.00
224_Y	241_N	0.995	1.00
255_P	258_Q	0.992	1.00
284_I	311_V	0.989	1.00
194_R	197_A	0.989	1.00
90_A	198_A	0.985	1.00
270_L	315_I	0.971	1.00
141_S	144_Q	0.969	1.00
76_A	239_V	0.967	1.00
65_E	224_Y	0.963	1.00
216_A	219_D	0.960	1.00
263_K	266_G	0.959	1.00
130_D	133_A	0.959	1.00
20_A	24_W	0.952	1.00
244_D	247_D	0.946	1.00
103_A	187_N	0.944	1.00
134_K	154_D	0.940	1.00
55_A	235_A	0.938	1.00
188_I	192_Q	0.936	1.00
201_T	204_R	0.929	1.00
254_L	337_V	0.927	1.00
121_L	173_Q	0.926	1.00
49_D	241_N	0.917	1.00
125_R	128_E	0.913	1.00
119_Q	123_N	0.910	1.00
91_I	95_K	0.909	1.00
172_A	175_S	0.901	1.00
68_F	219_D	0.899	1.00
92_A	200_A	0.898	1.00
159_A	163_A	0.896	1.00
24_W	28_R	0.892	1.00
225_R	228_E	0.889	1.00
271_I	279_R	0.887	1.00
271_I	336_W	0.886	1.00
61_I	76_A	0.883	1.00
125_R	170_A	0.881	1.00
100_A	103_A	0.879	1.00
128_E	131_S	0.876	1.00
43_I	327_V	0.868	1.00
270_L	333_G	0.865	1.00
69_V	75_L	0.863	1.00
41_G	333_G	0.861	1.00
93_Q	96_E	0.859	1.00
98_Q	102_A	0.852	1.00
270_L	282_A	0.852	1.00
97_A	100_A	0.850	1.00
338_R	341_E	0.847	1.00
124_Q	128_E	0.842	1.00
250_M	335_A	0.839	1.00
143_A	148_I	0.834	1.00
114_E	176_A	0.834	1.00
173_Q	176_A	0.833	1.00
63_V	240_L	0.832	1.00
253_F	308_M	0.831	1.00
59_D	62_L	0.830	1.00
52_S	233_L	0.828	1.00
207_A	210_D	0.828	1.00
134_K	137_T	0.828	1.00
169_S	173_Q	0.824	1.00
253_F	310_R	0.820	1.00
194_R	198_A	0.820	1.00
187_N	190_Q	0.816	1.00
87_R	205_I	0.816	1.00
85_E	207_A	0.815	1.00
250_M	270_L	0.815	1.00
288_A	310_R	0.809	1.00
93_Q	97_A	0.809	1.00
197_A	201_T	0.807	1.00
130_D	161_E	0.804	1.00
225_R	240_L	0.804	1.00
16_L	20_A	0.799	1.00
190_Q	194_R	0.796	1.00
121_L	169_S	0.795	1.00
63_V	222_V	0.795	1.00
93_Q	201_T	0.793	1.00
128_E	159_A	0.792	1.00
139_S	152_Q	0.792	1.00
115_T	174_V	0.789	1.00
139_S	151_Q	0.788	1.00
249_Y	285_S	0.787	1.00
95_K	196_E	0.786	1.00
121_L	124_Q	0.784	1.00
81_R	207_A	0.784	1.00
170_A	173_Q	0.781	1.00
192_Q	196_E	0.781	1.00
148_I	152_Q	0.778	1.00
45_A	329_T	0.778	1.00
57_R	232_V	0.778	1.00
93_Q	194_R	0.775	1.00
156_D	159_A	0.774	1.00
76_A	240_L	0.773	1.00
90_A	205_I	0.767	1.00
210_D	215_K	0.764	1.00
264_L	287_V	0.764	1.00
35_G	340_N	0.761	1.00
171_K	175_S	0.760	1.00
210_D	213_E	0.756	1.00
53_K	57_R	0.753	1.00
39_S	252_F	0.753	1.00
163_A	166_A	0.752	1.00
9_A	12_V	0.752	1.00
22_V	25_W	0.750	1.00
90_A	202_E	0.750	1.00
77_K	80_T	0.747	1.00
46_T	244_D	0.745	1.00
226_V	241_N	0.744	1.00
12_V	16_L	0.742	1.00
132_V	159_A	0.739	1.00
71_E	217_P	0.738	1.00
43_I	248_V	0.738	1.00
205_I	208_D	0.731	1.00
80_T	213_E	0.730	1.00
98_Q	101_V	0.729	1.00
128_E	166_A	0.726	1.00
268_A	282_A	0.724	1.00
86_Q	205_I	0.724	1.00
274_A	331_L	0.723	1.00
166_A	170_A	0.722	1.00
83_L	87_R	0.719	1.00
271_I	277_D	0.716	1.00
271_I	334_V	0.715	1.00
50_I	240_L	0.715	1.00
58_I	233_L	0.715	1.00
38_V	334_V	0.713	1.00
309_F	331_L	0.712	1.00
90_A	93_Q	0.710	1.00
131_S	158_A	0.709	1.00
59_D	80_T	0.709	1.00
128_E	132_V	0.709	1.00
9_A	13_V	0.707	1.00
198_A	201_T	0.705	1.00
34_E	341_E	0.703	1.00
117_A	173_Q	0.701	1.00
52_S	239_V	0.700	1.00
84_Q	87_R	0.694	1.00
247_D	314_R	0.692	1.00
115_T	119_Q	0.689	1.00
218_R	242_M	0.688	1.00
200_A	203_R	0.684	1.00
267_E	338_R	0.683	1.00
55_A	232_V	0.683	1.00
132_V	156_D	0.682	1.00
53_K	82_V	0.682	1.00
55_A	234_A	0.681	1.00
97_A	191_A	0.678	1.00
62_L	73_E	0.676	1.00
90_A	94_I	0.676	1.00
157_R	160_A	0.675	1.00
272_L	275_A	0.674	1.00
103_A	106_A	0.672	1.00
54_I	208_D	0.671	1.00
163_A	167_L	0.671	1.00
158_A	162_S	0.670	1.00
114_E	117_A	0.668	1.00
228_E	231_E	0.667	1.00
121_L	125_R	0.664	1.00
115_T	177_S	0.662	1.00
131_S	134_K	0.662	1.00
152_Q	156_D	0.659	1.00
275_A	280_I	0.659	1.00
284_I	313_A	0.654	1.00
85_E	200_A	0.654	1.00
82_V	208_D	0.653	1.00
38_V	336_W	0.651	1.00
285_S	312_K	0.650	1.00
198_A	202_E	0.650	1.00
252_F	311_V	0.647	1.00
131_S	155_D	0.642	1.00
140_R	143_A	0.642	1.00
86_Q	90_A	0.642	1.00
135_R	139_S	0.641	1.00
270_L	313_A	0.639	1.00
117_A	121_L	0.638	1.00
149_S	152_Q	0.633	1.00
317_P	325_E	0.631	1.00
191_A	194_R	0.631	1.00
50_I	217_P	0.630	1.00
57_R	79_D	0.630	1.00
25_W	29_P	0.628	1.00
36_F	336_W	0.627	1.00
301_S	304_R	0.626	1.00
25_W	28_R	0.622	1.00
318_E	324_L	0.620	1.00
58_I	61_I	0.618	1.00
259_A	309_F	0.617	1.00
264_L	285_S	0.612	1.00
168_E	172_A	0.611	1.00
82_V	86_Q	0.611	1.00
291_A	307_L	0.610	1.00
100_A	104_A	0.610	1.00
313_A	335_A	0.609	1.00
214_L	239_V	0.607	1.00
89_E	204_R	0.604	1.00
150_A	153_L	0.604	1.00
21_I	24_W	0.601	1.00
83_L	205_I	0.601	1.00
256_T	332_P	0.600	1.00
249_Y	314_R	0.600	1.00
125_R	167_L	0.598	1.00
97_A	198_A	0.596	1.00
165_A	168_E	0.596	1.00
266_G	339_V	0.596	1.00
226_V	238_R	0.595	1.00
151_Q	154_D	0.594	1.00
46_T	228_E	0.594	1.00
208_D	211_D	0.594	1.00
125_R	166_A	0.593	1.00
126_Q	129_L	0.593	1.00
29_P	33_P	0.592	1.00
97_A	101_V	0.591	1.00
118_A	170_A	0.589	1.00
19_A	23_A	0.588	1.00
148_I	153_L	0.587	1.00
10_W	14_G	0.586	1.00
118_A	177_S	0.584	1.00
65_E	312_K	0.581	1.00
85_E	88_L	0.580	1.00
265_G	283_T	0.580	1.00
48_V	242_M	0.578	1.00
221_R	245_L	0.577	1.00
63_V	67_K	0.576	1.00
187_N	191_A	0.575	1.00
114_E	118_A	0.575	1.00
52_S	55_A	0.573	1.00
65_E	225_R	0.571	1.00
123_N	127_A	0.570	1.00
128_E	163_A	0.569	1.00
120_S	123_N	0.569	1.00
204_R	207_A	0.569	1.00
175_S	179_A	0.569	1.00
193_T	196_E	0.568	1.00
127_A	130_D	0.565	1.00
170_A	174_V	0.564	1.00
121_L	170_A	0.563	1.00
281_P	317_P	0.562	1.00
87_R	90_A	0.558	1.00
80_T	209_I	0.553	1.00
135_R	156_D	0.552	1.00
270_L	335_A	0.549	1.00
205_I	209_I	0.548	1.00
51_A	232_V	0.548	1.00
39_S	337_V	0.547	1.00
134_K	150_A	0.545	1.00
248_V	329_T	0.543	1.00
63_V	225_R	0.541	1.00
238_R	241_N	0.541	1.00
17_A	21_I	0.540	1.00
199_Q	202_E	0.540	1.00
127_A	131_S	0.539	1.00
83_L	208_D	0.536	1.00
93_Q	198_A	0.536	1.00
90_A	201_T	0.535	1.00
92_A	193_T	0.534	1.00
164_R	167_L	0.532	1.00
52_S	76_A	0.531	1.00
101_V	191_A	0.530	1.00
49_D	231_E	0.530	1.00
118_A	121_L	0.528	1.00
275_A	331_L	0.527	1.00
99_S	193_T	0.524	1.00
91_I	94_I	0.524	1.00
173_Q	177_S	0.521	1.00
203_R	207_A	0.521	1.00
114_E	177_S	0.520	1.00
104_A	191_A	0.518	1.00
100_A	190_Q	0.518	1.00
23_A	26_L	0.518	1.00
171_K	174_V	0.516	1.00
243_V	329_T	0.515	1.00
15_L	19_A	0.515	1.00
122_V	170_A	0.514	1.00
62_L	213_E	0.514	1.00
99_S	102_A	0.513	1.00
121_L	166_A	0.511	1.00
97_A	194_R	0.511	1.00
131_S	154_D	0.511	1.00
72_G	215_K	0.510	1.00
189_I	193_T	0.509	1.00
328_K	331_L	0.509	1.00
191_A	195_V	0.508	1.00
54_I	212_S	0.508	1.00
146_G	150_A	0.508	1.00
83_L	209_I	0.508	1.00
18_V	21_I	0.507	1.00
129_L	163_A	0.506	1.00
268_A	335_A	0.505	1.00
13_V	17_A	0.505	1.00
81_R	210_D	0.504	1.00
26_L	29_P	0.501	0.99
254_L	335_A	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
4tkoB	1	0.8141	100	0.285	Contact Map
4dk0A	5	0.7803	100	0.36	Contact Map
3fppA	3	0.7408	100	0.361	Contact Map
2f1mA	2	0.6535	100	0.384	Contact Map
3lnnA	6	0.7718	100	0.404	Contact Map
4l8jA	2	0.7099	100	0.427	Contact Map
1vf7A	5	0.6338	100	0.427	Contact Map
3ne5B	3	0.6451	100	0.446	Contact Map
4kkuA	1	0.5408	100	0.507	Contact Map
2k32A	1	0.3239	99.8	0.669	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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