IDND - ECOLI - GREMLIN Contacts

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IDND - L-idonate 5-dehydrogenase (NAD(P)(+))

UniProt:	P39346	Sequences: MQVKTQSCVVAGKKTVAVTEQTIDWNNNGTLVQITRGGICGSDLHYYQEGKVGNFMIKAPMVLGHEVIGKVIHSDSSELHEGQTVAINPSKPCGHCKYCIEHNENQCTDMRFFGSAMYFPHVDGGFTRYKMVETSQCVPYPAKADEKVMAFAEPLAVAIHAAHQAGELQGKRVFISGVGPIGCLIVSAVKTLGAAEIVCADVSPRSLSLGKEMGADVLVNPQNDDMDHWKAEKGYFDVSFEVSGHPSSVNTCLEVTRARGVMVQVGMGGAMAEFPMMTLIGKEISLRGSFRFTSEFNTAVSWLANGVINPLPLLSAEYPFTDLEEALRFAGDKTQAAKVQLVF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12541
Length:	343 (299)
Sequences:	52571 (36018)
Seq/√Len:	2083.0

ECOLI - IDND RSPB YBDR YDJJ AHR YJJN GATD YDJL YPHC ADHP TDH YAHK FRMA YGGP YCJQ ACUI QOR1 CURA
BACSU - YJMD ADHB DHSO TDH BDHA YYCR ADHA YOGA YHFP YFMJ
HALSA - Q9HMB6 Q9HP38 GLCDH Q9HR85 Q9HQS8
SULSO - Q97ZV3 ADH Q97YT7 Q7LXK1 Q97TZ4 Q97XR4 GLCD1 Q97VV5 GLCD2 Q97VW0 GLCD3 Q97YM2 Q97WA1 Q97V32 Q97W06 Q97VB8 Q97UW5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
322_D	325_E	3.100	1.00
35_T	146_E	2.998	1.00
35_T	70_K	2.867	1.00
30_T	137_C	2.719	1.00
11_A	19_T	2.647	1.00
190_K	216_D	2.639	1.00
172_R	196_E	2.597	1.00
145_D	148_V	2.580	1.00
84_T	140_Y	2.482	1.00
83_Q	139_P	2.475	1.00
80_H	83_Q	2.438	1.00
67_V	125_G	2.394	1.00
318_Y	329_F	2.385	1.00
23_I	129_Y	2.294	1.00
208_S	212_E	2.274	1.00
33_Q	129_Y	2.267	1.00
33_Q	70_K	2.259	1.00
147_K	317_E	2.208	1.00
196_E	217_V	2.196	1.00
11_A	17_A	2.158	1.00
301_S	305_N	2.148	1.00
173_V	189_V	2.146	1.00
78_E	134_T	2.145	1.00
316_A	329_F	2.120	1.00
73_H	76_S	2.111	1.00
207_L	211_K	2.107	1.00
178_V	199_C	2.106	1.00
168_L	171_K	2.082	1.00
9_V	19_T	2.051	1.00
28_N	75_D	2.043	1.00
26_N	29_G	2.040	1.00
27_N	74_S	2.032	1.00
186_V	215_A	2.032	1.00
319_P	322_D	1.994	1.00
84_T	146_E	1.985	1.00
143_K	304_A	1.978	1.00
27_N	75_D	1.974	1.00
67_V	87_I	1.966	1.00
68_I	146_E	1.964	1.00
31_L	131_M	1.913	1.00
208_S	211_K	1.912	1.00
328_R	332_D	1.905	1.00
171_K	261_V	1.884	1.00
155_L	184_L	1.856	1.00
174_F	236_F	1.828	1.00
174_F	200_A	1.825	1.00
325_E	328_R	1.815	1.00
204_P	208_S	1.814	1.00
318_Y	326_A	1.773	1.00
48_Q	331_G	1.773	1.00
198_V	236_F	1.769	1.00
237_D	257_R	1.738	1.00
191_T	307_V	1.727	1.00
140_Y	146_E	1.703	1.00
325_E	329_F	1.677	1.00
256_T	262_M	1.665	1.00
220_N	223_N	1.665	1.00
204_P	220_N	1.657	1.00
201_D	207_L	1.640	1.00
176_S	252_C	1.634	1.00
261_V	285_S	1.633	1.00
228_H	231_A	1.627	1.00
165_A	238_V	1.626	1.00
79_L	139_P	1.624	1.00
329_F	334_T	1.620	1.00
207_L	218_L	1.605	1.00
8_C	323_L	1.564	1.00
256_T	284_I	1.558	1.00
209_L	212_E	1.558	1.00
196_E	216_D	1.550	1.00
25_W	131_M	1.543	1.00
6_Q	20_E	1.538	1.00
31_L	129_Y	1.536	1.00
29_G	133_E	1.534	1.00
261_V	287_R	1.528	1.00
79_L	83_Q	1.511	1.00
126_F	327_L	1.505	1.00
256_T	260_G	1.500	1.00
140_Y	149_M	1.498	1.00
204_P	223_N	1.494	1.00
84_T	142_A	1.491	1.00
25_W	31_L	1.490	1.00
34_I	67_V	1.473	1.00
6_Q	128_R	1.444	1.00
70_K	84_T	1.442	1.00
28_N	133_E	1.412	1.00
29_G	131_M	1.396	1.00
70_K	146_E	1.396	1.00
71_V	79_L	1.395	1.00
72_I	81_E	1.392	1.00
239_S	252_C	1.390	1.00
36_R	147_K	1.388	1.00
186_V	199_C	1.383	1.00
47_Y	327_L	1.375	1.00
6_Q	321_T	1.357	1.00
324_E	328_R	1.355	1.00
239_S	256_T	1.346	1.00
315_S	329_F	1.345	1.00
30_T	79_L	1.331	1.00
172_R	198_V	1.314	1.00
163_H	298_T	1.302	1.00
8_C	18_V	1.292	1.00
202_V	221_P	1.284	1.00
301_S	304_A	1.278	1.00
185_I	240_F	1.265	1.00
163_H	295_E	1.262	1.00
176_S	200_A	1.250	1.00
167_E	194_A	1.233	1.00
191_T	302_W	1.229	1.00
225_D	228_H	1.228	1.00
7_S	21_Q	1.222	1.00
35_T	84_T	1.196	1.00
79_L	137_C	1.191	1.00
23_I	31_L	1.173	1.00
211_K	218_L	1.162	1.00
207_L	220_N	1.162	1.00
172_R	237_D	1.154	1.00
25_W	29_G	1.147	1.00
204_P	207_L	1.145	1.00
187_S	309_N	1.144	1.00
199_C	215_A	1.136	1.00
34_I	130_K	1.127	1.00
167_E	171_K	1.120	1.00
28_N	134_T	1.116	1.00
132_V	137_C	1.107	1.00
32_V	69_G	1.105	1.00
298_T	301_S	1.094	1.00
8_C	320_F	1.090	1.00
148_V	309_N	1.086	1.00
36_R	146_E	1.082	1.00
171_K	237_D	1.081	1.00
39_I	326_A	1.080	1.00
12_G	15_T	1.079	1.00
232_E	235_Y	1.071	1.00
47_Y	331_G	1.063	1.00
164_Q	285_S	1.058	1.00
165_A	263_V	1.055	1.00
158_A	188_A	1.048	1.00
302_W	307_V	1.030	1.00
18_V	321_T	1.028	1.00
35_T	68_I	1.028	1.00
209_L	336_A	1.026	1.00
32_V	85_V	1.026	1.00
160_H	295_E	1.024	1.00
297_N	301_S	1.014	1.00
254_E	278_T	1.010	1.00
40_C	66_E	1.010	1.00
158_A	185_I	1.010	1.00
243_S	248_S	1.008	1.00
198_V	217_V	1.006	1.00
37_G	125_G	1.005	1.00
202_V	207_L	1.005	1.00
211_K	217_V	1.003	1.00
40_C	65_H	1.003	1.00
323_L	341_L	1.002	1.00
198_V	219_V	1.002	1.00
72_I	76_S	0.993	1.00
178_V	201_D	0.981	1.00
126_F	323_L	0.974	1.00
161_A	265_V	0.974	1.00
144_A	149_M	0.971	1.00
175_I	185_I	0.962	1.00
9_V	62_V	0.955	1.00
37_G	126_F	0.947	1.00
61_M	123_D	0.946	1.00
33_Q	128_R	0.944	1.00
186_V	197_I	0.941	1.00
155_L	299_A	0.940	1.00
21_Q	123_D	0.931	1.00
202_V	222_Q	0.930	1.00
175_I	189_V	0.929	1.00
329_F	339_V	0.928	1.00
200_A	221_P	0.927	1.00
44_L	330_A	0.925	1.00
9_V	21_Q	0.921	1.00
241_E	244_G	0.919	1.00
126_F	341_L	0.917	1.00
178_V	210_G	0.917	1.00
76_S	134_T	0.917	1.00
189_V	194_A	0.915	1.00
224_D	228_H	0.912	1.00
48_Q	51_K	0.910	1.00
203_S	206_S	0.904	1.00
188_A	299_A	0.899	1.00
250_N	254_E	0.899	1.00
328_R	331_G	0.898	1.00
176_S	239_S	0.897	1.00
159_I	298_T	0.895	1.00
205_R	208_S	0.893	1.00
36_R	340_Q	0.891	1.00
178_V	186_V	0.890	1.00
172_R	236_F	0.890	1.00
80_H	139_P	0.884	1.00
183_C	209_L	0.883	1.00
38_G	66_E	0.878	1.00
11_A	15_T	0.878	1.00
278_T	282_K	0.876	1.00
174_F	255_V	0.876	1.00
310_P	313_L	0.876	1.00
203_S	220_N	0.870	1.00
151_F	303_L	0.867	1.00
251_T	254_E	0.867	1.00
67_V	130_K	0.863	1.00
161_A	240_F	0.862	1.00
7_S	62_V	0.856	1.00
330_A	339_V	0.854	1.00
142_A	304_A	0.835	1.00
279_L	286_L	0.833	1.00
199_C	210_G	0.832	1.00
164_Q	287_R	0.832	1.00
39_I	330_A	0.828	1.00
210_G	215_A	0.827	1.00
171_K	238_V	0.825	1.00
206_S	336_A	0.820	1.00
298_T	302_W	0.817	1.00
318_Y	322_D	0.814	1.00
162_A	189_V	0.812	1.00
86_A	300_V	0.811	1.00
259_R	283_E	0.810	1.00
77_S	134_T	0.803	1.00
40_C	43_D	0.797	1.00
6_Q	18_V	0.795	1.00
26_N	131_M	0.792	1.00
188_A	302_W	0.791	1.00
201_D	218_L	0.791	1.00
158_A	184_L	0.790	1.00
144_A	303_L	0.789	1.00
158_A	181_I	0.788	1.00
8_C	16_V	0.786	1.00
28_N	73_H	0.779	1.00
18_V	320_F	0.779	1.00
227_D	231_A	0.777	1.00
229_W	236_F	0.775	1.00
85_V	137_C	0.774	1.00
225_D	251_T	0.773	1.00
161_A	185_I	0.771	1.00
156_A	295_E	0.770	1.00
39_I	126_F	0.770	1.00
28_N	74_S	0.766	1.00
8_C	324_E	0.766	1.00
167_E	238_V	0.764	1.00
239_S	262_M	0.759	1.00
294_S	298_T	0.756	1.00
252_C	262_M	0.756	1.00
212_E	309_N	0.755	1.00
173_V	194_A	0.754	1.00
87_I	132_V	0.753	1.00
30_T	134_T	0.751	1.00
40_C	153_E	0.748	1.00
145_D	149_M	0.748	1.00
138_V	297_N	0.747	1.00
176_S	248_S	0.746	1.00
318_Y	341_L	0.744	1.00
302_W	305_N	0.744	1.00
302_W	306_G	0.742	1.00
227_D	254_E	0.740	1.00
21_Q	62_V	0.739	1.00
329_F	332_D	0.739	1.00
42_S	65_H	0.736	1.00
275_P	278_T	0.734	1.00
197_I	216_D	0.730	1.00
68_I	150_A	0.728	1.00
192_L	298_T	0.727	1.00
294_S	297_N	0.727	1.00
314_L	317_E	0.727	1.00
264_Q	286_L	0.720	1.00
316_A	325_E	0.719	1.00
242_V	265_V	0.718	1.00
236_F	239_S	0.717	1.00
189_V	197_I	0.715	1.00
227_D	230_K	0.707	1.00
36_R	317_E	0.706	1.00
86_A	140_Y	0.706	1.00
66_E	153_E	0.704	1.00
238_V	263_V	0.703	1.00
160_H	283_E	0.703	1.00
158_A	162_A	0.700	1.00
159_I	299_A	0.695	1.00
279_L	284_I	0.695	1.00
194_A	197_I	0.692	1.00
258_A	282_K	0.689	1.00
250_N	271_M	0.688	1.00
300_V	304_A	0.687	1.00
10_V	15_T	0.686	1.00
65_H	153_E	0.686	1.00
14_K	328_R	0.686	1.00
175_I	199_C	0.686	1.00
83_Q	142_A	0.686	1.00
188_A	192_L	0.682	1.00
153_E	157_V	0.682	1.00
138_V	300_V	0.680	1.00
157_V	181_I	0.679	1.00
84_T	143_K	0.676	1.00
201_D	221_P	0.674	1.00
198_V	229_W	0.672	1.00
279_L	288_G	0.672	1.00
86_A	152_A	0.672	1.00
78_E	139_P	0.670	1.00
194_A	238_V	0.665	1.00
159_I	302_W	0.664	1.00
125_G	130_K	0.664	1.00
40_C	154_P	0.663	1.00
201_D	220_N	0.662	1.00
227_D	251_T	0.661	1.00
154_P	180_P	0.661	1.00
73_H	81_E	0.659	1.00
141_P	304_A	0.659	1.00
316_A	339_V	0.658	1.00
166_G	287_R	0.657	1.00
318_Y	339_V	0.654	1.00
72_I	80_H	0.653	1.00
166_G	261_V	0.651	1.00
24_D	131_M	0.651	1.00
68_I	84_T	0.649	1.00
249_V	262_M	0.649	1.00
30_T	71_V	0.647	1.00
186_V	213_M	0.646	1.00
78_E	81_E	0.643	1.00
166_G	285_S	0.643	1.00
68_I	140_Y	0.642	1.00
209_L	213_M	0.641	1.00
327_L	331_G	0.640	1.00
207_L	210_G	0.639	1.00
41_G	45_H	0.638	1.00
36_R	68_I	0.636	1.00
183_C	313_L	0.633	1.00
32_V	87_I	0.633	1.00
236_F	255_V	0.632	1.00
138_V	296_F	0.631	1.00
250_N	273_E	0.630	1.00
207_L	221_P	0.629	1.00
219_V	224_D	0.627	1.00
24_D	129_Y	0.626	1.00
190_K	197_I	0.624	1.00
28_N	135_S	0.623	1.00
25_W	73_H	0.623	1.00
165_A	261_V	0.623	1.00
250_N	278_T	0.620	1.00
187_S	213_M	0.620	1.00
229_W	255_V	0.619	1.00
57_I	61_M	0.617	1.00
163_H	192_L	0.616	1.00
42_S	46_Y	0.613	1.00
34_I	37_G	0.612	1.00
241_E	262_M	0.612	1.00
239_S	255_V	0.611	1.00
215_A	218_L	0.610	1.00
245_H	248_S	0.609	1.00
185_I	265_V	0.608	1.00
335_Q	339_V	0.607	1.00
24_D	31_L	0.607	1.00
200_A	219_V	0.605	1.00
88_N	138_V	0.604	1.00
209_L	313_L	0.603	1.00
173_V	238_V	0.602	1.00
157_V	265_V	0.601	1.00
246_P	250_N	0.601	1.00
230_K	235_Y	0.601	1.00
25_W	75_D	0.600	1.00
238_V	261_V	0.599	1.00
241_E	266_G	0.593	1.00
12_G	17_A	0.593	1.00
263_V	289_S	0.586	1.00
77_S	80_H	0.586	1.00
60_P	64_G	0.585	1.00
161_A	289_S	0.581	1.00
41_G	179_G	0.580	1.00
44_L	331_G	0.576	1.00
146_E	149_M	0.576	1.00
87_I	137_C	0.574	1.00
223_N	228_H	0.573	1.00
271_M	275_P	0.571	1.00
154_P	184_L	0.569	1.00
272_A	275_P	0.568	1.00
32_V	137_C	0.567	1.00
248_S	252_C	0.562	1.00
329_F	335_Q	0.561	1.00
42_S	45_H	0.561	1.00
162_A	188_A	0.561	1.00
64_G	126_F	0.561	1.00
186_V	210_G	0.560	1.00
58_K	61_M	0.560	1.00
134_T	137_C	0.557	1.00
296_F	300_V	0.555	1.00
23_I	131_M	0.555	1.00
226_M	251_T	0.551	1.00
15_T	324_E	0.551	1.00
25_W	28_N	0.551	1.00
278_T	281_G	0.550	1.00
303_L	310_P	0.550	1.00
174_F	239_S	0.550	1.00
169_Q	193_G	0.549	1.00
34_I	87_I	0.547	1.00
184_L	188_A	0.547	1.00
70_K	81_E	0.546	1.00
202_V	210_G	0.545	1.00
220_N	225_D	0.545	1.00
303_L	308_I	0.543	1.00
18_V	323_L	0.540	1.00
190_K	215_A	0.539	1.00
202_V	220_N	0.539	1.00
15_T	47_Y	0.539	1.00
316_A	336_A	0.536	1.00
306_G	309_N	0.532	1.00
32_V	67_V	0.532	1.00
295_E	298_T	0.531	1.00
211_K	215_A	0.530	1.00
44_L	48_Q	0.530	1.00
159_I	192_L	0.529	1.00
169_Q	192_L	0.528	1.00
91_K	136_Q	0.528	1.00
166_G	171_K	0.528	1.00
68_I	149_M	0.527	1.00
278_T	284_I	0.527	1.00
318_Y	325_E	0.523	1.00
177_G	242_V	0.523	1.00
79_L	134_T	0.523	1.00
172_R	232_E	0.523	1.00
37_G	341_L	0.522	1.00
145_D	317_E	0.522	1.00
56_M	59_A	0.522	1.00
271_M	274_F	0.519	1.00
140_Y	144_A	0.519	1.00
87_I	125_G	0.518	1.00
210_G	218_L	0.518	1.00
38_G	150_A	0.515	1.00
178_V	182_G	0.515	1.00
201_D	210_G	0.514	1.00
28_N	76_S	0.513	1.00
184_L	308_I	0.513	1.00
16_V	327_L	0.512	1.00
198_V	232_E	0.512	1.00
87_I	130_K	0.512	1.00
159_I	295_E	0.511	1.00
24_D	29_G	0.511	1.00
289_S	292_F	0.510	1.00
243_S	266_G	0.509	1.00
226_M	229_W	0.509	1.00
62_V	124_G	0.507	1.00
14_K	47_Y	0.506	1.00
257_R	260_G	0.505	1.00
175_I	186_V	0.505	1.00
184_L	187_S	0.505	1.00
183_C	213_M	0.504	1.00
40_C	338_K	0.501	1.00
133_E	136_Q	0.501	1.00
163_H	294_S	0.501	1.00
156_A	291_R	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
4ilkA	2	0.9679	100	0.18	Contact Map
4ej6A	1	0.9679	100	0.184	Contact Map
1e3jA	4	0.9767	100	0.205	Contact Map
3m6iA	4	0.9825	100	0.206	Contact Map
2d8aA	3	0.9359	100	0.21	Contact Map
4uejA	2	0.9621	100	0.211	Contact Map
2dq4A	4	0.9621	100	0.213	Contact Map
1h2bA	4	0.9592	100	0.213	Contact Map
1pl8A	4	0.9854	100	0.214	Contact Map
4oh1A	4	0.9534	100	0.217	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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