YVAM - BACSU - GREMLIN Contacts

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YVAM - AB hydrolase superfamily protein YvaM

UniProt:	O32234	Sequences: MPLISIDSRKHLFYEEYGQGIPIIFIHPPGMGRKVFYYQRLLSKHFRVIFPDLSGHGDSDHIDQPASISYYANEIAQFMDALHIDKAVLFGYSAGGLIAQHIGFTRPDKVSHLILSGAYPAVHNVIGQKLHKLGMYLLEKNPGLLMKILAGSHTKDRQLRSILTDHMKKADQAHWHQYYLDSLGYNCIEQLPRLEMPMLFMYGGLRDWTFTNAGYYRRSCRHAEFFRLEYQGHQLPTKQWKTCNELVTGFVLTHHS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	256 (238)
Sequences:	61297 (49763)
Seq/√Len:	3225.7

ECOLI - MHPC RUTD YBFF BIOH PLDB MENH YCJY YFHR
BACSU - YVAM YDJP YISY NAP YBFK RSBQ YFHM YUGF YRAK MENH YCGS YBAC YBDG YCLE PLBAC YQJL EST YQKD
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0
SULSO - PIP Q7LXY9 Q97WG0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
16_E	47_R	4.728	1.00
88_V	112_H	4.147	1.00
54_S	74_E	3.547	1.00
39_Q	244_N	2.988	1.00
76_A	102_I	2.832	1.00
204_G	229_E	2.704	1.00
239_Q	242_T	2.662	1.00
88_V	111_S	2.657	1.00
226_F	246_L	2.596	1.00
117_G	206_R	2.591	1.00
199_L	250_F	2.514	1.00
86_K	111_S	2.510	1.00
116_S	243_C	2.343	1.00
228_L	246_L	2.258	1.00
11_H	60_D	2.192	1.00
102_I	106_R	2.108	1.00
15_E	33_R	2.100	1.00
76_A	109_K	2.084	1.00
76_A	106_R	2.050	1.00
76_A	80_D	2.026	1.00
204_G	227_R	2.022	1.00
79_M	87_A	2.011	1.00
89_L	99_A	2.011	1.00
80_D	109_K	1.956	1.00
96_G	118_A	1.941	1.00
217_R	223_A	1.933	1.00
13_F	58_D	1.923	1.00
14_Y	78_F	1.866	1.00
101_H	105_T	1.826	1.00
45_H	248_T	1.812	1.00
16_E	49_I	1.811	1.00
22_P	49_I	1.809	1.00
21_I	88_V	1.794	1.00
17_Y	50_F	1.781	1.00
73_N	105_T	1.767	1.00
41_L	244_N	1.743	1.00
88_V	251_V	1.741	1.00
231_Q	239_Q	1.726	1.00
22_P	84_I	1.725	1.00
21_I	111_S	1.708	1.00
103_G	113_L	1.703	1.00
22_P	47_R	1.675	1.00
211_T	227_R	1.664	1.00
13_F	33_R	1.658	1.00
88_V	114_I	1.644	1.00
199_L	226_F	1.615	1.00
198_M	220_C	1.614	1.00
27_H	53_L	1.596	1.00
27_H	56_H	1.578	1.00
99_A	113_L	1.574	1.00
246_L	249_G	1.568	1.00
46_F	88_V	1.565	1.00
215_Y	219_S	1.526	1.00
69_S	105_T	1.504	1.00
53_L	98_I	1.484	1.00
72_A	101_H	1.469	1.00
31_M	35_V	1.438	1.00
51_P	75_I	1.428	1.00
26_I	53_L	1.425	1.00
245_E	249_G	1.408	1.00
102_I	110_V	1.404	1.00
106_R	109_K	1.403	1.00
26_I	75_I	1.398	1.00
75_I	102_I	1.370	1.00
202_Y	213_A	1.351	1.00
102_I	109_K	1.341	1.00
41_L	248_T	1.332	1.00
156_D	159_L	1.321	1.00
13_F	52_D	1.308	1.00
114_I	247_V	1.288	1.00
80_D	106_R	1.279	1.00
92_Y	236_P	1.275	1.00
33_R	52_D	1.262	1.00
49_I	78_F	1.253	1.00
190_Q	193_R	1.251	1.00
101_H	104_F	1.244	1.00
30_G	56_H	1.240	1.00
115_L	118_A	1.234	1.00
18_G	47_R	1.230	1.00
10_K	54_S	1.226	1.00
242_T	246_L	1.224	1.00
100_Q	115_L	1.221	1.00
211_T	214_G	1.196	1.00
25_F	48_V	1.193	1.00
21_I	46_F	1.191	1.00
26_I	99_A	1.190	1.00
12_L	74_E	1.177	1.00
220_C	223_A	1.174	1.00
41_L	44_K	1.172	1.00
242_T	245_E	1.168	1.00
25_F	90_F	1.167	1.00
67_S	70_Y	1.163	1.00
114_I	199_L	1.160	1.00
78_F	82_L	1.143	1.00
90_F	116_S	1.138	1.00
33_R	58_D	1.135	1.00
192_P	219_S	1.133	1.00
93_S	233_H	1.130	1.00
84_I	87_A	1.114	1.00
104_F	190_Q	1.110	1.00
214_G	218_R	1.107	1.00
20_G	47_R	1.105	1.00
30_G	93_S	1.101	1.00
217_R	225_F	1.092	1.00
23_I	46_F	1.087	1.00
51_P	78_F	1.084	1.00
24_I	79_M	1.082	1.00
228_L	231_Q	1.078	1.00
173_A	177_Q	1.072	1.00
87_A	110_V	1.064	1.00
202_Y	227_R	1.063	1.00
202_Y	225_F	1.058	1.00
28_P	93_S	1.053	1.00
215_Y	218_R	1.043	1.00
35_V	236_P	1.043	1.00
144_L	148_I	1.029	1.00
41_L	241_K	1.019	1.00
21_I	86_K	1.007	1.00
201_M	228_L	0.997	1.00
14_Y	82_L	0.994	1.00
243_C	247_V	0.992	1.00
17_Y	43_S	0.990	1.00
46_F	251_V	0.985	1.00
241_K	245_E	0.984	1.00
224_E	246_L	0.983	1.00
90_F	247_V	0.977	1.00
202_Y	211_T	0.973	1.00
26_I	89_L	0.969	1.00
69_S	101_H	0.968	1.00
79_M	84_I	0.968	1.00
33_R	50_F	0.968	1.00
79_M	102_I	0.958	1.00
52_D	57_G	0.952	1.00
72_A	98_I	0.952	1.00
76_A	79_M	0.943	1.00
232_G	238_K	0.940	1.00
116_S	236_P	0.938	1.00
228_L	242_T	0.936	1.00
92_Y	234_Q	0.935	1.00
199_L	224_E	0.933	1.00
76_A	105_T	0.931	1.00
112_H	197_P	0.929	1.00
214_G	225_F	0.920	1.00
24_I	87_A	0.916	1.00
214_G	227_R	0.914	1.00
231_Q	238_K	0.912	1.00
91_G	99_A	0.904	1.00
43_S	48_V	0.902	1.00
87_A	109_K	0.901	1.00
226_F	249_G	0.900	1.00
214_G	217_R	0.894	1.00
204_G	230_Y	0.885	1.00
10_K	60_D	0.882	1.00
144_L	147_K	0.876	1.00
53_L	94_A	0.871	1.00
162_I	166_H	0.871	1.00
77_Q	80_D	0.870	1.00
161_S	164_T	0.866	1.00
12_L	59_S	0.866	1.00
177_Q	180_L	0.864	1.00
142_P	146_M	0.857	1.00
178_Y	181_D	0.853	1.00
176_H	180_L	0.853	1.00
77_Q	81_A	0.850	1.00
37_Y	50_F	0.841	1.00
231_Q	235_L	0.840	1.00
143_G	147_K	0.838	1.00
40_R	43_S	0.829	1.00
116_S	235_L	0.829	1.00
49_I	82_L	0.829	1.00
133_L	137_L	0.823	1.00
171_D	174_H	0.817	1.00
201_M	246_L	0.816	1.00
113_L	198_M	0.814	1.00
23_I	90_F	0.810	1.00
91_G	96_G	0.808	1.00
200_F	223_A	0.801	1.00
213_A	225_F	0.798	1.00
162_I	165_D	0.796	1.00
175_W	179_Y	0.795	1.00
72_A	105_T	0.790	1.00
160_R	164_T	0.789	1.00
70_Y	73_N	0.788	1.00
21_I	112_H	0.788	1.00
22_P	46_F	0.786	1.00
157_R	161_S	0.783	1.00
112_H	250_F	0.781	1.00
103_G	110_V	0.778	1.00
23_I	48_V	0.776	1.00
26_I	51_P	0.770	1.00
22_P	87_A	0.769	1.00
226_F	242_T	0.769	1.00
101_H	190_Q	0.769	1.00
174_H	178_Y	0.765	1.00
73_N	77_Q	0.764	1.00
175_W	178_Y	0.758	1.00
24_I	75_I	0.755	1.00
73_N	76_A	0.754	1.00
33_R	51_P	0.750	1.00
30_G	94_A	0.750	1.00
40_R	44_K	0.749	1.00
204_G	211_T	0.741	1.00
161_S	165_D	0.739	1.00
36_F	39_Q	0.738	1.00
155_K	159_L	0.733	1.00
203_G	235_L	0.730	1.00
89_L	102_I	0.728	1.00
244_N	248_T	0.728	1.00
114_I	251_V	0.727	1.00
187_C	190_Q	0.727	1.00
71_Y	94_A	0.724	1.00
151_G	154_T	0.722	1.00
150_A	153_H	0.721	1.00
166_H	169_K	0.721	1.00
29_P	94_A	0.721	1.00
174_H	177_Q	0.715	1.00
52_D	58_D	0.715	1.00
117_G	235_L	0.713	1.00
53_L	71_Y	0.712	1.00
180_L	183_L	0.699	1.00
228_L	239_Q	0.698	1.00
19_Q	47_R	0.698	1.00
166_H	170_A	0.696	1.00
132_K	136_Y	0.695	1.00
195_E	221_R	0.695	1.00
117_G	202_Y	0.693	1.00
23_I	251_V	0.692	1.00
153_H	156_D	0.691	1.00
92_Y	117_G	0.689	1.00
89_L	110_V	0.688	1.00
144_L	149_L	0.680	1.00
72_A	102_I	0.679	1.00
83_H	86_K	0.677	1.00
27_H	51_P	0.677	1.00
34_K	37_Y	0.675	1.00
103_G	196_M	0.668	1.00
46_F	248_T	0.668	1.00
164_T	168_K	0.668	1.00
12_L	54_S	0.667	1.00
44_K	248_T	0.661	1.00
112_H	251_V	0.661	1.00
17_Y	40_R	0.659	1.00
131_H	134_G	0.657	1.00
69_S	73_N	0.654	1.00
240_W	244_N	0.654	1.00
114_I	250_F	0.653	1.00
186_N	190_Q	0.652	1.00
180_L	184_G	0.652	1.00
179_Y	182_S	0.651	1.00
156_D	160_R	0.648	1.00
134_G	137_L	0.644	1.00
181_D	184_G	0.641	1.00
87_A	111_S	0.641	1.00
230_Y	239_Q	0.640	1.00
65_P	70_Y	0.639	1.00
15_E	37_Y	0.637	1.00
104_F	193_R	0.637	1.00
110_V	196_M	0.636	1.00
49_I	84_I	0.635	1.00
142_P	145_L	0.635	1.00
13_F	59_S	0.634	1.00
90_F	114_I	0.633	1.00
117_G	203_G	0.632	1.00
152_S	155_K	0.629	1.00
201_M	243_C	0.628	1.00
177_Q	181_D	0.626	1.00
23_I	88_V	0.625	1.00
115_L	200_F	0.622	1.00
189_E	192_P	0.622	1.00
245_E	248_T	0.619	1.00
100_Q	120_P	0.618	1.00
25_F	36_F	0.614	1.00
92_Y	116_S	0.612	1.00
37_Y	40_R	0.610	1.00
160_R	163_L	0.608	1.00
127_G	131_H	0.607	1.00
157_R	160_R	0.606	1.00
97_L	119_Y	0.606	1.00
167_M	170_A	0.605	1.00
133_L	136_Y	0.605	1.00
205_L	230_Y	0.605	1.00
158_Q	162_I	0.605	1.00
39_Q	243_C	0.602	1.00
163_L	167_M	0.602	1.00
130_L	134_G	0.601	1.00
91_G	95_G	0.600	1.00
152_S	156_D	0.598	1.00
165_D	169_K	0.595	1.00
85_D	109_K	0.593	1.00
53_L	56_H	0.592	1.00
96_G	115_L	0.591	1.00
71_Y	98_I	0.589	1.00
145_L	148_I	0.588	1.00
24_I	89_L	0.587	1.00
131_H	135_M	0.585	1.00
68_I	101_H	0.582	1.00
165_D	168_K	0.580	1.00
87_A	102_I	0.573	1.00
70_Y	74_E	0.571	1.00
213_A	217_R	0.569	1.00
138_L	142_P	0.569	1.00
178_Y	182_S	0.569	1.00
93_S	234_Q	0.567	1.00
200_F	225_F	0.566	1.00
47_R	84_I	0.565	1.00
200_F	213_A	0.562	1.00
163_L	166_H	0.561	1.00
100_Q	118_A	0.559	1.00
15_E	50_F	0.559	1.00
114_I	201_M	0.558	1.00
145_L	149_L	0.556	1.00
16_E	82_L	0.554	1.00
151_G	155_K	0.553	1.00
86_K	109_K	0.553	1.00
24_I	51_P	0.552	1.00
155_K	158_Q	0.551	1.00
188_I	219_S	0.551	1.00
173_A	176_H	0.548	1.00
78_F	81_A	0.548	1.00
25_F	50_F	0.548	1.00
72_A	76_A	0.547	1.00
155_K	160_R	0.546	1.00
194_L	220_C	0.544	1.00
45_H	48_V	0.544	1.00
54_S	71_Y	0.543	1.00
188_I	215_Y	0.541	1.00
29_P	93_S	0.541	1.00
235_L	243_C	0.539	1.00
236_P	243_C	0.539	1.00
159_L	163_L	0.537	1.00
200_F	217_R	0.536	1.00
150_A	156_D	0.536	1.00
201_M	226_F	0.535	1.00
143_G	146_M	0.531	1.00
159_L	162_I	0.531	1.00
73_N	106_R	0.531	1.00
151_G	156_D	0.530	1.00
142_P	147_K	0.526	1.00
31_M	234_Q	0.526	1.00
79_M	109_K	0.524	1.00
216_Y	220_C	0.521	1.00
244_N	249_G	0.516	1.00
26_I	98_I	0.514	1.00
155_K	163_L	0.512	1.00
129_K	133_L	0.512	1.00
112_H	199_L	0.511	1.00
247_V	251_V	0.511	1.00
146_M	149_L	0.510	1.00
132_K	135_M	0.509	1.00
186_N	189_E	0.509	1.00
35_V	92_Y	0.509	1.00
205_L	229_E	0.507	1.00
142_P	148_I	0.507	1.00
53_L	75_I	0.505	1.00
200_F	220_C	0.501	1.00
172_Q	176_H	0.500	1.00
99_A	115_L	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
1ehyA	1	0.9531	100	0.176	Contact Map
4inzA	1	0.9844	100	0.184	Contact Map
3oosA	1	0.9766	100	0.184	Contact Map
2pujA	4	0.9883	100	0.185	Contact Map
2xuaA	2	0.9766	100	0.186	Contact Map
1zoiA	3	0.9844	100	0.2	Contact Map
3om8A	4	0.9805	100	0.202	Contact Map
2xmzA	1	0.9688	100	0.211	Contact Map
4psuA	1	0.9766	100	0.212	Contact Map
1iupA	2	0.9766	100	0.213	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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