PDXB - ECOLI - GREMLIN Contacts

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PDXB - Erythronate-4-phosphate dehydrogenase

UniProt:	P05459	Sequences: MKILVDENMPYARDLFSRLGEVTAVPGRPIPVAQLADADALMVRSVTKVNESLLAGKPIKFVGTATAGTDHVDEAWLKQAGIGFSAAPGCNAIAVVEYVFSSLLMLAERDGFSLYDRTVGIVGVGNVGRRLQARLEALGIKTLLCDPPRADRGDEGDFRSLDELVQRADILTFHTPLFKDGPYKTLHLADEKLIRSLKPGAILINACRGAVVDNTALLTCLNEGQKLSVVLDVWEGEPELNVELLKKVDIGTSHIAGYTLEGKARGTTQVFEAYSKFIGHEQHVALDTLLPAPEFGRITLHGPLDQPTLKRLVHLVYDVRRDDAPLRKVAGIPGEFDKLRKNYLERREWSSLYVICDDASAASLLCKLGFNAVHHPAR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10692
Length:	378 (295)
Sequences:	4413 (2708)
Seq/√Len:	157.6

ECOLI - PDXB SERA GHRA LDHD GHRB
BACSU - SERA YOAD TKRA
HALSA - Q9HMR0 Q9HSS1 Q9HPW9
SULSO - Q97ZK1 Q97U35

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
190_D	193_L	5.085	1.00
213_D	216_A	4.578	1.00
191_E	219_T	4.065	1.00
199_P	225_Q	3.364	1.00
162_D	196_S	3.268	1.00
160_S	163_E	3.111	1.00
119_V	135_L	2.985	1.00
118_T	141_K	2.782	1.00
187_H	235_E	2.644	1.00
201_A	226_K	2.541	1.00
51_E	55_A	2.507	1.00
107_A	170_I	2.478	1.00
189_A	194_I	2.461	1.00
120_G	164_L	2.434	1.00
51_E	79_Q	2.411	1.00
222_N	247_K	2.294	1.00
100_F	138_L	2.276	1.00
178_F	184_K	2.263	1.00
54_L	62_V	2.242	1.00
166_Q	196_S	2.227	1.00
118_T	143_L	2.199	1.00
165_V	193_L	2.193	1.00
218_L	247_K	2.142	1.00
194_I	203_L	2.122	1.00
4_L	38_A	2.099	1.00
28_R	52_S	2.086	1.00
191_E	195_R	2.077	1.00
10_P	14_D	2.027	1.00
187_H	213_D	1.989	1.00
2_K	21_E	1.916	1.00
194_I	220_C	1.908	1.00
202_I	227_L	1.859	1.00
177_L	186_L	1.843	1.00
120_G	168_A	1.810	1.00
143_L	167_R	1.750	1.00
100_F	135_L	1.732	1.00
219_T	223_E	1.723	1.00
173_F	211_V	1.720	1.00
218_L	222_N	1.708	1.00
106_L	228_S	1.695	1.00
98_Y	256_A	1.694	1.00
197_L	201_A	1.693	1.00
163_E	167_R	1.693	1.00
189_A	193_L	1.692	1.00
41_L	49_V	1.678	1.00
23_T	38_A	1.676	1.00
164_L	168_A	1.651	1.00
177_L	210_A	1.651	1.00
76_W	79_Q	1.641	1.00
37_D	58_P	1.638	1.00
119_V	140_I	1.627	1.00
131_L	172_T	1.620	1.00
195_R	225_Q	1.606	1.00
169_D	198_K	1.604	1.00
14_D	18_R	1.594	1.00
55_A	80_A	1.586	1.00
194_I	197_L	1.584	1.00
39_D	60_K	1.575	1.00
72_V	84_F	1.575	1.00
179_K	186_L	1.568	1.00
124_V	144_L	1.554	1.00
192_K	196_S	1.530	1.00
117_R	261_E	1.511	1.00
276_K	281_E	1.509	1.00
165_V	189_A	1.507	1.00
28_R	50_N	1.499	1.00
28_R	32_V	1.498	1.00
63_G	270_V	1.460	1.00
99_V	131_L	1.453	1.00
202_I	228_S	1.431	1.00
222_N	246_K	1.430	1.00
135_L	140_I	1.429	1.00
23_T	34_Q	1.427	1.00
195_R	223_E	1.417	1.00
51_E	76_W	1.399	1.00
32_V	52_S	1.386	1.00
121_I	132_Q	1.381	1.00
165_V	171_L	1.373	1.00
118_T	168_A	1.365	1.00
171_L	201_A	1.360	1.00
64_T	72_V	1.356	1.00
159_R	163_E	1.351	1.00
162_D	193_L	1.350	1.00
77_L	84_F	1.348	1.00
217_L	229_V	1.343	1.00
106_L	230_V	1.337	1.00
141_K	167_R	1.320	1.00
220_C	226_K	1.319	1.00
122_V	173_F	1.308	1.00
191_E	216_A	1.299	1.00
115_Y	139_G	1.290	1.00
50_N	53_L	1.288	1.00
121_I	172_T	1.278	1.00
215_T	243_E	1.272	1.00
234_W	251_G	1.266	1.00
40_A	61_F	1.261	1.00
203_L	212_V	1.260	1.00
106_L	202_I	1.248	1.00
39_D	58_P	1.236	1.00
200_G	226_K	1.227	1.00
13_R	17_S	1.225	1.00
198_K	201_A	1.220	1.00
141_K	157_D	1.199	1.00
11_Y	264_A	1.194	1.00
43_V	72_V	1.189	1.00
61_F	85_S	1.182	1.00
32_V	53_L	1.181	1.00
54_L	80_A	1.178	1.00
97_E	134_R	1.170	1.00
130_R	133_A	1.170	1.00
40_A	274_Y	1.168	1.00
194_I	225_Q	1.168	1.00
143_L	168_A	1.160	1.00
83_G	286_L	1.159	1.00
76_W	80_A	1.153	1.00
121_I	128_G	1.152	1.00
170_I	202_I	1.146	1.00
2_K	37_D	1.135	1.00
14_D	17_S	1.127	1.00
190_D	216_A	1.126	1.00
15_L	271_F	1.126	1.00
176_P	185_T	1.120	1.00
222_N	243_E	1.118	1.00
72_V	77_L	1.115	1.00
159_R	164_L	1.107	1.00
35_L	57_K	1.096	0.99
200_G	225_Q	1.085	0.99
221_L	249_D	1.079	0.99
189_A	203_L	1.078	0.99
277_F	283_H	1.077	0.99
74_E	78_K	1.075	0.99
121_I	131_L	1.073	0.99
207_C	211_V	1.067	0.99
179_K	184_K	1.063	0.99
192_K	195_R	1.062	0.99
75_A	79_Q	1.059	0.99
157_D	167_R	1.057	0.99
104_L	138_L	1.050	0.99
143_L	159_R	1.044	0.99
171_L	197_L	1.038	0.99
54_L	82_I	1.038	0.99
203_L	226_K	1.037	0.99
175_T	211_V	1.034	0.99
175_T	207_C	1.031	0.99
91_N	257_G	1.027	0.99
151_D	155_E	1.026	0.99
275_S	279_G	1.024	0.99
57_K	80_A	1.005	0.99
276_K	284_V	1.005	0.99
99_V	206_A	1.004	0.99
61_F	274_Y	1.003	0.99
55_A	76_W	1.003	0.99
15_L	275_S	0.998	0.99
92_A	130_R	0.996	0.99
200_G	223_E	0.994	0.99
187_H	190_D	0.991	0.99
217_L	226_K	0.989	0.99
106_L	250_I	0.982	0.99
19_L	275_S	0.973	0.99
159_R	167_R	0.968	0.99
61_F	277_F	0.967	0.99
165_V	201_A	0.966	0.99
161_L	193_L	0.965	0.99
62_V	77_L	0.957	0.99
190_D	213_D	0.953	0.99
2_K	23_T	0.952	0.99
33_A	36_A	0.952	0.99
188_L	211_V	0.952	0.99
73_D	76_W	0.951	0.99
36_A	57_K	0.951	0.99
175_T	188_L	0.945	0.98
130_R	134_R	0.943	0.98
122_V	189_A	0.938	0.98
221_L	229_V	0.937	0.98
217_L	231_L	0.937	0.98
162_D	192_K	0.928	0.98
140_I	170_I	0.927	0.98
215_T	219_T	0.921	0.98
93_I	97_E	0.921	0.98
40_A	270_V	0.921	0.98
93_I	134_R	0.919	0.98
29_P	52_S	0.916	0.98
268_T	272_E	0.907	0.98
218_L	243_E	0.907	0.98
174_H	206_A	0.906	0.98
19_L	279_G	0.905	0.98
66_T	71_H	0.902	0.98
173_F	203_L	0.893	0.98
54_L	76_W	0.891	0.98
172_T	206_A	0.888	0.98
98_Y	102_S	0.883	0.98
221_L	247_K	0.878	0.98
51_E	80_A	0.877	0.98
219_T	222_N	0.877	0.98
239_E	242_V	0.877	0.98
30_I	33_A	0.875	0.97
133_A	139_G	0.865	0.97
37_D	57_K	0.864	0.97
131_L	174_H	0.861	0.97
129_R	153_G	0.860	0.97
165_V	197_L	0.855	0.97
193_L	196_S	0.853	0.97
177_L	185_T	0.852	0.97
102_S	230_V	0.850	0.97
122_V	175_T	0.844	0.97
10_P	17_S	0.844	0.97
25_V	34_Q	0.843	0.97
218_L	246_K	0.842	0.97
93_I	115_Y	0.842	0.97
122_V	171_L	0.838	0.97
168_A	171_L	0.835	0.97
118_T	167_R	0.834	0.97
90_C	266_G	0.833	0.97
103_L	170_I	0.832	0.97
214_N	235_E	0.830	0.97
35_L	56_G	0.830	0.97
201_A	225_Q	0.830	0.97
187_H	210_A	0.829	0.96
98_Y	252_T	0.828	0.96
218_L	231_L	0.827	0.96
276_K	280_H	0.824	0.96
64_T	71_H	0.822	0.96
101_S	104_L	0.821	0.96
222_N	249_D	0.816	0.96
78_K	288_T	0.814	0.96
15_L	272_E	0.812	0.96
5_V	12_A	0.809	0.96
203_L	217_L	0.805	0.96
112_F	202_I	0.802	0.96
3_I	16_F	0.801	0.96
5_V	16_F	0.801	0.96
122_V	161_L	0.793	0.95
89_G	126_N	0.789	0.95
152_R	155_E	0.788	0.95
106_L	204_I	0.781	0.95
162_D	166_Q	0.780	0.95
186_L	210_A	0.774	0.95
193_L	197_L	0.764	0.94
150_A	153_G	0.763	0.94
258_Y	263_K	0.761	0.94
112_F	117_R	0.760	0.94
124_V	129_R	0.758	0.94
208_R	254_H	0.758	0.94
161_L	165_V	0.758	0.94
113_S	265_R	0.757	0.94
112_F	260_L	0.756	0.94
171_L	203_L	0.755	0.94
89_G	92_A	0.753	0.94
112_F	170_I	0.752	0.94
165_V	196_S	0.747	0.94
34_Q	38_A	0.742	0.94
56_G	59_I	0.740	0.94
11_Y	14_D	0.739	0.93
143_L	164_L	0.739	0.93
30_I	34_Q	0.738	0.93
245_L	251_G	0.736	0.93
96_V	134_R	0.736	0.93
94_A	262_G	0.735	0.93
272_E	276_K	0.734	0.93
218_L	251_G	0.733	0.93
13_R	24_A	0.730	0.93
98_Y	255_I	0.727	0.93
93_I	130_R	0.725	0.93
4_L	25_V	0.725	0.93
54_L	77_L	0.723	0.93
122_V	188_L	0.718	0.92
146_D	174_H	0.717	0.92
94_A	113_S	0.713	0.92
161_L	189_A	0.712	0.92
42_M	270_V	0.707	0.92
114_L	170_I	0.706	0.92
215_T	235_E	0.705	0.92
16_F	271_F	0.704	0.92
214_N	241_N	0.701	0.92
49_V	53_L	0.701	0.92
98_Y	101_S	0.699	0.91
40_A	278_I	0.695	0.91
296_G	300_L	0.694	0.91
34_Q	37_D	0.694	0.91
230_V	250_I	0.693	0.91
221_L	226_K	0.692	0.91
197_L	225_Q	0.692	0.91
269_Q	285_A	0.691	0.91
103_L	119_V	0.689	0.91
200_G	227_L	0.689	0.91
93_I	133_A	0.686	0.91
70_D	177_L	0.684	0.91
220_C	225_Q	0.681	0.90
163_E	166_Q	0.681	0.90
150_A	154_D	0.678	0.90
164_L	171_L	0.678	0.90
43_V	49_V	0.677	0.90
297_R	300_L	0.675	0.90
86_A	287_D	0.672	0.90
83_G	283_H	0.669	0.90
173_F	189_A	0.667	0.89
15_L	268_T	0.664	0.89
20_G	275_S	0.663	0.89
35_L	41_L	0.661	0.89
149_R	158_F	0.661	0.89
87_A	266_G	0.660	0.89
151_D	154_D	0.659	0.89
32_V	36_A	0.655	0.89
149_R	153_G	0.655	0.89
93_I	113_S	0.655	0.89
95_V	256_A	0.650	0.88
49_V	54_L	0.649	0.88
87_A	90_C	0.645	0.88
96_V	130_R	0.642	0.88
265_R	268_T	0.641	0.88
44_R	91_N	0.641	0.88
202_I	230_V	0.639	0.87
48_K	70_D	0.636	0.87
8_N	46_V	0.636	0.87
201_A	220_C	0.634	0.87
52_S	55_A	0.633	0.87
111_G	259_T	0.631	0.87
257_G	263_K	0.631	0.87
295_F	300_L	0.630	0.87
159_R	168_A	0.630	0.87
90_C	257_G	0.629	0.87
107_A	202_I	0.627	0.86
25_V	30_I	0.622	0.86
131_L	135_L	0.621	0.86
114_L	138_L	0.621	0.86
212_V	217_L	0.619	0.86
236_G	240_L	0.616	0.85
102_S	206_A	0.613	0.85
12_A	267_T	0.609	0.85
175_T	185_T	0.608	0.85
67_A	126_N	0.608	0.85
68_G	254_H	0.607	0.85
293_P	296_G	0.607	0.85
188_L	193_L	0.606	0.84
145_C	161_L	0.604	0.84
61_F	278_I	0.602	0.84
283_H	286_L	0.602	0.84
295_F	298_I	0.601	0.84
161_L	188_L	0.601	0.84
215_T	242_V	0.600	0.84
89_G	269_Q	0.599	0.84
149_R	154_D	0.599	0.84
119_V	131_L	0.595	0.83
91_N	94_A	0.595	0.83
100_F	131_L	0.594	0.83
51_E	73_D	0.594	0.83
113_S	259_T	0.593	0.83
107_A	114_L	0.593	0.83
29_P	33_A	0.591	0.83
212_V	229_V	0.591	0.83
218_L	241_N	0.589	0.83
103_L	204_I	0.588	0.83
194_I	217_L	0.588	0.83
144_L	158_F	0.584	0.82
96_V	185_T	0.583	0.82
32_V	35_L	0.583	0.82
61_F	83_G	0.581	0.82
296_G	299_T	0.580	0.82
83_G	289_L	0.580	0.82
243_E	246_K	0.579	0.82
12_A	271_F	0.578	0.82
240_L	243_E	0.578	0.82
132_Q	142_T	0.578	0.82
103_L	202_I	0.578	0.82
117_R	140_I	0.577	0.81
119_V	172_T	0.576	0.81
277_F	280_H	0.575	0.81
102_S	250_I	0.574	0.81
173_F	194_I	0.573	0.81
7_E	47_T	0.570	0.81
6_D	43_V	0.566	0.80
67_A	89_G	0.565	0.80
63_G	85_S	0.564	0.80
214_N	236_G	0.562	0.80
121_I	142_T	0.562	0.80
60_K	278_I	0.561	0.80
280_H	283_H	0.558	0.79
49_V	52_S	0.557	0.79
62_V	82_I	0.557	0.79
44_R	64_T	0.557	0.79
27_G	34_Q	0.556	0.79
239_E	245_L	0.556	0.79
201_A	227_L	0.554	0.79
6_D	47_T	0.553	0.79
87_A	270_V	0.552	0.79
16_F	42_M	0.552	0.79
99_V	172_T	0.549	0.78
135_L	142_T	0.548	0.78
273_A	285_A	0.548	0.78
100_F	134_R	0.547	0.78
103_L	131_L	0.546	0.78
63_G	274_Y	0.545	0.78
272_E	284_V	0.545	0.78
35_L	53_L	0.542	0.77
7_E	46_V	0.542	0.77
9_M	42_M	0.542	0.77
102_S	105_M	0.540	0.77
5_V	13_R	0.537	0.77
109_R	249_D	0.534	0.76
173_F	207_C	0.533	0.76
118_T	198_K	0.533	0.76
243_E	247_K	0.532	0.76
35_L	38_A	0.531	0.76
56_G	80_A	0.528	0.75
6_D	41_L	0.526	0.75
105_M	250_I	0.522	0.75
95_V	100_F	0.522	0.75
274_Y	278_I	0.522	0.75
104_L	137_A	0.522	0.75
214_N	242_V	0.519	0.74
100_F	119_V	0.519	0.74
165_V	188_L	0.519	0.74
112_F	227_L	0.518	0.74
144_L	154_D	0.517	0.74
42_M	274_Y	0.516	0.74
220_C	229_V	0.515	0.74
172_T	207_C	0.515	0.74
187_H	216_A	0.514	0.74
108_E	256_A	0.514	0.74
17_S	24_A	0.514	0.74
96_V	131_L	0.513	0.73
147_P	178_F	0.513	0.73
85_S	285_A	0.513	0.73
44_R	65_A	0.513	0.73
6_D	46_V	0.513	0.73
40_A	63_G	0.512	0.73
95_V	234_W	0.512	0.73
11_Y	268_T	0.511	0.73
271_F	275_S	0.511	0.73
136_E	142_T	0.510	0.73
189_A	197_L	0.509	0.73
68_G	208_R	0.509	0.73
3_I	20_G	0.509	0.73
124_V	149_R	0.508	0.73
90_C	262_G	0.507	0.73
152_R	156_G	0.507	0.73
95_V	99_V	0.507	0.73
91_N	95_V	0.506	0.72
134_R	138_L	0.503	0.72
44_R	47_T	0.502	0.72
35_L	54_L	0.501	0.72
44_R	257_G	0.500	0.72

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
3oetA	2	0.9974	100	0.229	Contact Map
2o4cA	2	0.9868	100	0.23	Contact Map
1sc6A	4	0.9365	100	0.395	Contact Map
3k5pA	3	0.955	100	0.406	Contact Map
1ygyA	4	0.9735	100	0.423	Contact Map
2g76A	2	0.7249	100	0.434	Contact Map
1dxyA	5	0.754	100	0.436	Contact Map
4g2nA	3	0.7513	100	0.437	Contact Map
3ba1A	2	0.7513	100	0.44	Contact Map
2yq5A	4	0.7513	100	0.446	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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