YCEF - BACSU - GREMLIN Contacts

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YCEF - Uncharacterized membrane protein YceF

UniProt:	O34447	Sequences: MDFLHHILSTYASFFDWKMWGEVLTDPVSWGLIGSLVVLEGLLSADNALVLAVMVKHLPEKQRKKALTYGLFGAYIFRFIFIGLGMLLIKFWWIKVLGALYLAWLVIKHFWIGEKEEEADGMKKNSWMVRTFGIFWATVISVELMDLAFSVDSILAAFAVSEKVWVLLIGGMLGILMMRTVAKVFLVLIDKIPELENTAFVLIGIIALKMAGSAFHYEMPHSVFFIIIIAAFAVTLIIHYINKQKQVREQTAASKEE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	257 (222)
Sequences:	4528 (2450)
Seq/√Len:	164.5

ECOLI - ALX YGDQ YOAE YEGH
BACSU - YCEF YKOY YJBE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
79_F	168_L	3.701	1.00
60_E	63_R	3.645	1.00
99_A	211_A	3.561	1.00
77_F	147_L	3.239	1.00
73_G	143_E	3.166	1.00
125_N	130_R	2.842	1.00
198_T	235_T	2.833	1.00
106_V	204_G	2.685	1.00
33_I	173_L	2.653	1.00
36_L	157_A	2.576	1.00
28_V	32_L	2.551	1.00
237_I	241_I	2.336	1.00
79_F	83_G	2.296	1.00
242_N	246_Q	2.286	1.00
64_K	183_K	2.238	1.00
33_I	169_I	2.226	1.00
183_K	187_V	2.117	1.00
107_I	111_W	2.082	1.00
39_L	160_V	2.067	1.00
222_S	226_I	2.051	1.00
66_A	142_V	2.036	1.00
165_W	169_I	1.937	1.00
37_V	173_L	1.930	1.00
201_V	231_A	1.918	1.00
244_Q	247_V	1.894	1.00
108_K	112_I	1.850	1.00
236_L	240_Y	1.841	1.00
69_Y	73_G	1.839	1.00
61_K	65_K	1.835	1.00
83_G	164_V	1.807	1.00
73_G	77_F	1.794	1.00
75_Y	172_M	1.760	1.00
59_P	62_Q	1.751	1.00
104_W	108_K	1.738	1.00
58_L	138_T	1.734	1.00
95_K	213_S	1.733	1.00
235_T	238_I	1.721	1.00
96_V	214_A	1.691	1.00
64_K	68_T	1.684	1.00
27_P	30_W	1.672	1.00
31_G	35_S	1.659	1.00
108_K	111_W	1.653	1.00
234_V	238_I	1.652	1.00
62_Q	65_K	1.638	1.00
235_T	239_H	1.620	1.00
34_G	38_V	1.616	1.00
72_F	76_I	1.586	1.00
223_V	227_I	1.549	1.00
112_I	115_K	1.533	1.00
224_F	228_I	1.509	1.00
193_P	242_N	1.489	1.00
240_Y	244_Q	1.483	1.00
29_S	166_V	1.478	1.00
223_V	226_I	1.475	1.00
103_A	207_A	1.469	1.00
65_K	69_Y	1.462	1.00
22_E	26_D	1.451	1.00
240_Y	243_K	1.410	1.00
76_I	80_I	1.389	1.00
88_L	94_I	1.381	1.00
201_V	234_V	1.379	1.00
77_F	143_E	1.355	1.00
29_S	163_K	1.346	1.00
82_I	171_G	1.341	1.00
241_I	245_K	1.328	1.00
212_G	217_Y	1.325	1.00
231_A	234_V	1.324	1.00
110_F	197_N	1.307	1.00
161_S	166_V	1.293	1.00
140_I	144_L	1.292	1.00
187_V	191_K	1.272	1.00
85_G	147_L	1.267	1.00
230_A	234_V	1.258	1.00
68_T	72_F	1.254	1.00
169_I	173_L	1.251	1.00
69_Y	139_V	1.249	1.00
126_S	131_T	1.227	1.00
26_D	29_S	1.226	1.00
99_A	207_A	1.209	1.00
40_E	44_S	1.208	1.00
236_L	239_H	1.199	1.00
56_K	190_D	1.191	1.00
84_L	88_L	1.181	1.00
238_I	241_I	1.169	1.00
80_I	84_L	1.167	1.00
241_I	244_Q	1.164	1.00
197_N	201_V	1.154	1.00
220_P	223_V	1.149	1.00
227_I	231_A	1.143	1.00
25_T	29_S	1.143	1.00
107_I	204_G	1.129	1.00
194_E	242_N	1.117	1.00
126_S	129_V	1.106	1.00
115_K	192_I	1.097	1.00
115_K	118_E	1.095	1.00
133_G	138_T	1.084	1.00
111_W	115_K	1.073	0.99
111_W	194_E	1.073	0.99
101_Y	151_V	1.072	0.99
58_L	66_A	1.043	0.99
136_W	140_I	1.041	0.99
32_L	166_V	1.038	0.99
132_F	137_A	1.025	0.99
37_V	41_G	1.009	0.99
48_A	51_L	1.006	0.99
109_H	200_F	0.995	0.99
230_A	237_I	0.991	0.99
127_W	131_T	0.986	0.99
95_K	206_I	0.983	0.99
52_A	186_L	0.975	0.99
30_W	34_G	0.972	0.99
208_L	212_G	0.964	0.99
65_K	135_F	0.963	0.99
63_R	187_V	0.948	0.99
232_F	235_T	0.946	0.99
86_M	158_F	0.943	0.99
48_A	210_M	0.941	0.99
79_F	171_G	0.931	0.99
189_I	210_M	0.929	0.99
232_F	239_H	0.928	0.99
228_I	231_A	0.927	0.98
35_S	160_V	0.924	0.98
26_D	30_W	0.923	0.98
29_S	169_I	0.920	0.98
52_A	189_I	0.917	0.98
28_V	31_G	0.915	0.98
209_K	213_S	0.914	0.98
161_S	165_W	0.913	0.98
55_V	186_L	0.913	0.98
92_W	96_V	0.911	0.98
220_P	227_I	0.903	0.98
23_V	26_D	0.899	0.98
75_Y	175_I	0.898	0.98
139_V	142_V	0.897	0.98
229_I	233_A	0.894	0.98
158_F	161_S	0.893	0.98
52_A	185_F	0.889	0.98
191_K	243_K	0.887	0.98
205_I	209_K	0.887	0.98
84_L	87_L	0.880	0.98
174_G	185_F	0.877	0.98
48_A	185_F	0.873	0.98
24_L	27_P	0.868	0.98
128_M	131_T	0.864	0.98
22_E	30_W	0.864	0.98
29_S	32_L	0.864	0.98
77_F	80_I	0.863	0.98
23_V	30_W	0.858	0.98
22_E	25_T	0.858	0.98
36_L	167_L	0.857	0.97
25_T	30_W	0.850	0.97
41_G	176_L	0.847	0.97
83_G	87_L	0.843	0.97
177_M	185_F	0.841	0.97
90_K	93_W	0.840	0.97
157_A	167_L	0.838	0.97
221_H	225_F	0.834	0.97
53_V	196_E	0.832	0.97
209_K	224_F	0.831	0.97
36_L	161_S	0.822	0.97
226_I	230_A	0.821	0.97
87_L	90_K	0.820	0.97
227_I	230_A	0.818	0.97
159_A	206_I	0.817	0.97
106_V	203_I	0.816	0.97
75_Y	179_R	0.814	0.97
55_V	183_K	0.810	0.96
233_A	237_I	0.809	0.96
147_L	154_I	0.808	0.96
195_L	239_H	0.805	0.96
197_N	237_I	0.792	0.96
163_K	166_V	0.791	0.96
193_P	243_K	0.789	0.96
45_A	48_A	0.789	0.96
40_E	82_I	0.787	0.96
89_I	154_I	0.781	0.96
127_W	130_R	0.779	0.96
205_I	227_I	0.773	0.95
58_L	139_V	0.772	0.95
66_A	135_F	0.772	0.95
133_G	137_A	0.771	0.95
168_L	172_M	0.769	0.95
106_V	207_A	0.768	0.95
71_L	179_R	0.767	0.95
52_A	139_V	0.764	0.95
126_S	130_R	0.761	0.95
171_G	175_I	0.761	0.95
27_P	31_G	0.761	0.95
138_T	145_M	0.759	0.95
155_L	209_K	0.755	0.95
171_G	174_G	0.750	0.95
159_A	213_S	0.748	0.95
242_N	245_K	0.745	0.94
137_A	140_I	0.744	0.94
103_A	107_I	0.742	0.94
230_A	233_A	0.742	0.94
101_Y	105_L	0.739	0.94
225_F	228_I	0.739	0.94
125_N	129_V	0.737	0.94
194_E	197_N	0.727	0.94
212_G	215_F	0.723	0.93
136_W	139_V	0.718	0.93
82_I	206_I	0.711	0.93
219_M	223_V	0.711	0.93
94_I	97_L	0.703	0.92
55_V	142_V	0.702	0.92
202_L	231_A	0.701	0.92
194_E	238_I	0.697	0.92
40_E	167_L	0.696	0.92
109_H	196_E	0.692	0.92
44_S	81_F	0.688	0.92
125_N	128_M	0.688	0.92
220_P	235_T	0.688	0.92
126_S	247_V	0.683	0.91
224_F	235_T	0.682	0.91
35_S	39_L	0.678	0.91
63_R	190_D	0.673	0.91
139_V	143_E	0.672	0.91
96_V	211_A	0.668	0.90
99_A	197_N	0.667	0.90
44_S	178_M	0.667	0.90
54_M	142_V	0.665	0.90
189_I	195_L	0.663	0.90
36_L	166_V	0.663	0.90
76_I	83_G	0.662	0.90
228_I	239_H	0.660	0.90
132_F	136_W	0.659	0.90
187_V	190_D	0.658	0.90
110_F	114_E	0.658	0.90
42_L	206_I	0.656	0.90
117_E	120_D	0.655	0.90
63_R	182_A	0.654	0.90
237_I	240_Y	0.651	0.89
40_E	149_F	0.651	0.89
67_L	179_R	0.651	0.89
222_S	230_A	0.648	0.89
25_T	163_K	0.644	0.89
90_K	100_L	0.644	0.89
55_V	63_R	0.643	0.89
243_K	247_V	0.642	0.89
174_G	186_L	0.641	0.89
48_A	199_A	0.641	0.89
219_M	227_I	0.639	0.88
231_A	235_T	0.637	0.88
202_L	227_I	0.631	0.88
97_L	100_L	0.627	0.88
224_F	227_I	0.627	0.88
74_A	146_D	0.625	0.87
228_I	232_F	0.624	0.87
192_I	195_L	0.623	0.87
45_A	170_G	0.620	0.87
60_E	64_K	0.614	0.86
189_I	202_L	0.613	0.86
54_M	145_M	0.610	0.86
85_G	88_L	0.602	0.85
22_E	27_P	0.600	0.85
58_L	62_Q	0.598	0.85
218_E	224_F	0.596	0.85
228_I	236_L	0.593	0.84
151_V	154_I	0.593	0.84
44_S	151_V	0.588	0.84
157_A	160_V	0.586	0.84
213_S	217_Y	0.584	0.84
105_L	109_H	0.584	0.84
234_V	239_H	0.582	0.83
83_G	168_L	0.581	0.83
65_K	68_T	0.580	0.83
63_R	186_L	0.580	0.83
226_I	233_A	0.579	0.83
106_V	185_F	0.579	0.83
95_K	210_M	0.578	0.83
44_S	150_S	0.578	0.83
96_V	215_F	0.578	0.83
202_L	233_A	0.577	0.83
78_R	146_D	0.576	0.83
204_G	208_L	0.573	0.82
53_V	200_F	0.573	0.82
48_A	170_G	0.569	0.82
33_I	99_A	0.569	0.82
58_L	134_I	0.567	0.82
109_H	197_N	0.567	0.82
85_G	177_M	0.567	0.82
44_S	167_L	0.567	0.82
55_V	66_A	0.567	0.82
98_G	155_L	0.566	0.82
236_L	241_I	0.565	0.82
148_A	151_V	0.561	0.81
104_W	107_I	0.560	0.81
220_P	224_F	0.559	0.81
110_F	200_F	0.557	0.81
44_S	181_V	0.556	0.81
73_G	139_V	0.556	0.81
231_A	238_I	0.556	0.81
80_I	83_G	0.554	0.80
81_F	150_S	0.554	0.80
29_S	165_W	0.551	0.80
33_I	37_V	0.551	0.80
114_E	118_E	0.550	0.80
219_M	224_F	0.549	0.80
128_M	133_G	0.549	0.80
167_L	210_M	0.548	0.80
230_A	238_I	0.547	0.79
50_V	210_M	0.545	0.79
98_G	199_A	0.543	0.79
56_K	196_E	0.538	0.78
26_D	32_L	0.534	0.78
49_L	189_I	0.532	0.78
114_E	117_E	0.531	0.77
68_T	154_I	0.531	0.77
27_P	219_M	0.530	0.77
228_I	235_T	0.529	0.77
225_F	239_H	0.528	0.77
239_H	243_K	0.528	0.77
224_F	239_H	0.527	0.77
81_F	147_L	0.525	0.77
130_R	133_G	0.523	0.76
197_N	200_F	0.522	0.76
200_F	204_G	0.522	0.76
49_L	167_L	0.522	0.76
85_G	158_F	0.519	0.76
151_V	228_I	0.517	0.76
54_M	138_T	0.517	0.76
44_S	177_M	0.517	0.76
97_L	246_Q	0.517	0.76
32_L	161_S	0.512	0.75
101_Y	104_W	0.511	0.75
23_V	27_P	0.510	0.75
89_I	95_K	0.508	0.74
66_A	139_V	0.507	0.74
134_I	137_A	0.507	0.74
144_L	148_A	0.501	0.73
39_L	69_Y	0.501	0.73
125_N	131_T	0.500	0.73

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
2kncA	1	0.1868	54.1	0.944	Contact Map
1pw4A	1	0.9533	46.4	0.946	Contact Map
3giaA	1	0.9261	43	0.947	Contact Map
4czbA	2	0.8833	41.1	0.948	Contact Map
2gfpA	2	0.9922	34.8	0.95	Contact Map
4w6vA	1	0.4202	32.7	0.95	Contact Map
2cfqA	1	0.4981	26.8	0.952	Contact Map
4xnjA	1	0.9689	26.1	0.953	Contact Map
3wdoA	1	0.9728	23.4	0.954	Contact Map
3o7qA	1	0.428	22.9	0.954	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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