ABC2_membrane_5 - PFAM28P - GREMLIN Contacts

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ABC2_membrane_5 - ABC-2 family transporter protein

PFAM:	PF13346	Sequences: GLLLKDFYLLKKYLKILLLILLLLAILFFLFLNSSFSLFFSLLLLFLAAILTMRLFAEEEKSGTDELLLTLPVSRKQIVLGKYLAALLLLLIALLLTLLYALILLLLLGPLDLGPLLGGYLGLLLLGLLFLAIGLPLSFKFGNQKGAIILFIVIFLLFFLLFALFSLESLSLGLIDLRDLILFLSLIVIFLLLLALSYFLSVRIYK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	206 (183)
Sequences:	11020 (9359)
Seq/√Len:	691.9
META:	0.81

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
74_S	77_Q	4.375	1.00
80_L	198_Y	3.520	1.00
86_A	131_L	3.139	1.00
64_T	68_L	2.939	1.00
195_A	199_F	2.922	1.00
69_L	75_R	2.716	1.00
190_F	194_L	2.422	1.00
163_A	166_S	2.236	1.00
163_A	167_L	2.199	1.00
90_L	127_G	2.186	1.00
45_L	48_A	2.165	1.00
112_D	115_P	2.083	1.00
175_I	178_R	1.948	1.00
143_N	147_A	1.934	1.00
162_F	166_S	1.898	1.00
44_L	48_A	1.790	1.00
77_Q	80_L	1.783	1.00
151_F	155_F	1.779	1.00
177_L	180_L	1.771	1.00
41_S	44_L	1.738	1.00
59_E	64_T	1.737	1.00
28_F	31_F	1.710	1.00
137_L	141_F	1.692	1.00
104_L	108_L	1.688	1.00
105_L	109_G	1.680	1.00
68_L	78_I	1.680	1.00
144_Q	147_A	1.657	1.00
105_L	108_L	1.641	1.00
55_L	82_K	1.623	1.00
81_G	85_A	1.603	1.00
79_V	139_F	1.588	1.00
194_L	198_Y	1.586	1.00
87_L	128_L	1.576	1.00
63_G	66_E	1.568	1.00
77_Q	81_G	1.555	1.00
143_N	146_G	1.551	1.00
49_A	52_T	1.548	1.00
125_L	128_L	1.542	1.00
186_L	190_F	1.529	1.00
24_L	27_L	1.526	1.00
45_L	49_A	1.462	1.00
36_F	39_F	1.397	1.00
48_A	52_T	1.389	1.00
160_L	163_A	1.386	1.00
91_L	124_L	1.381	1.00
148_I	152_I	1.381	1.00
29_F	32_L	1.370	1.00
54_R	58_E	1.344	1.00
154_I	158_F	1.339	1.00
176_D	179_D	1.338	1.00
162_F	165_F	1.327	1.00
59_E	82_K	1.322	1.00
23_L	26_I	1.320	1.00
55_L	86_A	1.312	1.00
182_L	185_S	1.299	1.00
58_E	61_K	1.272	1.00
80_L	84_L	1.256	1.00
41_S	48_A	1.251	1.00
76_K	80_L	1.250	1.00
68_L	82_K	1.249	1.00
25_A	30_L	1.249	1.00
134_G	138_S	1.241	1.00
40_F	44_L	1.235	1.00
25_A	29_F	1.226	1.00
64_T	67_L	1.225	1.00
66_E	69_L	1.209	1.00
33_N	36_F	1.207	1.00
28_F	32_L	1.187	1.00
176_D	180_L	1.165	1.00
104_L	107_L	1.161	1.00
183_F	187_I	1.143	1.00
136_P	139_F	1.142	1.00
174_L	177_L	1.137	1.00
150_L	153_V	1.131	1.00
172_L	175_I	1.127	1.00
40_F	43_L	1.125	1.00
44_L	50_I	1.125	1.00
174_L	180_L	1.115	1.00
173_G	180_L	1.111	1.00
188_V	192_L	1.105	1.00
26_I	31_F	1.101	1.00
107_L	110_P	1.095	1.00
71_L	75_R	1.083	1.00
44_L	49_A	1.078	1.00
150_L	154_I	1.065	1.00
67_L	71_L	1.060	1.00
183_F	186_L	1.052	1.00
44_L	47_L	1.041	1.00
172_L	178_R	1.038	1.00
78_I	139_F	1.034	1.00
69_L	78_I	1.015	1.00
171_S	174_L	1.013	1.00
83_Y	197_S	1.004	1.00
115_P	119_G	1.003	1.00
26_I	29_F	1.002	1.00
46_F	49_A	0.990	1.00
175_I	179_D	0.981	1.00
41_S	50_I	0.981	1.00
160_L	166_S	0.978	1.00
173_G	176_D	0.977	1.00
117_L	120_Y	0.970	1.00
34_S	37_S	0.966	1.00
173_G	177_L	0.965	1.00
136_P	197_S	0.964	1.00
136_P	140_K	0.963	1.00
149_I	153_V	0.963	1.00
185_S	189_I	0.962	1.00
180_L	183_F	0.959	1.00
192_L	196_L	0.958	1.00
116_L	119_G	0.958	1.00
174_L	178_R	0.956	1.00
194_L	197_S	0.955	1.00
54_R	57_A	0.953	1.00
48_A	51_L	0.952	1.00
102_L	105_L	0.944	1.00
127_G	131_L	0.943	1.00
181_I	185_S	0.924	1.00
22_L	26_I	0.923	1.00
22_L	25_A	0.919	1.00
196_L	200_L	0.910	1.00
35_S	38_L	0.896	1.00
183_F	190_F	0.893	1.00
21_L	26_I	0.891	1.00
19_L	23_L	0.887	1.00
17_L	21_L	0.886	1.00
155_F	158_F	0.861	1.00
187_I	190_F	0.859	1.00
83_Y	136_P	0.852	1.00
189_I	193_L	0.850	1.00
47_L	50_I	0.846	1.00
190_F	193_L	0.844	1.00
162_F	167_L	0.839	1.00
116_L	120_Y	0.838	1.00
173_G	178_R	0.833	1.00
122_G	125_L	0.831	1.00
160_L	165_F	0.829	1.00
130_F	134_G	0.826	1.00
60_E	142_G	0.826	1.00
37_S	40_F	0.822	1.00
114_G	118_G	0.809	1.00
38_L	42_L	0.809	1.00
179_D	183_F	0.805	1.00
27_L	30_L	0.804	1.00
23_L	28_F	0.801	1.00
25_A	28_F	0.800	1.00
27_L	31_F	0.800	1.00
65_D	78_I	0.798	1.00
152_I	158_F	0.796	1.00
45_L	50_I	0.795	1.00
151_F	159_F	0.791	1.00
126_L	130_F	0.785	1.00
90_L	94_L	0.785	1.00
173_G	182_L	0.783	1.00
21_L	25_A	0.768	1.00
158_F	162_F	0.762	1.00
33_N	37_S	0.761	1.00
82_K	139_F	0.760	1.00
172_L	177_L	0.759	1.00
21_L	30_L	0.756	1.00
42_L	50_I	0.755	1.00
22_L	29_F	0.752	1.00
40_F	48_A	0.748	1.00
36_F	40_F	0.746	1.00
141_F	146_G	0.742	1.00
159_F	162_F	0.729	1.00
160_L	164_L	0.725	1.00
190_F	197_S	0.725	1.00
24_L	31_F	0.725	1.00
172_L	176_D	0.720	1.00
134_G	137_L	0.715	1.00
83_Y	87_L	0.714	1.00
56_F	60_E	0.713	1.00
124_L	128_L	0.709	1.00
142_G	147_A	0.708	1.00
171_S	178_R	0.707	1.00
135_L	138_S	0.705	1.00
182_L	186_L	0.703	1.00
169_S	179_D	0.702	1.00
145_K	148_I	0.702	1.00
192_L	195_A	0.699	1.00
161_L	165_F	0.692	1.00
35_S	39_F	0.689	1.00
24_L	30_L	0.689	1.00
161_L	166_S	0.686	1.00
56_F	71_L	0.684	1.00
104_L	109_G	0.683	1.00
18_L	22_L	0.681	1.00
180_L	184_L	0.680	1.00
186_L	189_I	0.679	1.00
73_V	78_I	0.678	1.00
62_S	65_D	0.677	1.00
149_I	156_L	0.672	1.00
21_L	28_F	0.672	1.00
64_T	78_I	0.669	1.00
42_L	45_L	0.669	1.00
84_L	88_L	0.666	1.00
131_L	134_G	0.665	1.00
41_S	47_L	0.665	1.00
17_L	22_L	0.664	1.00
118_G	122_G	0.663	1.00
177_L	181_I	0.662	1.00
56_F	79_V	0.662	1.00
175_I	180_L	0.661	1.00
18_L	21_L	0.660	1.00
59_E	68_L	0.659	1.00
39_F	46_F	0.658	1.00
171_S	175_I	0.657	1.00
157_L	160_L	0.656	1.00
174_L	179_D	0.656	1.00
132_A	136_P	0.653	1.00
26_I	32_L	0.648	1.00
142_G	146_G	0.646	1.00
151_F	156_L	0.644	1.00
185_S	188_V	0.641	1.00
139_F	143_N	0.641	1.00
96_L	100_Y	0.640	1.00
21_L	31_F	0.638	1.00
126_L	129_L	0.638	1.00
160_L	167_L	0.637	1.00
184_L	187_I	0.635	1.00
42_L	46_F	0.633	1.00
47_L	52_T	0.632	1.00
171_S	176_D	0.627	1.00
42_L	49_A	0.627	1.00
21_L	32_L	0.626	1.00
27_L	32_L	0.625	1.00
191_L	194_L	0.624	1.00
83_Y	132_A	0.624	1.00
22_L	28_F	0.623	1.00
41_S	49_A	0.621	1.00
95_L	99_L	0.615	1.00
128_L	132_A	0.615	1.00
132_A	194_L	0.612	1.00
23_L	27_L	0.610	1.00
96_L	99_L	0.606	1.00
133_I	136_P	0.604	1.00
41_S	45_L	0.601	1.00
24_L	28_F	0.598	1.00
113_L	116_L	0.596	1.00
191_L	195_A	0.596	1.00
161_L	164_L	0.596	1.00
155_F	159_F	0.591	1.00
36_F	41_S	0.587	1.00
185_S	191_L	0.583	1.00
18_L	26_I	0.580	1.00
98_L	101_A	0.579	1.00
115_P	118_G	0.577	1.00
38_L	44_L	0.575	1.00
56_F	139_F	0.573	1.00
64_T	70_T	0.567	1.00
178_R	181_I	0.565	1.00
40_F	49_A	0.562	1.00
111_L	116_L	0.559	1.00
106_L	109_G	0.557	1.00
134_G	140_K	0.556	1.00
47_L	51_L	0.556	1.00
22_L	32_L	0.550	1.00
57_A	60_E	0.549	1.00
21_L	24_L	0.544	1.00
85_A	89_L	0.544	1.00
120_Y	123_L	0.541	1.00
183_F	197_S	0.541	1.00
79_V	83_Y	0.537	1.00
42_L	48_A	0.530	1.00
138_S	143_N	0.527	1.00
66_E	70_T	0.525	1.00
93_A	97_T	0.525	1.00
148_I	151_F	0.522	1.00
135_L	139_F	0.519	1.00
23_L	29_F	0.518	1.00
119_G	123_L	0.511	0.99
196_L	199_F	0.509	0.99
127_G	130_F	0.505	0.99
97_T	120_Y	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
3j1zP	8	0.6505	1.4	0.937	Contact Map
3ne5A	3	0.6893	1.2	0.941	Contact Map
4qndA	2	0.301	1.1	0.942	Contact Map
2pq4B	1	0.1699	1	0.943	Contact Map
1zx3A	3	0.1748	1	0.943	Contact Map
4yl6B	1	0.0583	0.9	0.945	Contact Map
1jb0M	1	0.1505	0.9	0.945	Contact Map
3plvC	1	0.1019	0.8	0.947	Contact Map
1fdmA	1	0.2087	0.8	0.947	Contact Map
2nq2A	2	0.2524	0.7	0.948	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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