MDH - BACSU - GREMLIN Contacts

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MDH - Malate dehydrogenase

UniProt:	P49814	Sequences: MGNTRKKVSVIGAGFTGATTAFLIAQKELADVVLVDIPQLENPTKGKALDMLEASPVQGFDAKITGTSNYEDTAGSDIVVITAGIARKPGMSRDDLVSTNEKIMRSVTQEIVKYSPDSIIVVLTNPVDAMTYAVYKESGFPKERVIGQSGVLDTARFRTFVAEELNLSVKDVTGFVLGGHGDDMVPLVRYSYAGGIPLETLIPKERIDAIVERTRKGGGEIVNLLGNGSAYYAPAASLTEMVEAILKDQRRVLPTIAYLEGEYGYEGIYLGVPTIVGGNGLEQIIELELTDYERAQLNKSVESVKNVMKVLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	312 (297)
Sequences:	4891 (2843)
Seq/√Len:	165.0

ECOLI - MDH
BACSU - MDH LDH
HALSA - MDH
SULSO - MDH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
9_S	76_S	4.277	1.00
212_E	216_K	2.978	1.00
78_I	242_V	2.962	1.00
294_R	298_N	2.888	1.00
80_V	242_V	2.589	1.00
123_L	238_L	2.457	1.00
85_I	99_T	2.429	1.00
9_S	73_T	2.383	1.00
101_E	133_A	2.346	1.00
73_T	115_S	2.332	1.00
27_K	243_E	2.274	1.00
142_K	260_E	2.268	1.00
250_R	277_G	2.225	1.00
213_R	220_E	2.204	1.00
302_E	306_N	2.203	1.00
277_G	282_E	2.168	1.00
270_L	297_L	2.161	1.00
265_Y	297_L	2.120	1.00
110_E	113_K	2.109	1.00
165_L	193_A	2.035	1.00
164_E	206_R	1.985	1.00
209_A	213_R	1.959	1.00
112_V	140_F	1.936	1.00
177_L	187_L	1.926	1.00
274_T	281_L	1.901	1.00
250_R	282_E	1.887	1.00
275_I	283_Q	1.884	1.00
105_R	109_Q	1.868	1.00
119_I	245_I	1.862	1.00
7_K	31_D	1.860	1.00
135_Y	269_Y	1.853	1.00
106_S	110_E	1.853	1.00
265_Y	298_N	1.836	1.00
270_L	301_V	1.830	1.00
257_A	274_T	1.819	1.00
108_T	134_V	1.815	1.00
174_G	191_S	1.806	1.00
7_K	33_V	1.803	1.00
259_L	272_V	1.799	1.00
108_T	138_S	1.799	1.00
298_N	302_E	1.779	1.00
258_Y	269_Y	1.774	1.00
97_V	307_V	1.772	1.00
295_A	299_K	1.757	1.00
140_F	144_R	1.719	1.00
109_Q	137_E	1.672	1.00
109_Q	113_K	1.665	1.00
8_V	30_A	1.659	1.00
291_D	294_R	1.612	1.00
44_T	48_A	1.605	1.00
148_Q	238_L	1.572	1.00
8_V	24_I	1.566	1.00
291_D	295_A	1.563	1.00
104_M	134_V	1.560	1.00
149_S	271_G	1.539	1.00
91_M	99_T	1.537	1.00
185_V	293_E	1.534	1.00
243_E	247_K	1.527	1.00
131_T	269_Y	1.510	1.00
176_V	186_P	1.504	1.00
10_V	21_A	1.491	1.00
13_A	34_L	1.490	1.00
147_G	256_I	1.483	1.00
203_P	206_R	1.482	1.00
296_Q	299_K	1.480	1.00
87_R	218_G	1.472	1.00
102_K	105_R	1.471	1.00
208_D	212_E	1.470	1.00
279_N	282_E	1.470	1.00
20_T	238_L	1.468	1.00
70_Y	114_Y	1.460	1.00
52_L	163_E	1.456	1.00
42_N	45_K	1.429	1.00
132_Y	136_K	1.418	1.00
70_Y	113_K	1.414	1.00
120_I	134_V	1.399	1.00
151_V	237_S	1.399	1.00
52_L	159_T	1.398	1.00
132_Y	308_M	1.385	1.00
105_R	137_E	1.380	1.00
162_A	172_V	1.370	1.00
92_S	95_D	1.347	1.00
81_I	122_V	1.344	1.00
62_A	65_T	1.342	1.00
73_T	76_S	1.329	1.00
299_K	302_E	1.322	1.00
71_E	74_A	1.318	1.00
161_V	172_V	1.313	1.00
111_I	140_F	1.309	1.00
292_Y	296_Q	1.308	1.00
168_S	171_D	1.307	1.00
22_F	235_A	1.307	1.00
252_V	275_I	1.304	1.00
248_D	278_G	1.296	1.00
257_A	281_L	1.295	1.00
183_D	303_S	1.293	1.00
216_K	219_G	1.263	1.00
265_Y	301_V	1.263	1.00
186_P	211_V	1.249	1.00
54_A	236_A	1.247	1.00
41_E	45_K	1.244	1.00
85_I	88_K	1.232	1.00
200_T	288_E	1.227	1.00
151_V	253_L	1.224	1.00
173_T	192_Y	1.223	1.00
212_E	215_R	1.222	1.00
171_D	194_G	1.216	1.00
111_I	120_I	1.209	1.00
135_Y	258_Y	1.206	1.00
295_A	298_N	1.203	1.00
7_K	75_G	1.202	1.00
38_P	42_N	1.202	1.00
204_K	207_I	1.200	1.00
104_M	108_T	1.190	1.00
119_I	144_R	1.187	1.00
78_I	121_V	1.184	1.00
112_V	139_G	1.180	1.00
259_L	262_E	1.179	1.00
164_E	209_A	1.176	1.00
220_E	223_N	1.172	1.00
127_V	147_G	1.165	1.00
20_T	242_V	1.164	1.00
79_V	111_I	1.162	1.00
24_I	29_L	1.159	1.00
220_E	224_L	1.158	1.00
240_E	251_R	1.153	1.00
189_R	293_E	1.153	1.00
41_E	69_N	1.150	1.00
115_S	118_S	1.147	1.00
24_I	32_V	1.144	1.00
77_D	116_P	1.137	1.00
22_F	26_Q	1.137	1.00
106_S	109_Q	1.131	1.00
42_N	223_N	1.130	1.00
133_A	137_E	1.127	1.00
146_I	245_I	1.124	1.00
189_R	290_T	1.123	1.00
305_K	309_K	1.122	1.00
20_T	80_V	1.120	1.00
122_V	134_V	1.117	1.00
255_T	274_T	1.111	1.00
96_L	100_N	1.099	1.00
38_P	43_P	1.097	1.00
93_R	125_N	1.094	1.00
67_T	72_D	1.092	1.00
33_V	72_D	1.089	1.00
306_N	309_K	1.082	1.00
125_N	180_H	1.082	1.00
42_N	224_L	1.080	1.00
143_E	279_N	1.075	0.99
46_G	224_L	1.073	0.99
99_T	102_K	1.073	0.99
298_N	301_V	1.073	0.99
261_G	264_G	1.072	0.99
299_K	303_S	1.067	0.99
260_E	266_E	1.067	0.99
53_E	217_G	1.066	0.99
170_K	249_Q	1.045	0.99
117_D	141_P	1.045	0.99
79_V	118_S	1.040	0.99
135_Y	142_K	1.040	0.99
93_R	180_H	1.038	0.99
77_D	117_D	1.033	0.99
81_I	134_V	1.026	0.99
98_S	102_K	1.023	0.99
20_T	235_A	1.022	0.99
142_K	258_Y	1.021	0.99
15_F	231_Y	1.020	0.99
69_N	72_D	1.012	0.99
192_Y	195_G	1.004	0.99
275_I	282_E	1.004	0.99
262_E	285_I	1.000	0.99
18_A	47_K	0.988	0.99
29_L	247_K	0.988	0.99
183_D	300_S	0.985	0.99
292_Y	295_A	0.982	0.99
158_R	173_T	0.978	0.99
95_D	98_S	0.965	0.99
44_T	68_S	0.964	0.99
216_K	223_N	0.962	0.99
297_L	301_V	0.958	0.99
18_A	235_A	0.953	0.99
91_M	95_D	0.950	0.99
33_V	76_S	0.949	0.99
68_S	72_D	0.947	0.99
289_L	297_L	0.945	0.99
35_V	70_Y	0.944	0.99
187_L	289_L	0.942	0.99
87_R	222_V	0.937	0.99
183_D	299_K	0.935	0.99
196_I	200_T	0.933	0.99
162_A	169_V	0.929	0.99
205_E	209_A	0.924	0.98
108_T	120_I	0.923	0.98
159_T	163_E	0.923	0.98
43_P	47_K	0.922	0.98
121_V	241_M	0.922	0.98
85_I	103_I	0.912	0.98
218_G	222_V	0.909	0.98
275_I	285_I	0.908	0.98
157_F	174_G	0.907	0.98
141_P	144_R	0.898	0.98
104_M	130_M	0.892	0.98
78_I	246_L	0.889	0.98
75_G	116_P	0.884	0.98
243_E	249_Q	0.883	0.98
80_V	121_V	0.880	0.98
74_A	114_Y	0.879	0.98
206_R	209_A	0.876	0.98
21_A	34_L	0.876	0.98
160_F	213_R	0.875	0.98
76_S	79_V	0.873	0.98
29_L	239_T	0.872	0.98
31_D	63_K	0.872	0.98
235_A	239_T	0.871	0.98
132_Y	135_Y	0.867	0.98
71_E	114_Y	0.861	0.98
121_V	242_V	0.860	0.98
129_A	307_V	0.858	0.98
135_Y	145_V	0.857	0.98
131_T	147_G	0.855	0.97
81_I	104_M	0.855	0.97
27_K	239_T	0.854	0.97
127_V	131_T	0.854	0.97
79_V	115_S	0.853	0.97
167_L	193_A	0.843	0.97
87_R	219_G	0.843	0.97
154_T	158_R	0.841	0.97
6_K	246_L	0.835	0.97
200_T	203_P	0.830	0.97
108_T	131_T	0.824	0.97
145_V	269_Y	0.824	0.97
197_P	200_T	0.816	0.97
161_V	165_L	0.813	0.97
238_L	242_V	0.810	0.97
303_S	307_V	0.808	0.96
11_I	107_V	0.808	0.96
160_F	163_E	0.808	0.96
15_F	18_A	0.806	0.96
45_K	224_L	0.804	0.96
260_E	267_G	0.802	0.96
89_P	223_N	0.802	0.96
92_S	182_D	0.802	0.96
24_I	30_A	0.800	0.96
70_Y	107_V	0.799	0.96
87_R	96_L	0.798	0.96
302_E	309_K	0.796	0.96
118_S	140_F	0.795	0.96
75_G	117_D	0.794	0.96
255_T	276_V	0.793	0.96
13_A	47_K	0.789	0.96
104_M	122_V	0.788	0.96
23_L	235_A	0.786	0.96
121_V	245_I	0.785	0.96
272_V	284_I	0.781	0.96
302_E	305_K	0.778	0.96
196_I	201_L	0.774	0.95
177_L	185_V	0.773	0.95
157_F	186_P	0.770	0.95
202_I	206_R	0.770	0.95
20_T	24_I	0.768	0.95
10_V	20_T	0.766	0.95
94_D	129_A	0.761	0.95
188_V	214_T	0.760	0.95
167_L	172_V	0.760	0.95
19_T	232_Y	0.760	0.95
93_R	96_L	0.759	0.95
182_D	219_G	0.757	0.95
277_G	280_G	0.751	0.95
35_V	73_T	0.750	0.95
41_E	67_T	0.749	0.95
108_T	112_V	0.749	0.95
45_K	68_S	0.749	0.95
127_V	149_S	0.748	0.95
20_T	82_T	0.746	0.94
103_I	124_T	0.745	0.94
241_M	255_T	0.742	0.94
76_S	115_S	0.742	0.94
151_V	241_M	0.740	0.94
96_L	222_V	0.736	0.94
112_V	138_S	0.734	0.94
81_I	107_V	0.732	0.94
132_Y	145_V	0.729	0.94
211_V	215_R	0.727	0.94
165_L	172_V	0.727	0.94
143_E	280_G	0.723	0.94
260_E	285_I	0.718	0.93
140_F	145_V	0.717	0.93
41_E	68_S	0.717	0.93
33_V	68_S	0.712	0.93
204_K	208_D	0.710	0.93
87_R	91_M	0.710	0.93
202_I	207_I	0.706	0.93
119_I	146_I	0.704	0.93
268_I	305_K	0.703	0.93
134_V	145_V	0.702	0.93
15_F	229_S	0.702	0.93
185_V	300_S	0.696	0.92
176_V	211_V	0.695	0.92
24_I	239_T	0.694	0.92
23_L	26_Q	0.691	0.92
83_A	103_I	0.690	0.92
221_I	233_A	0.689	0.92
219_G	223_N	0.685	0.92
80_V	238_L	0.684	0.92
70_Y	74_A	0.684	0.92
208_D	292_Y	0.677	0.91
177_L	287_L	0.674	0.91
19_T	231_Y	0.674	0.91
63_K	163_E	0.669	0.91
209_A	212_E	0.668	0.91
157_F	191_S	0.667	0.90
19_T	23_L	0.666	0.90
240_E	249_Q	0.665	0.90
123_L	148_Q	0.665	0.90
268_I	301_V	0.664	0.90
65_T	72_D	0.661	0.90
134_V	138_S	0.659	0.90
24_I	242_V	0.656	0.90
88_K	99_T	0.655	0.90
112_V	120_I	0.655	0.90
102_K	106_S	0.653	0.90
233_A	236_A	0.651	0.89
257_A	271_G	0.649	0.89
94_D	307_V	0.648	0.89
112_V	118_S	0.644	0.89
261_G	266_E	0.642	0.89
241_M	253_L	0.641	0.89
132_Y	267_G	0.640	0.89
47_K	235_A	0.638	0.88
58_Q	236_A	0.634	0.88
289_L	298_N	0.633	0.88
48_A	52_L	0.632	0.88
70_Y	110_E	0.632	0.88
301_V	305_K	0.626	0.88
9_S	115_S	0.625	0.87
282_E	285_I	0.625	0.87
38_P	44_T	0.625	0.87
216_K	220_E	0.625	0.87
9_S	33_V	0.623	0.87
261_G	286_E	0.623	0.87
108_T	137_E	0.622	0.87
265_Y	305_K	0.622	0.87
136_K	258_Y	0.621	0.87
21_A	51_M	0.621	0.87
35_V	107_V	0.620	0.87
265_Y	294_R	0.620	0.87
158_R	240_E	0.619	0.87
173_T	251_R	0.619	0.87
73_T	112_V	0.614	0.86
18_A	232_Y	0.614	0.86
104_M	137_E	0.612	0.86
111_I	114_Y	0.611	0.86
218_G	230_A	0.611	0.86
250_R	275_I	0.611	0.86
101_E	137_E	0.610	0.86
94_D	303_S	0.610	0.86
222_V	229_S	0.610	0.86
23_L	239_T	0.610	0.86
6_K	77_D	0.610	0.86
187_L	190_Y	0.610	0.86
153_D	156_R	0.609	0.86
53_E	159_T	0.608	0.86
93_R	153_D	0.607	0.86
190_Y	287_L	0.603	0.86
162_A	167_L	0.601	0.85
127_V	148_Q	0.597	0.85
218_G	229_S	0.595	0.85
211_V	296_Q	0.594	0.85
25_A	51_M	0.594	0.85
157_F	185_V	0.593	0.85
185_V	296_Q	0.591	0.84
248_D	277_G	0.591	0.84
262_E	283_Q	0.590	0.84
161_V	174_G	0.589	0.84
22_F	232_Y	0.589	0.84
84_G	124_T	0.586	0.84
244_A	255_T	0.586	0.84
110_E	114_Y	0.586	0.84
82_T	123_L	0.585	0.84
142_K	269_Y	0.579	0.83
244_A	251_R	0.578	0.83
281_L	284_I	0.578	0.83
163_E	213_R	0.577	0.83
61_D	168_S	0.574	0.83
185_V	211_V	0.566	0.82
180_H	218_G	0.565	0.82
81_I	108_T	0.564	0.82
91_M	96_L	0.562	0.81
65_T	68_S	0.561	0.81
177_L	289_L	0.560	0.81
185_V	289_L	0.558	0.81
277_G	281_L	0.557	0.81
144_R	279_N	0.552	0.80
10_V	32_V	0.552	0.80
254_P	271_G	0.550	0.80
280_G	283_Q	0.550	0.80
38_P	41_E	0.548	0.80
117_D	144_R	0.546	0.79
46_G	96_L	0.546	0.79
16_T	123_L	0.546	0.79
165_L	198_L	0.545	0.79
193_A	201_L	0.545	0.79
262_E	272_V	0.543	0.79
11_I	73_T	0.541	0.79
100_N	130_M	0.540	0.79
19_T	22_F	0.539	0.79
8_V	32_V	0.539	0.79
191_S	198_L	0.535	0.78
107_V	111_I	0.533	0.78
47_K	232_Y	0.530	0.77
148_Q	151_V	0.527	0.77
148_Q	271_G	0.525	0.77
282_E	287_L	0.525	0.77
265_Y	270_L	0.524	0.77
242_V	245_I	0.523	0.76
270_L	304_V	0.523	0.76
278_G	282_E	0.522	0.76
25_A	32_V	0.521	0.76
179_G	230_A	0.520	0.76
25_A	56_P	0.519	0.76
31_D	65_T	0.517	0.76
78_I	119_I	0.517	0.76
199_E	204_K	0.515	0.75
188_V	191_S	0.515	0.75
85_I	98_S	0.514	0.75
84_G	87_R	0.514	0.75
93_R	218_G	0.512	0.75
289_L	293_E	0.511	0.75
75_G	115_S	0.511	0.75
290_T	294_R	0.511	0.75
17_G	21_A	0.510	0.75
31_D	61_D	0.509	0.75
157_F	210_I	0.509	0.75
127_V	256_I	0.509	0.75
288_E	294_R	0.508	0.74
244_A	253_L	0.507	0.74
125_N	156_R	0.507	0.74
14_G	180_H	0.506	0.74
21_A	32_V	0.506	0.74
136_K	139_G	0.505	0.74
38_P	67_T	0.505	0.74
158_R	174_G	0.505	0.74
135_Y	140_F	0.501	0.73
93_R	156_R	0.500	0.73
187_L	290_T	0.500	0.73

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)
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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
2d4aB	4	0.9679	100	0.207	Contact Map
4cl3A	4	0.984	100	0.215	Contact Map
3nepX	4	0.9519	100	0.217	Contact Map
1guzA	4	0.9744	100	0.221	Contact Map
4plzA	4	0.9519	100	0.223	Contact Map
2hjrA	4	0.9808	100	0.231	Contact Map
4rorA	4	0.984	100	0.231	Contact Map
1a5zA	3	0.9647	100	0.234	Contact Map
1lldA	3	0.9712	100	0.236	Contact Map
1pzgA	4	0.9936	100	0.237	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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