DAPA - BACSU - GREMLIN Contacts

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DAPA - 4-hydroxy-tetrahydrodipicolinate synthase

UniProt:	Q04796	Sequences: MNFGNVSTAMITPFDNKGNVDFQKLSTLIDYLLKNGTDSLVVAGTTGESPTLSTEEKIALFEYTVKEVNGRVPVIAGTGSNNTKDSIKLTKKAEEAGVDAVMLVTPYYNKPSQEGMYQHFKAIAAETSLPVMLYNVPGRTVASLAPETTIRLAADIPNVVAIKEASGDLEAITKIIAETPEDFYVYSGDDALTLPILSVGGRGVVSVASHIAGTDMQQMIKNYTNGQTANAALIHQKLLPIMKELFKAPNPAPVKTALQLRGLDVGSVRLPLVPLTEDERLSLSSTISEL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	290 (283)
Sequences:	10345 (6786)
Seq/√Len:	403.4

ECOLI - YJHH YAGE DAPA NANA
BACSU - DAPA KDGD
HALSA - DAPAL
SULSO - Q97UF0 Q97WF2 Q97UI2 KDGA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
227_Q	230_N	3.779	1.00
30_D	67_E	3.275	1.00
15_D	19_N	3.125	1.00
117_Y	151_R	3.101	1.00
260_L	284_S	2.899	1.00
26_S	67_E	2.810	1.00
22_F	59_A	2.720	1.00
94_E	128_S	2.623	1.00
26_S	63_Y	2.618	1.00
22_F	63_Y	2.616	1.00
58_I	92_K	2.503	1.00
78_T	90_T	2.499	1.00
222_N	230_N	2.478	1.00
196_I	201_G	2.421	1.00
90_T	101_V	2.236	1.00
230_N	233_L	2.164	1.00
30_D	71_R	2.044	1.00
222_N	227_Q	2.013	1.00
7_S	39_S	2.013	1.00
121_K	156_I	2.008	1.00
150_I	178_E	1.999	1.00
217_Q	221_K	1.993	1.00
221_K	225_N	1.979	1.00
125_A	156_I	1.978	1.00
113_Q	145_A	1.969	1.00
31_Y	35_N	1.965	1.00
113_Q	148_T	1.952	1.00
197_L	223_Y	1.950	1.00
83_T	119_H	1.908	1.00
59_A	62_E	1.875	1.00
38_D	221_K	1.873	1.00
121_K	125_A	1.869	1.00
256_T	280_R	1.850	1.00
21_D	24_K	1.842	1.00
114_E	118_Q	1.838	1.00
143_S	171_A	1.838	1.00
54_T	85_D	1.824	1.00
30_D	34_K	1.820	1.00
114_E	151_R	1.786	1.00
26_S	66_K	1.782	1.00
35_N	214_T	1.779	1.00
215_D	237_K	1.766	1.00
29_I	64_T	1.740	1.00
117_Y	121_K	1.713	1.00
65_V	74_V	1.690	1.00
62_E	66_K	1.686	1.00
59_A	63_Y	1.682	1.00
25_L	64_T	1.674	1.00
132_M	161_A	1.659	1.00
8_T	209_S	1.641	1.00
124_A	156_I	1.621	1.00
24_K	27_T	1.604	1.00
103_L	123_I	1.600	1.00
118_Q	121_K	1.593	1.00
56_E	269_R	1.562	1.00
259_Q	266_G	1.559	1.00
145_A	148_T	1.558	1.00
149_T	162_I	1.547	1.00
42_V	64_T	1.545	1.00
94_E	127_T	1.527	1.00
63_Y	67_E	1.520	1.00
61_F	76_A	1.516	1.00
33_L	72_V	1.480	1.00
281_L	284_S	1.475	1.00
13_P	25_L	1.470	1.00
151_R	155_D	1.466	1.00
233_L	237_K	1.461	1.00
25_L	60_L	1.447	1.00
86_S	123_I	1.410	1.00
277_E	281_L	1.368	1.00
118_Q	122_A	1.367	1.00
218_Q	222_N	1.364	1.00
277_E	280_R	1.351	1.00
11_I	258_L	1.350	1.00
7_S	41_V	1.344	1.00
94_E	129_L	1.342	1.00
256_T	260_L	1.335	1.00
38_D	217_Q	1.332	1.00
247_K	282_S	1.324	1.00
218_Q	230_N	1.321	1.00
90_T	127_T	1.318	1.00
92_K	95_E	1.314	1.00
63_Y	66_K	1.293	1.00
54_T	88_K	1.293	1.00
276_T	279_E	1.288	1.00
80_S	86_S	1.281	1.00
82_N	85_D	1.278	1.00
121_K	155_D	1.272	1.00
58_I	88_K	1.266	1.00
214_T	218_Q	1.263	1.00
174_K	178_E	1.260	1.00
4_G	224_T	1.257	1.00
31_Y	263_L	1.255	1.00
87_I	122_A	1.249	1.00
281_L	285_S	1.246	1.00
176_I	185_V	1.241	1.00
132_M	205_V	1.237	1.00
6_V	37_T	1.228	1.00
75_I	100_A	1.227	1.00
58_I	62_E	1.225	1.00
54_T	92_K	1.209	1.00
223_Y	228_T	1.208	1.00
101_V	127_T	1.202	1.00
122_A	270_L	1.187	1.00
29_I	68_V	1.182	1.00
55_E	59_A	1.182	1.00
61_F	93_A	1.175	1.00
194_L	231_A	1.175	1.00
48_E	255_K	1.162	1.00
259_Q	264_D	1.154	1.00
33_L	71_R	1.146	1.00
184_Y	202_R	1.144	1.00
124_A	158_N	1.143	1.00
43_A	60_L	1.143	1.00
19_N	84_K	1.140	1.00
228_T	232_A	1.138	1.00
220_I	224_T	1.133	1.00
68_V	74_V	1.131	1.00
147_E	178_E	1.129	1.00
65_V	99_D	1.121	1.00
15_D	21_D	1.120	1.00
122_A	125_A	1.117	1.00
62_E	92_K	1.112	1.00
91_K	95_E	1.099	1.00
256_T	259_Q	1.097	1.00
122_A	126_E	1.091	1.00
23_Q	26_S	1.080	1.00
58_I	95_E	1.077	1.00
91_K	126_E	1.076	1.00
22_F	26_S	1.064	1.00
62_E	96_A	1.062	1.00
75_I	132_M	1.061	1.00
14_F	52_L	1.060	1.00
218_Q	221_K	1.058	1.00
229_A	232_A	1.054	1.00
29_I	67_E	1.042	1.00
256_T	284_S	1.037	1.00
78_T	93_A	1.037	1.00
101_V	129_L	1.034	1.00
76_A	98_V	1.030	1.00
8_T	32_L	1.023	1.00
275_L	283_L	1.021	1.00
87_I	91_K	1.020	1.00
174_K	243_K	1.016	1.00
275_L	279_E	1.015	1.00
92_K	96_A	1.013	1.00
198_S	228_T	1.009	1.00
152_L	159_V	1.006	1.00
114_E	276_T	1.002	1.00
4_G	202_R	1.000	1.00
257_A	287_I	0.999	1.00
114_E	117_Y	0.998	1.00
24_K	265_V	0.997	1.00
16_N	267_S	0.989	1.00
6_V	217_Q	0.988	1.00
41_V	102_M	0.981	1.00
150_I	179_T	0.974	1.00
230_N	234_I	0.972	1.00
280_R	284_S	0.970	1.00
54_T	89_L	0.969	1.00
8_T	37_T	0.968	1.00
124_A	131_V	0.960	1.00
101_V	131_V	0.956	1.00
26_S	30_D	0.954	1.00
24_K	264_D	0.950	1.00
87_I	126_E	0.947	1.00
79_G	104_V	0.944	1.00
279_E	282_S	0.943	1.00
28_L	258_L	0.940	1.00
55_E	88_K	0.939	1.00
153_A	183_F	0.935	1.00
16_N	265_V	0.935	1.00
282_S	285_S	0.935	1.00
18_G	84_K	0.934	1.00
10_M	32_L	0.931	1.00
222_N	234_I	0.931	1.00
232_A	236_Q	0.931	1.00
57_K	89_L	0.928	1.00
172_I	196_I	0.928	1.00
118_Q	273_V	0.926	1.00
208_A	242_M	0.922	1.00
33_L	68_V	0.919	1.00
88_K	92_K	0.917	1.00
117_Y	155_D	0.917	1.00
65_V	98_V	0.914	1.00
133_L	149_T	0.912	1.00
259_Q	280_R	0.912	1.00
113_Q	151_R	0.910	1.00
244_E	286_T	0.907	1.00
135_N	143_S	0.903	1.00
117_Y	148_T	0.901	1.00
80_S	85_D	0.899	1.00
105_T	142_A	0.897	1.00
78_T	101_V	0.894	1.00
116_M	142_A	0.890	1.00
38_D	220_I	0.889	1.00
88_K	91_K	0.888	1.00
74_V	98_V	0.888	1.00
65_V	96_A	0.887	1.00
266_G	280_R	0.880	1.00
14_F	269_R	0.875	1.00
146_P	178_E	0.875	1.00
212_A	241_I	0.873	1.00
198_S	232_A	0.866	1.00
197_L	220_I	0.863	1.00
219_M	234_I	0.858	1.00
206_S	209_S	0.858	1.00
29_I	63_Y	0.856	1.00
278_D	281_L	0.850	1.00
186_Y	203_G	0.849	1.00
18_G	270_L	0.849	1.00
37_T	213_G	0.847	1.00
193_T	204_V	0.846	1.00
91_K	94_E	0.845	1.00
124_A	159_V	0.842	1.00
278_D	282_S	0.841	1.00
6_V	220_I	0.833	1.00
42_V	60_L	0.832	1.00
103_L	131_V	0.828	1.00
156_I	159_V	0.821	1.00
10_M	40_L	0.820	1.00
83_T	87_I	0.815	1.00
198_S	223_Y	0.811	1.00
226_G	229_A	0.805	1.00
6_V	204_V	0.803	1.00
187_S	196_I	0.800	1.00
266_G	274_P	0.795	1.00
27_T	263_L	0.790	1.00
259_Q	265_V	0.789	1.00
23_Q	27_T	0.788	1.00
260_L	280_R	0.787	1.00
55_E	58_I	0.787	1.00
146_P	171_A	0.784	1.00
61_F	96_A	0.776	1.00
146_P	150_I	0.773	1.00
117_Y	156_I	0.772	1.00
43_A	76_A	0.772	1.00
18_G	267_S	0.772	1.00
239_L	243_K	0.768	1.00
229_A	233_L	0.766	1.00
52_L	60_L	0.766	1.00
10_M	25_L	0.765	1.00
146_P	174_K	0.764	1.00
61_F	98_V	0.763	1.00
218_Q	234_I	0.762	1.00
212_A	238_L	0.759	1.00
235_H	239_L	0.754	1.00
212_A	215_D	0.752	1.00
25_L	29_I	0.752	1.00
45_T	108_Y	0.751	1.00
6_V	209_S	0.750	1.00
35_N	213_G	0.750	1.00
84_K	88_K	0.744	1.00
93_A	98_V	0.740	1.00
179_T	202_R	0.739	1.00
97_G	129_L	0.736	1.00
215_D	218_Q	0.735	1.00
195_P	198_S	0.732	1.00
39_S	75_I	0.730	1.00
252_A	268_V	0.727	1.00
118_Q	270_L	0.726	1.00
15_D	267_S	0.720	1.00
149_T	175_I	0.719	1.00
15_D	18_G	0.717	1.00
29_I	40_L	0.710	1.00
86_S	103_L	0.709	1.00
40_L	68_V	0.708	1.00
113_Q	147_E	0.706	1.00
20_V	25_L	0.704	1.00
15_D	23_Q	0.704	1.00
134_Y	163_K	0.703	1.00
105_T	144_L	0.702	1.00
219_M	223_Y	0.700	1.00
68_V	71_R	0.700	1.00
58_I	89_L	0.699	1.00
247_K	279_E	0.697	1.00
73_P	99_D	0.696	1.00
174_K	177_A	0.693	1.00
176_I	179_T	0.691	1.00
268_V	272_L	0.688	1.00
172_I	185_V	0.688	1.00
136_V	140_T	0.683	1.00
143_S	168_D	0.682	1.00
43_A	52_L	0.681	0.99
33_L	67_E	0.680	0.99
258_L	261_R	0.680	0.99
214_T	261_R	0.678	0.99
58_I	96_A	0.677	0.99
49_S	77_G	0.677	0.99
144_L	149_T	0.675	0.99
121_K	151_R	0.674	0.99
135_N	164_E	0.671	0.99
32_L	35_N	0.670	0.99
173_T	177_A	0.669	0.99
252_A	275_L	0.668	0.99
20_V	60_L	0.668	0.99
83_T	122_A	0.666	0.99
194_L	223_Y	0.665	0.99
170_E	191_A	0.662	0.99
58_I	93_A	0.662	0.99
78_T	103_L	0.662	0.99
54_T	58_I	0.661	0.99
112_S	252_A	0.661	0.99
133_L	144_L	0.660	0.99
21_D	264_D	0.660	0.99
147_E	174_K	0.655	0.99
115_G	273_V	0.654	0.99
62_E	95_E	0.651	0.99
194_L	228_T	0.651	0.99
61_F	65_V	0.651	0.99
7_S	75_I	0.650	0.99
32_L	37_T	0.649	0.99
68_V	72_V	0.649	0.99
195_P	199_V	0.646	0.99
275_L	280_R	0.645	0.99
267_S	274_P	0.642	0.99
28_L	32_L	0.641	0.99
248_A	279_E	0.641	0.99
10_M	64_T	0.637	0.99
132_M	160_V	0.636	0.99
153_A	179_T	0.635	0.99
176_I	202_R	0.635	0.99
246_F	250_N	0.634	0.99
53_S	84_K	0.632	0.99
31_Y	261_R	0.632	0.99
128_S	158_N	0.631	0.99
258_L	263_L	0.631	0.99
193_T	219_M	0.631	0.99
30_D	33_L	0.630	0.99
225_N	230_N	0.629	0.99
260_L	287_I	0.626	0.99
50_P	109_N	0.625	0.99
179_T	182_D	0.621	0.99
147_E	150_I	0.617	0.99
85_D	88_K	0.616	0.99
222_N	225_N	0.613	0.99
160_V	184_Y	0.610	0.99
177_A	236_Q	0.609	0.99
112_S	115_G	0.609	0.99
282_S	286_T	0.607	0.99
125_A	158_N	0.605	0.99
70_G	99_D	0.601	0.99
173_T	235_H	0.600	0.99
14_F	56_E	0.597	0.99
42_V	74_V	0.592	0.99
173_T	199_V	0.591	0.99
41_V	75_I	0.587	0.99
164_E	172_I	0.584	0.98
22_F	67_E	0.583	0.98
256_T	268_V	0.582	0.98
43_A	57_K	0.580	0.98
20_V	63_Y	0.580	0.98
98_V	129_L	0.579	0.98
172_I	176_I	0.578	0.98
268_V	273_V	0.576	0.98
257_A	260_L	0.575	0.98
233_L	236_Q	0.574	0.98
221_K	224_T	0.573	0.98
249_P	253_P	0.573	0.98
211_I	257_A	0.573	0.98
105_T	120_F	0.572	0.98
148_T	151_R	0.572	0.98
144_L	148_T	0.571	0.98
177_A	240_P	0.571	0.98
36_G	217_Q	0.570	0.98
250_N	253_P	0.570	0.98
112_S	248_A	0.569	0.98
277_E	284_S	0.569	0.98
194_L	235_H	0.569	0.98
195_P	235_H	0.568	0.98
75_I	102_M	0.567	0.98
4_G	38_D	0.563	0.98
45_T	134_Y	0.562	0.98
253_P	275_L	0.560	0.98
169_L	192_L	0.555	0.98
161_A	184_Y	0.555	0.98
127_T	158_N	0.554	0.98
114_E	273_V	0.551	0.98
119_H	122_A	0.547	0.98
65_V	69_N	0.546	0.98
234_I	237_K	0.546	0.98
173_T	195_P	0.544	0.98
90_T	123_I	0.542	0.98
175_I	185_V	0.541	0.97
87_I	123_I	0.540	0.97
257_A	283_L	0.536	0.97
37_T	217_Q	0.536	0.97
168_D	171_A	0.536	0.97
9_A	207_V	0.535	0.97
55_E	92_K	0.534	0.97
110_K	138_G	0.532	0.97
197_L	224_T	0.531	0.97
11_I	254_V	0.531	0.97
94_E	126_E	0.529	0.97
43_A	61_F	0.528	0.97
76_A	93_A	0.528	0.97
248_A	276_T	0.527	0.97
10_M	29_I	0.527	0.97
194_L	198_S	0.526	0.97
132_M	184_Y	0.524	0.97
103_L	120_F	0.524	0.97
211_I	254_V	0.523	0.97
193_T	216_M	0.523	0.97
28_L	31_Y	0.520	0.97
207_V	254_V	0.519	0.97
40_L	72_V	0.518	0.97
152_L	156_I	0.518	0.97
64_T	68_V	0.517	0.97
66_K	69_N	0.516	0.97
9_A	206_S	0.514	0.97
100_A	160_V	0.511	0.96
223_Y	231_A	0.509	0.96
31_Y	213_G	0.507	0.96
208_A	212_A	0.505	0.96
89_L	93_A	0.505	0.96
19_N	59_A	0.503	0.96
211_I	258_L	0.503	0.96
193_T	220_I	0.503	0.96
185_V	196_I	0.502	0.96
53_S	88_K	0.502	0.96
215_D	234_I	0.502	0.96
84_K	122_A	0.501	0.96
51_T	83_T	0.501	0.96
32_L	209_S	0.500	0.96

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
3eb2A	3	0.9966	100	0.023	Contact Map
4pfmA	2	0.9931	100	0.026	Contact Map
3si9A	3	1	100	0.027	Contact Map
3na8A	3	1	100	0.027	Contact Map
1xkyA	3	0.9966	100	0.028	Contact Map
3qzeA	2	0.9897	100	0.029	Contact Map
4i7wA	3	0.9897	100	0.029	Contact Map
3fluA	3	0.9966	100	0.03	Contact Map
3a5fA	3	0.9897	100	0.033	Contact Map
2ehhA	3	0.9931	100	0.033	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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