DAPAL - HALSA - GREMLIN Contacts

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DAPAL - Uncharacterized DapA-like lyase VNG_0444G

UniProt:	Q9HS19	Sequences: MPTHAPAPGSGDPLGLHGVVPPVVTAFDADESLDADTTADHARMVVDAGVHGVFPLGTNGEFPLLTPSERDRVVTAVVDEVGGEVPVIAGVGAPSTRQTVAHAEHAASVGADGVVVVTPFYYPLDGTAAVEHYRRVAAAVDCPVYVYHIPSKTGNELSLETLAALAEIDTLAGVKDSSKDVPWLGQAVDAHPELTFLAGSDSLLAPGLDVGCAGLVSAVANVAPELVVGLYEAYDEGDRERARARQSTVYEVRAALKRGPYMAGVKAALGLRGFDAGPLRSPLRGLDDDDRAALEADLADLGLL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	304 (285)
Sequences:	10351 (6825)
Seq/√Len:	404.3

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
238_D	241_R	3.833	1.00
43_R	80_E	3.304	1.00
28_D	32_S	3.140	1.00
130_V	164_A	3.112	1.00
271_L	295_E	3.013	1.00
39_A	80_E	2.810	1.00
35_A	72_R	2.729	1.00
35_A	76_A	2.626	1.00
39_A	76_A	2.590	1.00
107_A	141_D	2.579	1.00
71_D	105_H	2.528	1.00
91_V	103_A	2.484	1.00
233_A	241_R	2.454	1.00
207_G	212_C	2.441	1.00
103_A	114_V	2.245	1.00
241_R	244_A	2.139	1.00
43_R	84_E	2.068	1.00
233_A	238_D	2.025	1.00
134_R	168_I	2.023	1.00
232_E	236_E	2.015	1.00
126_G	158_S	2.001	1.00
20_V	52_G	1.999	1.00
208_L	234_Y	1.977	1.00
228_V	232_E	1.976	1.00
138_A	168_I	1.963	1.00
126_G	161_T	1.959	1.00
44_M	48_A	1.952	1.00
295_E	299_A	1.910	1.00
96_T	132_H	1.907	1.00
134_R	138_A	1.889	1.00
51_H	232_E	1.889	1.00
34_D	37_T	1.881	1.00
156_E	183_W	1.859	1.00
267_A	291_R	1.856	1.00
72_R	75_T	1.856	1.00
67_P	98_Q	1.838	1.00
43_R	47_D	1.831	1.00
226_L	248_T	1.818	1.00
127_T	131_E	1.801	1.00
39_A	79_D	1.784	1.00
127_T	164_A	1.769	1.00
48_A	225_E	1.745	1.00
130_V	134_R	1.721	1.00
42_A	77_V	1.707	1.00
163_A	190_A	1.696	1.00
72_R	76_A	1.678	1.00
145_Y	173_G	1.663	1.00
38_T	77_V	1.658	1.00
75_T	79_D	1.647	1.00
78_V	87_V	1.647	1.00
270_G	277_G	1.637	1.00
131_E	134_R	1.627	1.00
137_A	168_I	1.617	1.00
21_P	220_A	1.600	1.00
116_V	136_V	1.586	1.00
37_T	40_D	1.583	1.00
292_A	295_E	1.573	1.00
69_E	280_R	1.554	1.00
55_P	77_V	1.548	1.00
158_S	161_T	1.532	1.00
76_A	80_E	1.523	1.00
244_A	248_T	1.519	1.00
103_A	140_V	1.514	1.00
74_V	89_A	1.502	1.00
162_L	174_V	1.492	1.00
46_V	85_V	1.467	1.00
26_A	38_T	1.465	1.00
38_T	73_V	1.441	1.00
164_A	167_E	1.428	1.00
99_T	136_V	1.393	1.00
107_A	140_V	1.381	1.00
288_D	292_A	1.359	1.00
51_H	228_V	1.351	1.00
24_V	269_L	1.350	1.00
229_G	241_R	1.349	1.00
107_A	142_C	1.348	1.00
131_E	135_R	1.346	1.00
105_H	108_S	1.344	1.00
288_D	291_R	1.342	1.00
229_G	233_A	1.338	1.00
20_V	54_F	1.337	1.00
292_A	296_A	1.336	1.00
267_A	271_L	1.335	1.00
67_P	101_A	1.312	1.00
258_R	293_A	1.308	1.00
134_R	167_E	1.301	1.00
76_A	79_D	1.299	1.00
17_H	235_D	1.287	1.00
287_D	290_D	1.275	1.00
114_V	140_V	1.264	1.00
71_D	101_A	1.264	1.00
225_E	229_G	1.262	1.00
93_A	99_T	1.253	1.00
95_S	98_Q	1.252	1.00
100_V	135_R	1.252	1.00
234_Y	239_R	1.235	1.00
296_A	300_D	1.234	1.00
71_D	75_T	1.234	1.00
88_I	113_G	1.229	1.00
19_V	50_V	1.223	1.00
67_P	105_H	1.220	1.00
145_Y	216_V	1.215	1.00
68_S	72_R	1.209	1.00
205_A	242_A	1.191	1.00
270_G	275_D	1.183	1.00
74_V	106_A	1.182	1.00
188_V	196_F	1.181	1.00
61_E	266_K	1.172	1.00
56_L	73_V	1.163	1.00
75_T	105_H	1.162	1.00
239_R	243_R	1.160	1.00
135_R	281_S	1.158	1.00
42_A	81_V	1.158	1.00
32_S	97_R	1.156	1.00
137_A	170_T	1.147	1.00
160_E	190_A	1.136	1.00
195_T	213_A	1.134	1.00
231_Y	235_D	1.130	1.00
104_E	108_S	1.120	1.00
46_V	84_E	1.119	1.00
28_D	34_D	1.110	1.00
135_R	138_A	1.109	1.00
78_V	112_D	1.105	1.00
229_G	232_E	1.090	1.00
135_R	139_A	1.087	1.00
71_D	108_S	1.082	1.00
81_V	87_V	1.081	1.00
186_Q	190_A	1.080	1.00
36_D	39_A	1.072	1.00
240_E	243_R	1.071	1.00
27_F	65_L	1.068	1.00
267_A	270_G	1.063	1.00
35_A	39_A	1.062	1.00
267_A	295_E	1.061	1.00
268_A	298_L	1.060	1.00
296_A	299_A	1.059	1.00
88_I	145_Y	1.054	1.00
75_T	109_V	1.052	1.00
104_E	139_A	1.047	1.00
114_V	142_C	1.032	1.00
127_T	287_D	1.027	1.00
127_T	130_V	1.025	1.00
42_A	80_E	1.025	1.00
21_P	45_V	1.024	1.00
29_A	278_P	1.020	1.00
91_V	106_A	1.015	1.00
100_V	104_E	1.008	1.00
105_H	109_V	1.007	1.00
209_D	239_R	1.004	1.00
286_L	290_D	1.000	1.00
17_H	213_A	0.997	1.00
19_V	228_V	0.993	1.00
241_R	245_R	0.986	1.00
54_F	115_V	0.982	1.00
67_P	102_H	0.976	1.00
286_L	294_L	0.970	1.00
293_A	296_A	0.968	1.00
89_A	111_A	0.966	1.00
270_G	291_R	0.966	1.00
255_A	297_D	0.965	1.00
21_P	50_V	0.964	1.00
165_L	171_L	0.960	1.00
39_A	43_R	0.960	1.00
37_T	276_A	0.956	1.00
92_G	117_V	0.956	1.00
146_V	162_L	0.955	1.00
37_T	275_D	0.954	1.00
291_R	295_E	0.951	1.00
44_M	274_F	0.947	1.00
186_Q	254_A	0.947	1.00
290_D	293_A	0.947	1.00
114_V	144_V	0.945	1.00
137_A	144_V	0.943	1.00
130_V	161_T	0.943	1.00
31_E	97_R	0.941	1.00
184_L	207_G	0.940	1.00
219_V	253_R	0.940	1.00
233_A	245_R	0.935	1.00
148_H	156_E	0.930	1.00
166_A	194_L	0.928	1.00
243_R	247_S	0.927	1.00
41_H	269_L	0.927	1.00
23_V	45_V	0.921	1.00
70_R	102_H	0.918	1.00
131_E	284_R	0.917	1.00
93_A	98_Q	0.914	1.00
118_T	155_N	0.913	1.00
100_V	139_A	0.913	1.00
101_A	105_H	0.913	1.00
126_G	164_A	0.907	1.00
68_S	101_A	0.906	1.00
51_H	231_Y	0.901	1.00
78_V	111_A	0.899	1.00
46_V	81_V	0.896	1.00
271_L	299_A	0.894	1.00
78_V	109_V	0.893	1.00
129_A	155_N	0.893	1.00
209_D	243_R	0.887	1.00
130_V	167_E	0.886	1.00
91_V	114_V	0.884	1.00
251_E	300_D	0.880	1.00
208_L	231_Y	0.878	1.00
87_V	111_A	0.878	1.00
42_A	76_A	0.873	1.00
159_L	190_A	0.870	1.00
277_G	291_R	0.870	1.00
104_E	107_A	0.869	1.00
101_A	104_E	0.867	1.00
289_D	292_A	0.863	1.00
27_F	280_R	0.856	1.00
270_G	276_A	0.853	1.00
31_E	281_S	0.850	1.00
217_S	220_A	0.847	1.00
237_G	240_E	0.844	1.00
223_A	252_V	0.843	1.00
29_A	276_A	0.841	1.00
197_L	214_G	0.837	1.00
204_L	215_L	0.836	1.00
297_D	300_D	0.834	1.00
55_P	73_V	0.831	1.00
137_A	171_L	0.829	1.00
50_V	224_P	0.828	1.00
96_T	100_V	0.826	1.00
209_D	234_Y	0.825	1.00
230_L	245_R	0.821	1.00
19_V	215_L	0.810	1.00
19_V	231_Y	0.807	1.00
289_D	293_A	0.803	1.00
36_D	40_D	0.803	1.00
116_V	144_V	0.801	1.00
159_L	186_Q	0.801	1.00
271_L	291_R	0.800	1.00
56_L	89_A	0.798	1.00
198_A	207_G	0.796	1.00
130_V	168_I	0.794	1.00
168_I	171_L	0.794	1.00
23_V	53_V	0.791	1.00
159_L	163_A	0.783	1.00
74_V	111_A	0.783	1.00
74_V	109_V	0.782	1.00
31_E	278_P	0.778	1.00
19_V	220_A	0.777	1.00
40_D	274_F	0.774	1.00
240_E	244_A	0.771	1.00
68_S	71_D	0.766	1.00
23_V	38_T	0.763	1.00
229_G	245_R	0.760	1.00
65_L	73_V	0.758	1.00
223_A	249_V	0.755	1.00
48_A	224_P	0.752	1.00
58_T	121_Y	0.751	1.00
246_Q	250_Y	0.750	1.00
186_Q	189_D	0.747	1.00
106_A	111_A	0.747	1.00
206_P	209_D	0.744	1.00
223_A	226_L	0.742	1.00
97_R	101_A	0.739	1.00
38_T	42_A	0.732	1.00
250_Y	254_A	0.731	1.00
134_R	164_A	0.726	1.00
81_V	84_E	0.725	1.00
131_E	281_S	0.725	1.00
147_Y	175_K	0.721	1.00
226_L	229_G	0.720	1.00
86_P	112_D	0.719	1.00
99_T	116_V	0.719	1.00
149_I	153_T	0.719	1.00
53_V	81_V	0.719	1.00
110_G	142_C	0.717	1.00
33_L	38_T	0.716	1.00
159_L	183_W	0.714	1.00
277_G	285_G	0.712	1.00
126_G	160_E	0.711	1.00
52_G	88_I	0.709	1.00
191_H	194_L	0.708	1.00
278_P	285_G	0.706	1.00
96_T	135_R	0.706	1.00
28_D	278_P	0.704	1.00
184_L	188_V	0.702	1.00
205_A	234_Y	0.702	1.00
162_L	187_A	0.697	1.00
118_T	157_L	0.697	1.00
28_D	36_D	0.697	1.00
42_A	53_V	0.694	1.00
263_A	279_L	0.693	1.00
46_V	80_E	0.691	1.00
225_E	272_R	0.689	1.00
185_G	189_D	0.689	1.00
81_V	85_V	0.688	1.00
206_P	210_V	0.687	1.00
56_L	65_L	0.685	1.00
258_R	290_D	0.684	1.00
91_V	116_V	0.680	0.99
156_E	180_D	0.678	0.99
157_L	162_L	0.678	0.99
230_L	234_Y	0.676	0.99
182_P	202_S	0.673	0.99
62_F	90_G	0.672	0.99
184_L	196_F	0.666	0.99
293_A	297_D	0.666	0.99
148_H	176_D	0.664	0.99
128_A	284_R	0.664	0.99
71_D	102_H	0.662	0.99
16_L	113_G	0.662	0.99
45_V	50_V	0.660	0.99
236_E	241_R	0.655	0.99
67_P	71_D	0.652	0.99
263_A	286_L	0.651	0.99
146_V	157_L	0.651	0.99
34_D	275_D	0.651	0.99
71_D	109_V	0.647	0.99
125_D	263_A	0.645	0.99
44_M	272_R	0.645	0.99
71_D	106_A	0.645	0.99
41_H	45_V	0.642	0.99
233_A	236_E	0.642	0.99
20_V	88_I	0.638	0.99
269_L	272_R	0.637	0.99
204_L	230_L	0.634	0.99
74_V	78_V	0.634	0.99
292_A	299_A	0.632	0.99
286_L	291_R	0.632	0.99
141_D	170_T	0.632	0.99
33_L	73_V	0.632	0.99
66_T	97_R	0.632	0.99
145_Y	172_A	0.632	0.99
17_H	51_H	0.631	0.99
271_L	298_L	0.631	0.99
205_A	239_R	0.625	0.99
23_V	77_V	0.623	0.99
259_G	290_D	0.622	0.99
75_T	108_S	0.622	0.99
28_D	31_E	0.621	0.99
279_L	283_L	0.621	0.99
55_P	87_V	0.618	0.99
63_P	122_Y	0.618	0.99
125_D	128_A	0.615	0.99
189_D	247_S	0.614	0.99
98_Q	101_A	0.612	0.99
172_A	195_T	0.609	0.99
206_P	246_Q	0.604	0.99
45_V	48_A	0.603	0.99
232_E	235_D	0.598	0.99
185_G	246_Q	0.591	0.99
267_A	279_L	0.591	0.99
43_R	46_V	0.590	0.99
188_V	213_A	0.590	0.99
180_D	183_W	0.589	0.99
56_L	70_R	0.588	0.99
163_A	191_H	0.587	0.99
185_G	210_V	0.587	0.99
83_G	112_D	0.587	0.99
160_E	186_Q	0.586	0.99
185_G	206_P	0.586	0.99
160_E	163_A	0.583	0.98
35_A	80_E	0.580	0.98
244_A	247_S	0.579	0.98
58_T	147_Y	0.575	0.98
125_D	259_G	0.574	0.98
205_A	246_Q	0.573	0.98
288_D	295_E	0.572	0.98
279_L	284_R	0.571	0.98
33_L	76_A	0.570	0.98
183_W	187_A	0.568	0.98
161_T	164_A	0.568	0.98
268_A	271_L	0.567	0.98
208_L	235_D	0.562	0.98
222_V	268_A	0.561	0.98
189_D	251_E	0.559	0.98
181_V	203_L	0.558	0.98
157_L	161_T	0.558	0.98
49_G	228_V	0.558	0.98
123_P	151_S	0.557	0.98
79_D	82_G	0.556	0.98
27_F	69_E	0.556	0.98
222_V	269_L	0.555	0.98
24_V	265_V	0.553	0.98
173_G	195_T	0.552	0.98
111_A	142_C	0.546	0.98
54_F	88_I	0.544	0.98
218_A	265_V	0.544	0.98
204_L	227_V	0.543	0.98
118_T	133_Y	0.542	0.98
89_A	106_A	0.541	0.98
200_S	203_L	0.540	0.97
127_T	284_R	0.540	0.97
138_A	170_T	0.538	0.97
133_Y	171_L	0.536	0.97
50_V	228_V	0.535	0.97
165_L	168_I	0.534	0.97
132_H	135_R	0.534	0.97
48_A	228_V	0.533	0.97
222_V	265_V	0.532	0.97
176_D	184_L	0.530	0.97
176_D	179_K	0.529	0.97
88_I	115_V	0.529	0.97
145_Y	195_T	0.528	0.97
255_A	293_A	0.528	0.97
252_V	256_L	0.527	0.97
205_A	209_D	0.527	0.97
245_R	248_T	0.525	0.97
68_S	105_H	0.524	0.97
116_V	133_Y	0.524	0.97
56_L	74_V	0.522	0.97
32_S	72_R	0.521	0.97
234_Y	242_A	0.521	0.97
219_V	227_V	0.520	0.97
260_P	264_G	0.518	0.97
22_P	218_A	0.518	0.97
78_V	82_G	0.517	0.97
23_V	42_A	0.516	0.97
41_H	44_M	0.515	0.97
113_G	172_A	0.513	0.97
22_P	217_S	0.513	0.97
107_A	139_A	0.513	0.97
233_A	242_A	0.512	0.97
261_Y	264_G	0.511	0.96
37_T	274_F	0.511	0.96
187_A	196_F	0.510	0.96
267_A	286_L	0.508	0.96
256_L	265_V	0.508	0.96
29_A	275_D	0.506	0.96
99_T	103_A	0.505	0.96
259_G	287_D	0.504	0.96
100_V	136_V	0.504	0.96
53_V	85_V	0.502	0.96
264_G	286_L	0.500	0.96
196_F	207_G	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
3cprA	3	0.9868	100	0.062	Contact Map
3l21A	5	0.9704	100	0.066	Contact Map
4oe7A	3	0.9572	100	0.066	Contact Map
4i7wA	3	0.9507	100	0.068	Contact Map
3si9A	3	0.9572	100	0.071	Contact Map
3na8A	3	0.9507	100	0.072	Contact Map
3a5fA	3	0.9507	100	0.072	Contact Map
3s5oA	3	0.9572	100	0.072	Contact Map
2ojpA	2	0.9474	100	0.072	Contact Map
3eb2A	3	0.9539	100	0.073	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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