YFHM - BACSU - GREMLIN Contacts

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YFHM - AB hydrolase superfamily protein YfhM

UniProt:	O31581	Sequences: MDGVKCQFVNTNGITLHVAAAGREDGPLIVLLHGFPEFWYGWKNQIKPLVDAGYRVIAPDQRGYNLSDKPEGIDSYRIDTLRDDIIGLITQFTDEKAIVIGHDWGGAVAWHLASTRPEYLEKLIAINIPHPHVMKTVTPLYPPQWLKSSYIAYFQLPDIPEASLRENDYDTLDKAIGLSDRPALFTSEDVSRYKEAWKQPGALTAMLNWYRALRKGSLAEKPSYETVPYRMIWGMEDRFLSRKLAKETERHCPNGHLIFVDEASHWINHEKPAIVNQLILEYLKNQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	286 (252)
Sequences:	61102 (48721)
Seq/√Len:	3069.2

ECOLI - MHPC RUTD YBFF PLDB BIOH MENH YCJY YFHR
BACSU - YFHM YUGF NAP YBFK YISY YCGS RSBQ YDJP YRAK MENH YBAC YBDG YVAM YCLE YQJL PLBAC EST YQKD CAH
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0 METX Q9HPY2
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
20_A	55_R	4.589	1.00
98_I	122_K	4.445	1.00
62_R	84_D	4.244	1.00
45_Q	276_N	3.271	1.00
235_M	261_D	2.995	1.00
127_N	237_D	2.758	1.00
86_I	112_L	2.733	1.00
271_K	274_I	2.635	1.00
96_K	121_E	2.511	1.00
98_I	121_E	2.470	1.00
258_I	278_L	2.436	1.00
230_R	282_Y	2.427	1.00
126_I	275_V	2.373	1.00
260_V	278_L	2.336	1.00
106_G	128_I	2.274	1.00
89_I	97_A	2.263	1.00
90_T	119_Y	2.110	1.00
112_L	116_R	2.108	1.00
15_T	68_D	2.071	1.00
249_E	255_G	2.060	1.00
53_G	280_L	2.020	1.00
86_I	116_R	2.013	1.00
99_V	109_A	1.997	1.00
83_D	115_T	1.965	1.00
98_I	124_I	1.964	1.00
19_A	39_W	1.960	1.00
235_M	259_F	1.932	1.00
86_I	119_Y	1.913	1.00
18_V	88_L	1.904	1.00
86_I	90_T	1.881	1.00
17_H	66_L	1.876	1.00
33_H	64_Y	1.815	1.00
263_A	271_K	1.800	1.00
109_A	123_L	1.799	1.00
28_L	57_I	1.784	1.00
113_A	123_L	1.766	1.00
48_P	276_N	1.681	1.00
59_P	85_I	1.654	1.00
54_Y	98_I	1.651	1.00
111_H	115_T	1.647	1.00
27_P	98_I	1.635	1.00
124_I	279_I	1.634	1.00
20_A	57_I	1.632	1.00
79_D	115_T	1.581	1.00
33_H	61_Q	1.578	1.00
230_R	258_I	1.577	1.00
98_I	283_L	1.575	1.00
242_R	259_F	1.569	1.00
21_A	58_A	1.563	1.00
28_L	94_D	1.533	1.00
85_I	112_L	1.527	1.00
116_R	119_Y	1.521	1.00
221_K	224_Y	1.521	1.00
277_Q	281_E	1.517	1.00
229_Y	252_C	1.509	1.00
28_L	55_R	1.502	1.00
17_H	39_W	1.492	1.00
32_L	109_A	1.486	1.00
61_Q	108_V	1.454	1.00
37_E	41_G	1.446	1.00
278_L	281_E	1.441	1.00
32_L	61_Q	1.434	1.00
52_A	280_L	1.426	1.00
112_L	120_L	1.408	1.00
77_R	80_T	1.407	1.00
31_L	100_I	1.396	1.00
27_P	121_E	1.388	1.00
247_E	251_H	1.385	1.00
12_N	87_G	1.373	1.00
125_A	128_I	1.369	1.00
57_I	88_L	1.343	1.00
31_L	56_V	1.307	1.00
90_T	116_R	1.287	1.00
32_L	85_I	1.284	1.00
46_I	58_A	1.283	1.00
17_H	60_D	1.275	1.00
235_M	262_E	1.271	1.00
36_P	64_Y	1.260	1.00
82_R	111_H	1.259	1.00
112_L	119_Y	1.256	1.00
94_D	97_A	1.255	1.00
59_P	88_L	1.243	1.00
16_L	67_S	1.240	1.00
48_P	280_L	1.238	1.00
22_G	55_R	1.228	1.00
186_T	189_D	1.226	1.00
89_I	94_D	1.219	1.00
102_H	268_N	1.212	1.00
60_D	65_N	1.210	1.00
39_W	66_L	1.201	1.00
36_P	103_D	1.196	1.00
260_V	263_A	1.196	1.00
30_V	89_I	1.194	1.00
39_W	60_D	1.189	1.00
246_K	250_R	1.177	1.00
274_I	278_L	1.175	1.00
252_C	255_G	1.173	1.00
16_L	84_D	1.166	1.00
124_I	230_R	1.157	1.00
275_V	279_I	1.155	1.00
223_S	251_H	1.153	1.00
14_I	62_R	1.152	1.00
88_L	92_F	1.145	1.00
111_H	114_S	1.127	1.00
21_A	46_I	1.122	1.00
233_W	245_A	1.122	1.00
232_I	260_V	1.121	1.00
232_I	278_L	1.116	1.00
242_R	246_K	1.115	1.00
100_I	126_I	1.110	1.00
48_P	273_A	1.103	1.00
89_I	112_L	1.102	1.00
110_W	125_A	1.096	1.00
103_D	265_H	1.084	1.00
48_P	52_A	1.079	1.00
274_I	277_Q	1.066	1.00
263_A	267_I	1.057	1.00
123_L	229_Y	1.038	1.00
27_P	54_Y	1.034	1.00
247_E	250_R	1.031	1.00
97_A	120_L	1.030	1.00
39_W	58_A	1.023	1.00
114_S	221_K	1.022	1.00
233_W	242_R	1.014	1.00
26_G	55_R	1.009	1.00
57_I	92_F	1.004	1.00
29_I	54_Y	1.003	1.00
273_A	277_Q	1.001	1.00
246_K	259_F	0.998	1.00
50_V	56_V	0.997	1.00
28_L	54_Y	0.988	1.00
30_V	85_I	0.987	1.00
44_N	47_K	0.987	1.00
102_H	266_W	0.984	1.00
263_A	270_E	0.983	1.00
22_G	26_G	0.982	1.00
50_V	53_G	0.977	1.00
79_D	111_H	0.972	1.00
82_R	108_V	0.971	1.00
86_I	115_T	0.965	1.00
34_G	103_D	0.950	1.00
256_H	278_L	0.950	1.00
54_Y	283_L	0.947	1.00
32_L	59_P	0.947	1.00
32_L	99_V	0.946	1.00
249_E	257_L	0.942	1.00
187_S	191_S	0.934	1.00
233_W	257_L	0.932	1.00
43_K	58_A	0.930	1.00
97_A	119_Y	0.927	1.00
18_V	92_F	0.919	1.00
233_W	259_F	0.915	1.00
246_K	257_L	0.915	1.00
204_T	208_N	0.914	1.00
86_I	89_I	0.909	1.00
29_I	100_I	0.909	1.00
260_V	271_K	0.908	1.00
260_V	274_I	0.906	1.00
27_P	96_K	0.905	1.00
100_I	279_I	0.904	1.00
264_S	270_E	0.904	1.00
30_V	97_A	0.903	1.00
122_K	228_P	0.901	1.00
258_I	281_E	0.890	1.00
29_I	56_V	0.890	1.00
230_R	256_H	0.886	1.00
41_G	268_N	0.877	1.00
243_K	246_K	0.873	1.00
99_V	112_L	0.871	1.00
27_P	122_K	0.869	1.00
93_T	96_K	0.852	1.00
61_Q	104_W	0.849	1.00
111_H	221_K	0.849	1.00
47_K	50_V	0.845	1.00
82_R	115_T	0.844	1.00
126_I	268_N	0.843	1.00
101_G	106_G	0.841	1.00
191_S	195_E	0.832	1.00
87_G	91_Q	0.831	1.00
101_G	109_A	0.830	1.00
33_H	59_P	0.828	1.00
14_I	68_D	0.828	1.00
113_A	120_L	0.823	1.00
192_R	195_E	0.822	1.00
246_K	249_E	0.822	1.00
245_A	257_L	0.818	1.00
36_P	104_W	0.814	1.00
20_A	24_E	0.811	1.00
24_E	55_R	0.806	1.00
75_S	80_T	0.802	1.00
262_E	271_K	0.795	1.00
206_M	209_W	0.790	1.00
83_D	86_I	0.790	1.00
87_G	90_T	0.790	1.00
21_A	50_V	0.786	1.00
28_L	97_A	0.784	1.00
80_T	83_D	0.782	1.00
83_D	87_G	0.779	1.00
232_I	275_V	0.778	1.00
39_W	59_P	0.777	1.00
258_I	274_I	0.776	1.00
57_I	94_D	0.771	1.00
31_L	42_W	0.771	1.00
196_A	200_P	0.768	1.00
209_W	212_A	0.765	1.00
231_M	255_G	0.763	1.00
60_D	66_L	0.761	1.00
101_G	105_G	0.760	1.00
236_E	262_E	0.758	1.00
191_S	194_K	0.754	1.00
25_D	55_R	0.752	1.00
124_I	283_L	0.748	1.00
193_Y	196_A	0.742	1.00
126_I	267_I	0.741	1.00
208_N	211_R	0.739	1.00
30_V	99_V	0.735	1.00
81_L	104_W	0.733	1.00
192_R	196_A	0.733	1.00
234_G	267_I	0.731	1.00
61_Q	64_Y	0.731	1.00
100_I	124_I	0.728	1.00
82_R	112_L	0.727	1.00
122_K	282_Y	0.720	1.00
46_I	50_V	0.719	1.00
120_L	227_V	0.719	1.00
61_Q	81_L	0.716	1.00
194_K	198_K	0.716	1.00
122_K	283_L	0.715	1.00
172_L	175_A	0.715	1.00
169_Y	173_D	0.714	1.00
127_N	233_W	0.714	1.00
195_E	199_Q	0.713	1.00
46_I	56_V	0.713	1.00
170_D	173_D	0.712	1.00
140_L	143_P	0.712	1.00
99_V	120_L	0.712	1.00
155_Q	158_D	0.710	1.00
95_E	119_Y	0.708	1.00
256_H	281_E	0.706	1.00
40_Y	43_K	0.705	1.00
127_N	267_I	0.704	1.00
61_Q	85_I	0.699	1.00
168_D	171_T	0.698	1.00
12_N	80_T	0.692	1.00
171_T	175_A	0.690	1.00
203_L	206_M	0.690	1.00
167_N	170_D	0.689	1.00
16_L	62_R	0.686	1.00
35_F	104_W	0.685	1.00
54_Y	280_L	0.684	1.00
19_A	43_K	0.676	1.00
127_N	234_G	0.675	1.00
45_Q	48_P	0.671	1.00
152_A	155_Q	0.671	1.00
55_R	94_D	0.671	1.00
83_D	116_R	0.669	1.00
235_M	242_R	0.665	1.00
208_N	212_A	0.664	1.00
276_N	280_L	0.662	1.00
151_I	154_F	0.656	1.00
102_H	127_N	0.654	1.00
88_L	91_Q	0.653	1.00
218_L	221_K	0.652	1.00
152_A	156_L	0.651	1.00
29_I	49_L	0.650	1.00
62_R	81_L	0.649	1.00
183_A	186_T	0.649	1.00
220_E	223_S	0.648	1.00
42_W	46_I	0.645	1.00
45_Q	275_V	0.644	1.00
113_A	227_V	0.642	1.00
31_L	49_L	0.641	1.00
22_G	25_D	0.640	1.00
154_F	158_D	0.638	1.00
31_L	58_A	0.637	1.00
29_I	98_I	0.631	1.00
125_A	231_M	0.631	1.00
43_K	47_K	0.631	1.00
102_H	126_I	0.630	1.00
231_M	257_L	0.624	1.00
196_A	199_Q	0.624	1.00
97_A	112_L	0.621	1.00
110_W	130_H	0.620	1.00
225_E	252_C	0.619	1.00
106_G	125_A	0.613	1.00
114_S	224_Y	0.612	1.00
29_I	283_L	0.611	1.00
187_S	190_V	0.611	1.00
85_I	108_V	0.609	1.00
170_D	174_K	0.609	1.00
261_D	274_I	0.608	1.00
231_M	252_C	0.603	1.00
103_D	266_W	0.602	1.00
231_M	249_E	0.601	1.00
42_W	45_Q	0.601	1.00
277_Q	280_L	0.600	1.00
110_W	128_I	0.600	1.00
272_P	276_N	0.599	1.00
89_I	119_Y	0.599	1.00
70_P	76_Y	0.598	1.00
38_F	64_Y	0.598	1.00
232_I	258_I	0.598	1.00
149_S	153_Y	0.597	1.00
203_L	207_L	0.596	1.00
189_D	192_R	0.594	1.00
207_L	211_R	0.590	1.00
207_L	210_Y	0.589	1.00
107_A	129_P	0.587	1.00
226_T	253_P	0.587	1.00
231_M	245_A	0.586	1.00
96_K	119_Y	0.585	1.00
19_A	40_Y	0.585	1.00
138_T	141_Y	0.584	1.00
97_A	121_E	0.582	1.00
79_D	83_D	0.577	1.00
60_D	67_S	0.576	1.00
53_G	56_V	0.576	1.00
124_I	232_I	0.575	1.00
115_T	221_K	0.571	1.00
188_E	192_R	0.570	1.00
41_G	102_H	0.570	1.00
153_Y	157_P	0.569	1.00
124_I	282_Y	0.568	1.00
188_E	191_S	0.566	1.00
205_A	209_W	0.566	1.00
21_A	47_K	0.562	1.00
167_N	174_K	0.561	1.00
81_L	108_V	0.558	1.00
19_A	58_A	0.556	1.00
268_N	275_V	0.555	1.00
32_L	108_V	0.554	1.00
82_R	86_I	0.550	1.00
78_I	111_H	0.548	1.00
17_H	67_S	0.547	1.00
233_W	240_L	0.546	1.00
226_T	254_N	0.543	1.00
279_I	283_L	0.543	1.00
195_E	198_K	0.543	1.00
149_S	152_A	0.541	1.00
219_A	247_E	0.541	1.00
21_A	56_V	0.539	1.00
153_Y	158_D	0.538	1.00
267_I	275_V	0.538	1.00
168_D	176_I	0.536	1.00
206_M	210_Y	0.534	1.00
126_I	232_I	0.533	1.00
45_Q	268_N	0.532	1.00
151_I	155_Q	0.531	1.00
167_N	171_T	0.531	1.00
102_H	267_I	0.531	1.00
116_R	120_L	0.529	1.00
78_I	104_W	0.528	1.00
152_A	157_P	0.527	1.00
219_A	251_H	0.525	1.00
150_Y	154_F	0.525	1.00
236_E	263_A	0.523	1.00
35_F	64_Y	0.522	1.00
245_A	249_E	0.520	1.00
236_E	261_D	0.520	1.00
122_K	230_R	0.518	1.00
12_N	83_D	0.518	1.00
237_D	265_H	0.514	1.00
69_K	76_Y	0.514	1.00
139_P	143_P	0.513	1.00
203_L	210_Y	0.511	1.00
49_L	56_V	0.510	1.00
205_A	208_N	0.509	1.00
171_T	174_K	0.508	1.00
96_K	118_E	0.507	1.00
63_G	76_Y	0.506	1.00
197_W	200_P	0.505	1.00
150_Y	157_P	0.505	1.00
20_A	92_F	0.505	1.00
183_A	187_S	0.505	1.00
150_Y	158_D	0.503	1.00
33_H	42_W	0.503	1.00
138_T	142_P	0.502	1.00
104_W	108_V	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
4inzA	1	0.9685	100	0.107	Contact Map
1ehyA	1	0.9336	100	0.123	Contact Map
3oosA	1	0.9476	100	0.158	Contact Map
4psuA	1	0.9476	100	0.168	Contact Map
3om8A	4	0.9196	100	0.173	Contact Map
2pujA	4	0.9441	100	0.178	Contact Map
2xuaA	2	0.9056	100	0.179	Contact Map
3r40A	2	0.9615	100	0.18	Contact Map
2wueA	4	0.9476	100	0.182	Contact Map
5bovA	2	0.9965	100	0.182	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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