HYI - ECOLI - GREMLIN Contacts

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HYI - Hydroxypyruvate isomerase

UniProt:	P30147	Sequences: MLRFSANLSMLFGEYDFLARFEKAAQCGFRGVEFMFPYDYDIEELKHVLASNKLEHTLHNLPAGDWAAGERGIACIPGREEEFRDGVAAAIRYARALGNKKINCLVGKTPAGFSSEQIHATLVENLRYAANMLMKEDILLLIEPINHFDIPGFHLTGTRQALKLIDDVGCCNLKIQYDIYHMQRMEGELTNTMTQWADKIGHLQIADNPHRGEPGTGEINYDYLFKVIENSDYNGWVGCEYKPQTTTEAGLRWMDPYR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11584
Length:	258 (221)
Sequences:	15613 (11018)
Seq/√Len:	741.1

ECOLI - HYI YGBM FRLC YCJR ULAE SGBU YIHM END4
BACSU - IOLI IOLH YFIH IOLE END4
SULSO - Q97UI8 Q97UG9 Q97UI3 Q7LX49

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_K	201_G	3.098	1.00
88_A	132_M	3.029	1.00
22_E	52_N	2.861	1.00
46_K	50_A	2.761	1.00
220_N	223_Y	2.692	1.00
123_V	167_D	2.614	1.00
31_G	236_W	2.554	1.00
207_D	215_G	2.536	1.00
92_R	136_E	2.473	1.00
47_H	51_S	2.394	1.00
194_T	227_V	2.387	1.00
139_L	201_G	2.289	1.00
92_R	132_M	2.257	1.00
139_L	174_K	2.174	1.00
141_L	201_G	2.131	1.00
16_D	19_A	2.092	1.00
18_L	48_V	2.079	1.00
131_N	170_C	2.039	1.00
95_R	136_E	2.020	1.00
162_L	195_Q	2.013	1.00
163_K	167_D	1.981	1.00
119_H	163_K	1.938	1.00
84_R	128_Y	1.881	1.00
101_K	141_L	1.813	1.00
48_V	52_N	1.797	1.00
22_E	26_Q	1.760	1.00
81_E	85_D	1.754	1.00
227_V	230_N	1.750	1.00
194_T	230_N	1.744	1.00
132_M	135_K	1.700	1.00
49_L	56_H	1.699	1.00
48_V	51_S	1.681	1.00
119_H	167_D	1.680	1.00
162_L	166_D	1.679	1.00
91_I	136_E	1.651	1.00
43_E	96_A	1.642	1.00
130_A	173_L	1.613	1.00
41_D	44_E	1.604	1.00
25_A	52_N	1.566	1.00
141_L	176_Q	1.564	1.00
188_E	191_N	1.543	1.00
79_R	82_E	1.539	1.00
120_A	167_D	1.523	1.00
191_N	195_Q	1.510	1.00
117_Q	120_A	1.506	1.00
89_A	92_R	1.504	1.00
203_L	228_I	1.499	1.00
134_M	172_N	1.499	1.00
94_A	99_N	1.484	1.00
132_M	136_E	1.473	1.00
123_V	127_R	1.466	1.00
85_D	89_A	1.462	1.00
222_D	226_K	1.460	1.00
131_N	135_K	1.454	1.00
42_I	96_A	1.448	1.00
120_A	124_E	1.448	1.00
39_D	96_A	1.440	1.00
21_F	52_N	1.419	1.00
207_D	217_G	1.417	1.00
226_K	230_N	1.415	1.00
44_E	47_H	1.401	1.00
80_E	125_N	1.399	1.00
91_I	133_L	1.390	1.00
190_T	223_Y	1.387	1.00
88_A	128_Y	1.365	1.00
18_L	51_S	1.354	1.00
124_E	127_R	1.352	1.00
23_K	26_Q	1.348	1.00
179_I	224_L	1.336	1.00
121_T	124_E	1.321	1.00
227_V	231_S	1.302	1.00
101_K	139_L	1.282	1.00
47_H	50_A	1.271	1.00
44_E	48_V	1.266	1.00
174_K	199_K	1.260	1.00
157_G	160_Q	1.258	1.00
22_E	48_V	1.252	1.00
85_D	88_A	1.246	1.00
197_A	231_S	1.240	1.00
134_M	170_C	1.234	1.00
210_H	213_E	1.234	1.00
19_A	22_E	1.226	1.00
130_A	168_V	1.224	1.00
137_D	172_N	1.219	1.00
123_V	168_V	1.218	1.00
166_D	199_K	1.198	1.00
159_R	195_Q	1.198	1.00
84_R	88_A	1.176	1.00
192_T	196_W	1.174	1.00
88_A	92_R	1.173	1.00
190_T	194_T	1.173	1.00
25_A	53_K	1.159	1.00
43_E	47_H	1.156	1.00
91_I	138_I	1.154	1.00
161_A	175_I	1.142	1.00
144_P	182_M	1.140	1.00
156_T	160_Q	1.138	1.00
91_I	132_M	1.138	1.00
177_Y	182_M	1.137	1.00
127_R	169_G	1.131	1.00
162_L	196_W	1.114	1.00
81_E	128_Y	1.112	1.00
128_Y	131_N	1.109	1.00
134_M	171_C	1.107	1.00
46_K	96_A	1.101	1.00
127_R	168_V	1.093	1.00
76_I	79_R	1.089	1.00
162_L	199_K	1.077	1.00
223_Y	227_V	1.073	1.00
87_V	129_A	1.067	1.00
119_H	123_V	1.067	1.00
163_K	166_D	1.065	1.00
133_L	140_L	1.063	1.00
18_L	44_E	1.061	1.00
228_I	231_S	1.056	1.00
42_I	93_Y	1.052	1.00
114_S	117_Q	1.044	1.00
31_G	57_T	1.043	1.00
29_F	239_C	1.035	1.00
21_F	48_V	1.034	1.00
21_F	49_L	1.028	1.00
39_D	43_E	1.021	1.00
33_E	58_L	1.017	1.00
88_A	135_K	1.015	1.00
31_G	55_E	1.012	1.00
23_K	27_C	1.004	1.00
181_H	206_A	0.993	1.00
115_S	160_Q	0.991	1.00
49_L	54_L	0.977	1.00
131_N	134_M	0.977	1.00
194_T	231_S	0.976	1.00
180_Y	206_A	0.976	1.00
100_K	139_L	0.976	1.00
92_R	96_A	0.970	1.00
33_E	202_H	0.965	1.00
82_E	85_D	0.957	1.00
101_K	201_G	0.954	1.00
18_L	22_E	0.951	1.00
130_A	170_C	0.940	1.00
59_H	94_A	0.939	1.00
34_F	56_H	0.937	1.00
84_R	125_N	0.932	1.00
178_D	240_E	0.930	1.00
191_N	194_T	0.924	1.00
205_I	221_Y	0.922	1.00
124_E	128_Y	0.912	1.00
88_A	136_E	0.910	1.00
42_I	46_K	0.906	1.00
193_M	231_S	0.905	1.00
219_I	224_L	0.905	1.00
116_E	120_A	0.903	1.00
92_R	95_R	0.902	1.00
25_A	30_R	0.902	1.00
206_A	242_K	0.893	1.00
127_R	131_N	0.892	1.00
24_A	32_V	0.885	1.00
116_E	163_K	0.881	1.00
77_P	81_E	0.879	1.00
190_T	227_V	0.877	1.00
130_A	172_N	0.865	1.00
221_Y	225_F	0.861	1.00
49_L	52_N	0.853	1.00
127_R	170_C	0.853	1.00
42_I	97_L	0.850	1.00
165_I	199_K	0.847	1.00
158_T	195_Q	0.843	1.00
15_Y	23_K	0.843	1.00
175_I	196_W	0.834	1.00
193_M	227_V	0.834	1.00
24_A	29_F	0.826	1.00
209_P	218_E	0.815	1.00
40_Y	44_E	0.814	1.00
57_T	236_W	0.813	1.00
55_E	100_K	0.812	1.00
115_S	118_I	0.812	1.00
168_V	173_L	0.809	1.00
126_L	173_L	0.809	1.00
159_R	163_K	0.808	1.00
119_H	160_Q	0.808	1.00
94_A	102_I	0.806	1.00
22_E	51_S	0.803	1.00
183_Q	218_E	0.800	1.00
193_M	197_A	0.799	1.00
180_Y	208_N	0.798	1.00
225_F	229_E	0.791	1.00
139_L	172_N	0.785	1.00
80_E	124_E	0.782	1.00
155_L	161_A	0.779	1.00
43_E	46_K	0.777	1.00
223_Y	226_K	0.773	1.00
56_H	99_N	0.771	1.00
86_G	89_A	0.757	1.00
95_R	138_I	0.756	1.00
158_T	187_G	0.754	1.00
74_A	79_R	0.753	1.00
150_I	153_F	0.752	1.00
183_Q	219_I	0.752	1.00
30_R	55_E	0.751	1.00
80_E	121_T	0.748	1.00
93_Y	97_L	0.748	1.00
60_N	105_L	0.747	1.00
117_Q	121_T	0.735	1.00
165_I	175_I	0.731	1.00
95_R	137_D	0.731	1.00
121_T	125_N	0.729	1.00
176_Q	202_H	0.726	1.00
72_G	125_N	0.724	1.00
55_E	236_W	0.710	1.00
78_G	82_E	0.708	1.00
129_A	140_L	0.707	1.00
193_M	200_I	0.701	1.00
18_L	52_N	0.696	1.00
179_I	221_Y	0.696	1.00
90_A	102_I	0.696	1.00
127_R	167_D	0.693	1.00
169_G	172_N	0.693	1.00
122_L	164_L	0.687	1.00
205_I	237_V	0.685	1.00
202_H	238_G	0.680	1.00
225_F	237_V	0.676	1.00
203_L	237_V	0.675	1.00
62_P	90_A	0.670	1.00
130_A	140_L	0.669	1.00
203_L	233_Y	0.667	1.00
125_N	128_Y	0.664	1.00
128_Y	132_M	0.661	1.00
160_Q	163_K	0.659	1.00
143_E	240_E	0.656	1.00
20_R	24_A	0.656	1.00
177_Y	193_M	0.655	1.00
46_K	98_G	0.654	1.00
103_N	176_Q	0.651	1.00
177_Y	192_T	0.649	1.00
25_A	54_L	0.648	1.00
89_A	93_Y	0.643	1.00
21_F	54_L	0.642	1.00
144_P	161_A	0.641	1.00
19_A	23_K	0.639	1.00
155_L	164_L	0.638	1.00
101_K	202_H	0.638	1.00
60_N	63_A	0.636	1.00
21_F	32_V	0.634	1.00
102_I	133_L	0.631	1.00
183_Q	189_L	0.630	1.00
76_I	80_E	0.629	1.00
33_E	238_G	0.628	1.00
84_R	129_A	0.619	1.00
182_M	192_T	0.613	1.00
22_E	25_A	0.611	1.00
21_F	25_A	0.609	1.00
169_G	199_K	0.609	1.00
232_D	235_G	0.609	1.00
77_P	121_T	0.608	1.00
84_R	87_V	0.606	1.00
45_L	48_V	0.603	1.00
198_D	231_S	0.602	1.00
126_L	164_L	0.594	1.00
197_A	227_V	0.594	1.00
197_A	200_I	0.594	1.00
123_V	164_L	0.594	1.00
80_E	84_R	0.594	1.00
94_A	138_I	0.593	1.00
143_E	181_H	0.591	1.00
59_H	99_N	0.591	1.00
165_I	169_G	0.591	1.00
100_K	137_D	0.590	1.00
104_C	140_L	0.586	1.00
133_L	138_I	0.585	1.00
193_M	196_W	0.583	1.00
78_G	81_E	0.582	1.00
131_N	172_N	0.577	1.00
228_I	233_Y	0.574	1.00
194_T	197_A	0.574	1.00
206_A	241_Y	0.571	1.00
143_E	204_Q	0.570	1.00
161_A	165_I	0.570	1.00
205_I	225_F	0.570	1.00
179_I	205_I	0.569	1.00
193_M	228_I	0.568	1.00
202_H	236_W	0.568	1.00
178_D	206_A	0.565	1.00
202_H	233_Y	0.564	1.00
118_I	121_T	0.562	1.00
21_F	45_L	0.560	1.00
162_L	165_I	0.559	1.00
122_L	126_L	0.559	1.00
82_E	86_G	0.556	1.00
119_H	164_L	0.556	1.00
60_N	103_N	0.555	1.00
150_I	154_H	0.554	1.00
74_A	83_F	0.553	1.00
144_P	155_L	0.553	1.00
91_I	102_I	0.550	1.00
57_T	238_G	0.549	1.00
158_T	191_N	0.547	1.00
61_L	90_A	0.545	1.00
177_Y	200_I	0.544	1.00
193_M	224_L	0.541	1.00
158_T	162_L	0.538	1.00
165_I	173_L	0.537	1.00
84_R	132_M	0.535	1.00
80_E	128_Y	0.534	1.00
150_I	156_T	0.534	1.00
72_G	83_F	0.527	1.00
92_R	135_K	0.526	1.00
20_R	23_K	0.525	1.00
214_P	217_G	0.525	1.00
120_A	123_V	0.523	1.00
15_Y	19_A	0.523	1.00
133_L	136_E	0.522	1.00
126_L	130_A	0.522	1.00
141_L	174_K	0.518	1.00
50_A	96_A	0.518	1.00
49_L	53_K	0.518	1.00
204_Q	238_G	0.515	1.00
221_Y	224_L	0.514	1.00
105_L	181_H	0.511	1.00
229_E	232_D	0.509	1.00
77_P	80_E	0.509	1.00
175_I	200_I	0.508	1.00
168_V	171_C	0.508	1.00
184_R	208_N	0.508	1.00
83_F	86_G	0.508	1.00
98_G	138_I	0.506	1.00
183_Q	208_N	0.505	1.00
50_A	98_G	0.504	1.00
176_Q	181_H	0.503	1.00
46_K	49_L	0.503	1.00
192_T	195_Q	0.502	1.00
164_L	168_V	0.500	1.00
130_A	134_M	0.500	1.00
72_G	75_C	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
1k77A	1	1	100	0.144	Contact Map
3ngfA	1	0.9961	100	0.176	Contact Map
3kwsA	2	0.969	100	0.21	Contact Map
1i60A	1	0.9535	100	0.213	Contact Map
3qc0A	2	0.9612	100	0.219	Contact Map
2qulA	2	0.969	100	0.221	Contact Map
2hk0A	3	0.9612	100	0.226	Contact Map
3vylA	4	0.9651	100	0.228	Contact Map
2zvrA	2	0.9729	100	0.229	Contact Map
3wqoA	2	0.9651	100	0.232	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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