YQIK - BACSU - GREMLIN Contacts

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YQIK - Uncharacterized protein YqiK

UniProt:	P54527	Sequences: MTKIFAHRGASGQFPENTMLAFEKGIEAGADGIELDVQLTKDGRIVVIHDERLNRTTSLKGFVKDTAYDEVKTANAAAGHDQAYSDIKVPLLEDVLSWAVKKDFLINIELKNSVIRYEGMEEKVLEAVKRFNVEDRVILSTFNHDSLALCARLAPHIERAVLTSDVLYQADRYIASIPASGYHPKINSPGVTDEVLKKMRNGLIKVRPYTVNRPEDMKRLIEAGADGMFTDFPEKASALLKNE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	243 (227)
Sequences:	9380 (6939)
Seq/√Len:	460.5

ECOLI - UGPQ GLPQ
BACSU - YQIK YHDW GLPQ
HALSA - Q9HP18

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
20_L	87_I	3.248	1.00
200_R	226_D	2.921	1.00
97_S	131_F	2.576	1.00
93_E	127_A	2.562	1.00
24_K	27_E	2.525	1.00
67_A	70_E	2.497	1.00
23_E	98_W	2.412	1.00
12_G	232_F	2.397	1.00
22_F	35_L	2.345	1.00
68_Y	72_K	2.317	1.00
212_N	231_D	2.237	1.00
217_M	236_A	2.233	1.00
72_K	94_D	2.208	1.00
68_Y	91_L	2.141	1.00
107_N	140_S	2.119	1.00
19_M	90_P	2.086	1.00
39_L	123_K	2.031	1.00
93_E	130_R	2.018	1.00
48_I	63_V	1.978	1.00
13_Q	234_E	1.966	1.00
44_R	68_Y	1.948	1.00
53_L	74_A	1.927	1.00
35_L	95_V	1.870	1.00
41_K	67_A	1.856	1.00
40_T	46_V	1.832	1.00
93_E	131_F	1.828	1.00
232_F	235_K	1.813	1.00
23_E	27_E	1.785	1.00
62_F	65_D	1.780	1.00
123_K	126_E	1.756	1.00
5_F	32_G	1.755	1.00
18_T	76_A	1.752	1.00
47_V	95_V	1.730	1.00
35_L	47_V	1.683	1.00
32_G	105_L	1.678	1.00
14_F	24_K	1.677	1.00
26_I	104_F	1.649	1.00
91_L	94_D	1.639	1.00
57_T	76_A	1.631	1.00
59_L	74_A	1.612	1.00
44_R	91_L	1.606	1.00
46_V	68_Y	1.590	1.00
6_A	21_A	1.580	1.00
53_L	66_T	1.560	1.00
24_K	28_A	1.555	1.00
207_R	227_G	1.546	1.00
48_I	56_T	1.540	1.00
92_L	108_I	1.540	1.00
122_E	153_L	1.515	1.00
11_S	21_A	1.492	1.00
54_N	60_K	1.490	1.00
213_R	216_D	1.477	1.00
139_L	150_C	1.474	1.00
208_P	225_A	1.464	1.00
40_T	44_R	1.440	1.00
127_A	131_F	1.430	1.00
121_E	146_S	1.418	1.00
216_D	219_R	1.417	1.00
39_L	45_I	1.413	1.00
125_L	154_A	1.406	1.00
61_G	66_T	1.377	1.00
8_R	16_E	1.376	1.00
71_V	89_V	1.374	1.00
19_M	98_W	1.368	1.00
129_K	154_A	1.367	1.00
22_F	95_V	1.359	1.00
46_V	63_V	1.355	1.00
219_R	223_A	1.325	1.00
75_N	86_D	1.303	1.00
16_E	55_R	1.303	1.00
93_E	97_S	1.300	1.00
193_D	197_K	1.264	1.00
40_T	71_V	1.263	1.00
140_S	229_F	1.261	1.00
125_L	150_C	1.256	1.00
160_A	181_G	1.246	1.00
122_E	126_E	1.240	1.00
10_A	13_Q	1.239	1.00
126_E	130_R	1.236	1.00
149_L	153_L	1.230	1.00
50_D	55_R	1.229	1.00
44_R	93_E	1.225	1.00
43_G	119_G	1.216	1.00
149_L	152_R	1.209	1.00
66_T	70_E	1.206	1.00
37_V	45_I	1.200	1.00
139_L	157_I	1.199	1.00
10_A	24_K	1.194	1.00
43_G	123_K	1.193	1.00
110_L	124_V	1.190	1.00
199_M	206_V	1.173	1.00
59_L	66_T	1.168	1.00
66_T	71_V	1.158	1.00
218_K	222_E	1.156	1.00
128_V	139_L	1.154	1.00
151_A	159_R	1.150	1.00
196_L	206_V	1.133	1.00
40_T	68_Y	1.130	1.00
205_K	226_D	1.127	1.00
54_N	61_G	1.121	1.00
5_F	227_G	1.118	1.00
10_A	28_A	1.110	1.00
38_Q	51_E	1.107	1.00
48_I	89_V	1.101	1.00
45_I	124_V	1.096	1.00
26_I	98_W	1.091	1.00
127_A	130_R	1.084	1.00
197_K	201_N	1.083	1.00
119_G	123_K	1.081	1.00
96_L	131_F	1.079	1.00
199_M	204_I	1.069	1.00
19_M	23_E	1.066	1.00
70_E	73_T	1.059	1.00
121_E	149_L	1.057	1.00
22_F	33_I	1.051	1.00
188_S	216_D	1.047	1.00
96_L	106_I	1.035	1.00
37_V	92_L	1.034	1.00
20_L	24_K	1.029	1.00
96_L	128_V	1.023	1.00
46_V	71_V	1.023	1.00
75_N	88_K	1.019	1.00
6_A	11_S	1.016	1.00
5_F	107_N	1.011	1.00
147_L	159_R	1.009	1.00
37_V	124_V	1.007	1.00
196_L	200_R	1.004	1.00
107_N	207_R	0.997	1.00
99_A	106_I	0.997	1.00
72_K	88_K	0.995	1.00
45_I	123_K	0.993	1.00
57_T	61_G	0.983	1.00
34_E	49_H	0.983	1.00
154_A	157_I	0.983	1.00
53_L	59_L	0.971	1.00
11_S	231_D	0.954	1.00
195_V	199_M	0.953	1.00
133_V	137_V	0.951	1.00
37_V	108_I	0.950	1.00
45_I	127_A	0.947	1.00
211_V	217_M	0.945	1.00
52_R	62_F	0.944	1.00
211_V	220_L	0.935	1.00
66_T	74_A	0.935	1.00
194_E	198_K	0.928	1.00
22_F	47_V	0.928	1.00
217_M	228_M	0.927	1.00
209_Y	229_F	0.921	1.00
6_A	30_A	0.919	1.00
52_R	55_R	0.916	1.00
214_P	218_K	0.916	1.00
41_K	65_D	0.915	1.00
13_Q	28_A	0.913	1.00
140_S	183_H	0.911	1.00
107_N	138_I	0.908	1.00
72_K	91_L	0.897	1.00
110_L	146_S	0.895	1.00
10_A	234_E	0.885	1.00
125_L	129_K	0.885	1.00
17_N	22_F	0.883	1.00
107_N	229_F	0.882	1.00
133_V	136_R	0.878	1.00
129_K	156_H	0.877	1.00
109_E	142_F	0.875	1.00
230_T	236_A	0.870	1.00
54_N	58_S	0.864	1.00
6_A	10_A	0.860	1.00
175_A	202_G	0.860	1.00
122_E	149_L	0.858	1.00
200_R	206_V	0.855	1.00
92_L	96_L	0.854	1.00
4_I	237_S	0.854	1.00
14_F	20_L	0.851	1.00
198_K	202_G	0.849	1.00
140_S	160_A	0.849	1.00
90_P	95_V	0.847	1.00
58_S	61_G	0.841	1.00
197_K	200_R	0.827	1.00
35_L	106_I	0.826	1.00
196_L	223_A	0.821	1.00
221_I	236_A	0.821	1.00
142_F	162_L	0.820	1.00
123_K	127_A	0.818	1.00
151_A	180_S	0.815	1.00
129_K	134_E	0.815	1.00
134_E	154_A	0.810	1.00
7_H	49_H	0.806	1.00
4_I	236_A	0.805	1.00
39_L	120_M	0.798	1.00
10_A	233_P	0.790	1.00
125_L	153_L	0.784	1.00
143_N	146_S	0.778	1.00
45_I	120_M	0.778	1.00
17_N	90_P	0.776	1.00
198_K	201_N	0.770	1.00
26_I	102_K	0.769	1.00
119_G	122_E	0.766	1.00
208_P	220_L	0.764	1.00
9_G	22_F	0.764	1.00
23_E	99_A	0.761	1.00
217_M	235_K	0.760	1.00
176_S	179_A	0.760	1.00
214_P	235_K	0.757	1.00
110_L	120_M	0.750	1.00
174_I	177_I	0.744	1.00
39_L	43_G	0.743	1.00
44_R	123_K	0.733	1.00
58_S	62_F	0.732	1.00
96_L	127_A	0.731	1.00
150_C	159_R	0.724	1.00
57_T	74_A	0.722	1.00
144_H	161_V	0.714	1.00
7_H	34_E	0.713	1.00
214_P	238_A	0.708	1.00
173_Y	176_S	0.708	1.00
228_M	236_A	0.702	1.00
38_Q	64_K	0.699	1.00
102_K	136_R	0.698	1.00
52_R	60_K	0.697	1.00
124_V	128_V	0.696	1.00
36_D	49_H	0.694	1.00
183_H	207_R	0.691	1.00
212_N	230_T	0.690	1.00
184_P	208_P	0.689	1.00
30_A	233_P	0.689	1.00
23_E	87_I	0.686	1.00
75_N	78_A	0.685	1.00
95_V	106_I	0.684	1.00
13_Q	232_F	0.683	1.00
140_S	162_L	0.682	1.00
144_H	148_A	0.678	1.00
134_E	137_V	0.678	1.00
191_V	208_P	0.670	1.00
217_M	221_I	0.669	1.00
95_V	99_A	0.667	1.00
210_T	230_T	0.666	1.00
128_V	137_V	0.663	1.00
33_I	104_F	0.662	1.00
13_Q	24_K	0.660	1.00
195_V	198_K	0.659	1.00
216_D	220_L	0.658	1.00
92_L	124_V	0.657	1.00
5_F	229_F	0.655	1.00
172_R	176_S	0.654	1.00
128_V	134_E	0.653	1.00
158_E	180_S	0.652	1.00
117_Y	120_M	0.650	1.00
213_R	235_K	0.647	1.00
75_N	79_G	0.647	1.00
10_A	14_F	0.646	1.00
48_I	57_T	0.644	1.00
69_D	73_T	0.643	1.00
25_G	30_A	0.642	1.00
4_I	30_A	0.642	1.00
53_L	71_V	0.639	1.00
38_Q	63_V	0.638	1.00
179_A	182_Y	0.637	1.00
94_D	97_S	0.636	0.99
158_E	205_K	0.634	0.99
193_D	223_A	0.634	0.99
142_F	209_Y	0.633	0.99
180_S	183_H	0.629	0.99
26_I	103_D	0.627	0.99
41_K	70_E	0.626	0.99
53_L	61_G	0.626	0.99
181_G	184_P	0.625	0.99
179_A	184_P	0.624	0.99
109_E	141_T	0.623	0.99
147_L	151_A	0.622	0.99
33_I	99_A	0.619	0.99
174_I	179_A	0.617	0.99
5_F	207_R	0.611	0.99
111_K	142_F	0.610	0.99
54_N	59_L	0.607	0.99
181_G	205_K	0.606	0.99
160_A	183_H	0.606	0.99
71_V	74_A	0.605	0.99
193_D	196_L	0.602	0.99
46_V	91_L	0.598	0.99
76_A	90_P	0.596	0.99
177_I	180_S	0.595	0.99
35_L	108_I	0.595	0.99
160_A	207_R	0.594	0.99
28_A	237_S	0.594	0.99
141_T	147_L	0.591	0.99
103_D	136_R	0.590	0.99
10_A	30_A	0.586	0.99
56_T	76_A	0.583	0.99
208_P	211_V	0.582	0.99
20_L	23_E	0.580	0.99
148_A	152_R	0.580	0.99
108_I	137_V	0.580	0.99
167_L	171_D	0.578	0.99
220_L	223_A	0.578	0.99
28_A	234_E	0.578	0.99
121_E	125_L	0.576	0.99
34_E	111_K	0.566	0.99
172_R	175_A	0.565	0.99
15_P	56_T	0.562	0.99
166_V	170_A	0.562	0.99
15_P	87_I	0.561	0.99
57_T	60_K	0.560	0.99
109_E	162_L	0.560	0.99
124_V	139_L	0.559	0.99
173_Y	177_I	0.555	0.99
196_L	225_A	0.552	0.99
19_M	22_F	0.552	0.99
145_D	148_A	0.548	0.99
28_A	233_P	0.547	0.98
54_N	57_T	0.547	0.98
112_N	117_Y	0.545	0.98
207_R	229_F	0.545	0.98
38_Q	112_N	0.544	0.98
32_G	107_N	0.543	0.98
69_D	72_K	0.543	0.98
206_V	225_A	0.536	0.98
52_R	56_T	0.534	0.98
79_G	84_Y	0.532	0.98
18_T	21_A	0.530	0.98
178_P	184_P	0.530	0.98
64_K	116_R	0.526	0.98
29_G	237_S	0.525	0.98
176_S	182_Y	0.523	0.98
92_L	127_A	0.520	0.98
181_G	207_R	0.520	0.98
105_L	136_R	0.518	0.98
167_L	170_A	0.517	0.98
191_V	223_A	0.516	0.98
98_W	101_K	0.515	0.98
32_G	140_S	0.515	0.98
98_W	102_K	0.514	0.98
78_A	84_Y	0.514	0.98
34_E	109_E	0.514	0.98
25_G	33_I	0.513	0.98
4_I	233_P	0.512	0.98
128_V	133_V	0.511	0.98
23_E	101_K	0.508	0.98
138_I	207_R	0.506	0.97
107_N	183_H	0.504	0.97
121_E	124_V	0.500	0.97

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
2pz0A	2	0.9918	100	0.056	Contact Map
3qvqA	4	0.9918	100	0.072	Contact Map
2otdA	1	0.9835	100	0.074	Contact Map
3ks6A	1	0.9712	100	0.091	Contact Map
1zccA	5	0.9588	100	0.092	Contact Map
4r7oA	4	0.9794	100	0.097	Contact Map
4oecA	1	0.93	100	0.103	Contact Map
3l12A	2	0.9835	100	0.104	Contact Map
2o55A	1	0.9588	100	0.104	Contact Map
3ch0A	1	0.9712	100	0.111	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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