YHJE - BACSU - GREMLIN Contacts

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YHJE - Uncharacterized membrane protein YhjE

UniProt:	O07559	Sequences: MLEHFLSYLTQEHLTELFQSYRAFGPLIAVLLPLIEAFLPFLPLIVFVVANTNSFGLWEGFILSWAGSTAGSILVFLIVRQYGQRKLLGFIRSHPSVRKLMLWVERHGFGPMFLLLCFPFTPSAAVNVVAGLSRIGTRPFILAAASGKLVMIFMISFIGYDLHALITQPIRTVIAVLVITVLWYVGKKVERYLHVRASQREHDGGRQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	207 (175)
Sequences:	9992 (7287)
Seq/√Len:	550.9

ECOLI - YDJX YDJZ YQJA YGHB DEDA YABI YOHD
BACSU - YHJE YQED YTXB YKOX YNGC YBFM
SULSO - Q97V45

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
73_I	137_T	4.054	1.00
136_G	139_P	2.853	1.00
61_F	153_F	2.689	1.00
184_Y	188_K	2.675	1.00
56_G	59_E	2.506	1.00
183_W	187_K	2.409	1.00
69_T	145_A	2.403	1.00
84_Q	101_M	2.343	1.00
73_I	141_I	2.277	1.00
109_F	143_A	2.275	1.00
65_W	149_L	2.105	1.00
171_R	175_A	2.100	1.00
185_V	189_V	2.097	1.00
29_A	51_N	2.063	1.00
113_F	146_S	2.061	1.00
107_H	110_G	1.956	1.00
56_G	60_G	1.940	1.00
30_V	63_L	1.931	1.00
109_F	139_P	1.919	1.00
34_L	74_L	1.838	1.00
101_M	105_E	1.756	1.00
52_T	159_G	1.724	1.00
98_R	102_L	1.714	1.00
77_L	81_Q	1.689	1.00
64_S	152_I	1.681	1.00
183_W	186_G	1.647	1.00
30_V	67_G	1.644	1.00
26_P	63_L	1.641	1.00
189_V	193_L	1.614	1.00
61_F	156_S	1.610	1.00
83_G	86_K	1.604	1.00
57_L	61_F	1.600	1.00
69_T	141_I	1.591	1.00
77_L	137_T	1.574	1.00
137_T	141_I	1.572	1.00
174_I	178_V	1.570	1.00
80_R	134_R	1.562	1.00
170_I	174_I	1.562	1.00
157_F	161_D	1.533	1.00
186_G	190_E	1.497	1.00
57_L	157_F	1.496	1.00
30_V	66_A	1.486	1.00
79_V	132_L	1.485	1.00
72_S	144_A	1.480	1.00
34_L	70_A	1.428	1.00
171_R	174_I	1.383	1.00
138_R	142_L	1.370	1.00
79_V	131_G	1.370	1.00
17_L	21_Y	1.367	1.00
187_K	191_R	1.359	1.00
173_V	177_L	1.325	1.00
180_T	183_W	1.325	1.00
96_S	99_K	1.299	1.00
51_N	60_G	1.281	1.00
59_E	62_I	1.277	1.00
73_I	77_L	1.273	1.00
30_V	34_L	1.262	1.00
58_W	62_I	1.259	1.00
58_W	61_F	1.249	1.00
186_G	189_V	1.245	1.00
60_G	156_S	1.222	1.00
26_P	59_E	1.215	1.00
59_E	63_L	1.211	1.00
48_V	64_S	1.202	1.00
188_K	191_R	1.187	1.00
182_L	186_G	1.187	1.00
18_F	25_G	1.186	1.00
184_Y	187_K	1.167	1.00
64_S	156_S	1.159	1.00
112_M	143_A	1.159	1.00
25_G	55_F	1.159	1.00
98_R	101_M	1.123	1.00
188_K	192_Y	1.120	1.00
165_L	169_P	1.106	1.00
84_Q	88_L	1.102	1.00
29_A	64_S	1.102	1.00
187_K	190_E	1.101	1.00
165_L	168_Q	1.099	1.00
101_M	134_R	1.099	1.00
101_M	133_S	1.097	1.00
104_V	130_A	1.096	1.00
150_V	153_F	1.095	1.00
55_F	60_G	1.091	1.00
172_T	176_V	1.091	1.00
63_L	67_G	1.087	1.00
65_W	145_A	1.076	1.00
115_L	126_V	1.068	1.00
26_P	56_G	1.056	1.00
123_S	151_M	1.054	1.00
86_K	90_F	1.041	1.00
116_L	144_A	1.040	1.00
30_V	70_A	1.035	1.00
48_V	156_S	1.022	1.00
61_F	65_W	1.011	1.00
180_T	184_Y	0.991	1.00
141_I	145_A	0.968	1.00
75_V	128_V	0.965	1.00
52_T	156_S	0.964	1.00
61_F	157_F	0.959	1.00
110_G	114_L	0.953	1.00
175_A	179_I	0.942	1.00
81_Q	85_R	0.942	1.00
117_C	150_V	0.936	1.00
176_V	180_T	0.932	1.00
146_S	149_L	0.926	1.00
172_T	175_A	0.923	1.00
24_F	28_I	0.917	1.00
179_I	183_W	0.916	1.00
103_W	111_P	0.909	1.00
138_R	141_I	0.908	1.00
95_P	99_K	0.900	1.00
17_L	20_S	0.896	1.00
116_L	127_N	0.894	1.00
48_V	52_T	0.889	1.00
144_A	148_K	0.888	1.00
65_W	152_I	0.886	1.00
62_I	66_A	0.882	1.00
92_R	96_S	0.880	1.00
51_N	55_F	0.878	1.00
139_P	143_A	0.872	1.00
102_L	106_R	0.869	1.00
33_P	37_A	0.868	1.00
113_F	143_A	0.866	1.00
112_M	135_I	0.861	1.00
33_P	67_G	0.860	1.00
123_S	148_K	0.854	1.00
33_P	48_V	0.850	1.00
170_I	173_V	0.850	1.00
113_F	150_V	0.848	1.00
58_W	157_F	0.842	1.00
52_T	60_G	0.842	1.00
127_N	144_A	0.839	1.00
69_T	148_K	0.837	1.00
109_F	142_L	0.830	1.00
178_V	182_L	0.828	1.00
76_F	137_T	0.824	1.00
152_I	156_S	0.822	1.00
68_S	148_K	0.822	1.00
33_P	36_E	0.820	1.00
139_P	142_L	0.819	1.00
65_W	69_T	0.818	1.00
21_Y	28_I	0.816	1.00
84_Q	87_L	0.812	1.00
90_F	93_S	0.810	1.00
45_I	123_S	0.808	1.00
57_L	156_S	0.805	1.00
33_P	47_F	0.800	1.00
153_F	157_F	0.791	1.00
51_N	64_S	0.783	1.00
102_L	105_E	0.776	1.00
50_A	53_N	0.770	1.00
175_A	178_V	0.768	1.00
45_I	155_I	0.758	1.00
62_I	65_W	0.753	1.00
42_L	124_A	0.752	1.00
36_E	124_A	0.749	1.00
36_E	44_L	0.747	1.00
48_V	152_I	0.741	1.00
181_V	185_V	0.736	1.00
143_A	147_G	0.731	1.00
177_L	180_T	0.729	1.00
72_S	116_L	0.729	1.00
71_G	75_V	0.729	1.00
76_F	140_F	0.725	1.00
77_L	80_R	0.724	1.00
48_V	68_S	0.721	1.00
76_F	80_R	0.718	1.00
79_V	128_V	0.717	1.00
27_L	31_L	0.707	1.00
189_V	192_Y	0.707	1.00
190_E	193_L	0.704	1.00
103_W	106_R	0.702	1.00
186_G	193_L	0.700	1.00
35_I	40_P	0.696	1.00
86_K	89_G	0.696	1.00
72_S	137_T	0.691	1.00
87_L	97_V	0.691	1.00
177_L	181_V	0.690	1.00
46_V	50_A	0.682	1.00
50_A	54_S	0.682	1.00
142_L	146_S	0.682	1.00
170_I	188_K	0.682	1.00
63_L	66_A	0.675	1.00
162_L	165_L	0.674	1.00
158_I	162_L	0.668	1.00
114_L	118_F	0.663	1.00
37_A	116_L	0.659	1.00
179_I	186_G	0.658	1.00
37_A	71_G	0.654	1.00
162_L	166_I	0.653	1.00
75_V	124_A	0.643	1.00
17_L	25_G	0.642	1.00
72_S	127_N	0.638	1.00
22_R	25_G	0.636	1.00
99_K	103_W	0.634	1.00
34_L	67_G	0.633	1.00
78_I	82_Y	0.631	1.00
85_R	88_L	0.628	1.00
36_E	71_G	0.628	1.00
40_P	124_A	0.627	1.00
146_S	150_V	0.626	1.00
95_P	98_R	0.626	1.00
148_K	151_M	0.624	1.00
104_V	108_G	0.622	1.00
145_A	149_L	0.621	1.00
57_L	153_F	0.619	1.00
174_I	177_L	0.616	1.00
23_A	27_L	0.612	1.00
70_A	74_L	0.611	1.00
154_M	157_F	0.602	1.00
86_K	91_I	0.595	1.00
116_L	148_K	0.595	1.00
21_Y	25_G	0.595	1.00
65_W	148_K	0.595	1.00
171_R	178_V	0.593	1.00
96_S	100_L	0.591	1.00
115_L	130_A	0.590	1.00
112_M	130_A	0.589	1.00
24_F	27_L	0.587	1.00
126_V	130_A	0.587	1.00
171_R	183_W	0.584	1.00
88_L	93_S	0.583	1.00
82_Y	85_R	0.582	1.00
170_I	187_K	0.577	0.99
68_S	116_L	0.577	0.99
87_L	91_I	0.574	0.99
172_T	187_K	0.573	0.99
160_Y	163_H	0.572	0.99
142_L	145_A	0.570	0.99
124_A	127_N	0.564	0.99
153_F	156_S	0.563	0.99
35_I	39_L	0.560	0.99
29_A	60_G	0.557	0.99
180_T	187_K	0.552	0.99
158_I	161_D	0.550	0.99
88_L	98_R	0.549	0.99
185_V	188_K	0.548	0.99
181_V	184_Y	0.545	0.99
91_I	97_V	0.542	0.99
170_I	182_L	0.540	0.99
25_G	28_I	0.538	0.99
97_V	101_M	0.537	0.99
69_T	144_A	0.536	0.99
118_F	121_T	0.535	0.99
41_F	124_A	0.534	0.99
171_R	186_G	0.530	0.99
93_S	98_R	0.528	0.99
39_L	44_L	0.524	0.99
172_T	179_I	0.523	0.99
130_A	135_I	0.523	0.99
160_Y	164_A	0.523	0.99
67_G	71_G	0.520	0.99
44_L	151_M	0.518	0.99
149_L	153_F	0.518	0.99
33_P	44_L	0.518	0.99
85_R	89_G	0.512	0.99
154_M	158_I	0.508	0.99
170_I	185_V	0.506	0.99
61_F	149_L	0.505	0.99
113_F	147_G	0.502	0.99
72_S	140_F	0.501	0.99
171_R	179_I	0.500	0.99

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
4rp9A	2	0.9179	70.7	0.906	Contact Map
3w9iA	3	0.8261	62.6	0.911	Contact Map
4dx5A	3	0.8551	60.9	0.912	Contact Map
3b60A	2	0.8744	56.8	0.914	Contact Map
3b5xA	2	0.8792	53.3	0.916	Contact Map
3zdqA	2	0.8841	48.1	0.919	Contact Map
3zuxA	1	0.9082	48	0.919	Contact Map
3rlbA	1	0.686	41.7	0.922	Contact Map
4xnjA	1	0.9082	41.5	0.922	Contact Map
4q65A	1	0.8696	40.7	0.922	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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