ABC2_membrane_2 - PFAM28P - GREMLIN Contacts

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ABC2_membrane_2 - ABC-2 family transporter protein

PFAM:	PF12679	Sequences: WAIARKELRQLLRDRRTLILLLLLPLLDLALAVLDADGSSLSRELVAAFDASLAFASGEAASALDIPEDFSRDLKVVPGLIALLLPLIAILLTALAIARERERGTLEQLLVTPVSRLEILLGKLLPYLLVGLILALILLVGLLLALALLLLFGVPLRGSSLLLLLLLALLLLLLLVFLALGLLISTLARSQQQAAQLALFLLLLPAILLSGFLFPIESMPAGLQVPPEWLQILSYLSPLTYFLLILRGILLGGAGWGLADLWPSLLALLAFAAVFLALAVLRFRRRDL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	288 (274)
Sequences:	67010 (56040)
Seq/√Len:	3385.5
META:	0.834

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
4_A	129_L	4.067	1.00
137_I	141_G	3.951	1.00
115_S	118_E	3.758	1.00
5_R	9_R	2.842	1.00
6_K	10_Q	2.677	1.00
237_S	240_T	2.451	1.00
4_A	125_L	2.445	1.00
222_G	225_V	2.330	1.00
238_P	241_Y	2.259	1.00
35_D	38_G	2.163	1.00
3_I	122_G	2.145	1.00
157_R	160_S	2.111	1.00
277_A	281_L	2.086	1.00
234_S	237_S	2.075	1.00
234_S	240_T	2.034	1.00
134_L	137_I	2.032	1.00
170_L	173_L	2.013	1.00
120_L	279_A	2.000	1.00
168_A	171_L	1.931	1.00
71_S	74_L	1.910	1.00
262_W	266_L	1.871	1.00
100_E	123_K	1.837	1.00
7_E	123_K	1.831	1.00
235_Y	240_T	1.825	1.00
261_L	264_S	1.823	1.00
78_P	86_P	1.823	1.00
183_L	278_L	1.812	1.00
158_G	161_L	1.749	1.00
127_Y	178_L	1.743	1.00
67_P	70_F	1.722	1.00
71_S	75_K	1.721	1.00
247_R	251_L	1.718	1.00
267_A	271_F	1.716	1.00
240_T	243_L	1.710	1.00
49_F	52_S	1.703	1.00
235_Y	241_Y	1.700	1.00
47_A	50_D	1.677	1.00
101_R	106_L	1.647	1.00
190_S	193_Q	1.619	1.00
117_L	280_V	1.618	1.00
191_Q	194_A	1.606	1.00
264_S	267_A	1.600	1.00
34_L	37_D	1.583	1.00
160_S	163_L	1.556	1.00
243_L	246_L	1.550	1.00
78_P	82_A	1.540	1.00
109_L	119_I	1.537	1.00
241_Y	244_L	1.534	1.00
248_G	252_G	1.522	1.00
237_S	241_Y	1.494	1.00
64_L	67_P	1.491	1.00
49_F	53_L	1.459	1.00
78_P	81_I	1.441	1.00
243_L	247_R	1.436	1.00
244_L	264_S	1.430	1.00
221_A	224_Q	1.428	1.00
28_D	32_A	1.428	1.00
209_L	212_F	1.427	1.00
160_S	164_L	1.422	1.00
167_L	170_L	1.414	1.00
69_D	72_R	1.391	1.00
29_L	33_V	1.391	1.00
248_G	251_L	1.386	1.00
231_Q	234_S	1.385	1.00
242_F	246_L	1.382	1.00
69_D	73_D	1.378	1.00
268_L	272_A	1.364	1.00
260_D	263_P	1.362	1.00
32_A	35_D	1.354	1.00
240_T	244_L	1.350	1.00
117_L	284_R	1.342	1.00
53_L	57_S	1.316	1.00
215_P	219_M	1.316	1.00
117_L	121_L	1.309	1.00
118_E	122_G	1.308	1.00
99_R	103_R	1.302	1.00
137_I	140_V	1.297	1.00
159_S	163_L	1.297	1.00
264_S	268_L	1.292	1.00
244_L	248_G	1.289	1.00
265_L	269_L	1.288	1.00
169_L	172_L	1.279	1.00
52_S	56_A	1.279	1.00
30_A	34_L	1.277	1.00
28_D	33_V	1.265	1.00
234_S	238_P	1.258	1.00
150_L	153_G	1.257	1.00
145_A	149_L	1.253	1.00
271_F	275_F	1.243	1.00
70_F	74_L	1.233	1.00
221_A	225_V	1.233	1.00
52_S	55_F	1.220	1.00
66_I	71_S	1.212	1.00
28_D	31_L	1.202	1.00
220_P	223_L	1.198	1.00
154_V	157_R	1.192	1.00
51_A	54_A	1.187	1.00
235_Y	238_P	1.184	1.00
266_L	270_A	1.182	1.00
68_E	71_S	1.179	1.00
163_L	167_L	1.174	1.00
124_L	182_L	1.171	1.00
30_A	33_V	1.169	1.00
153_G	157_R	1.159	1.00
272_A	276_L	1.157	1.00
193_Q	197_L	1.155	1.00
31_L	35_D	1.155	1.00
164_L	168_A	1.153	1.00
219_M	223_L	1.146	1.00
134_L	138_L	1.144	1.00
37_D	40_S	1.142	1.00
83_L	86_P	1.140	1.00
48_A	51_A	1.136	1.00
64_L	68_E	1.129	1.00
138_L	142_L	1.129	1.00
70_F	76_V	1.123	1.00
148_L	151_L	1.121	1.00
44_E	47_A	1.119	1.00
151_L	154_V	1.115	1.00
8_L	133_I	1.112	1.00
66_I	72_R	1.107	1.00
36_A	39_S	1.107	1.00
65_D	69_D	1.104	1.00
33_V	36_A	1.103	1.00
206_A	209_L	1.094	1.00
28_D	56_A	1.093	1.00
82_A	86_P	1.089	1.00
108_Q	111_V	1.087	1.00
63_A	66_I	1.082	1.00
138_L	141_G	1.080	1.00
52_S	58_G	1.079	1.00
47_A	52_S	1.070	1.00
79_G	82_A	1.069	1.00
50_D	53_L	1.067	1.00
48_A	52_S	1.066	1.00
47_A	51_A	1.062	1.00
135_A	139_L	1.062	1.00
22_L	25_P	1.056	1.00
263_P	267_A	1.056	1.00
134_L	141_G	1.051	1.00
68_E	72_R	1.048	1.00
233_L	237_S	1.048	1.00
72_R	75_K	1.044	1.00
192_Q	196_Q	1.039	1.00
244_L	247_R	1.037	1.00
4_A	122_G	1.036	1.00
156_L	160_S	1.033	1.00
200_F	204_L	1.027	1.00
124_L	179_A	1.023	1.00
191_Q	195_A	1.022	1.00
66_I	70_F	1.018	1.00
165_L	168_A	1.016	1.00
187_L	282_R	1.016	1.00
29_L	32_A	1.015	1.00
207_I	210_S	1.013	1.00
164_L	171_L	1.010	1.00
239_L	243_L	1.010	1.00
163_L	170_L	1.009	1.00
11_L	130_V	1.000	1.00
153_G	156_L	1.000	1.00
8_L	126_P	1.000	1.00
57_S	60_A	0.999	1.00
216_I	219_M	0.997	1.00
165_L	169_L	0.995	1.00
39_S	42_S	0.992	1.00
267_A	270_A	0.991	1.00
193_Q	196_Q	0.989	1.00
149_L	153_G	0.986	1.00
9_R	13_R	0.984	1.00
104_G	107_E	0.983	1.00
65_D	68_E	0.982	1.00
67_P	71_S	0.982	1.00
54_A	57_S	0.976	1.00
161_L	164_L	0.971	1.00
42_S	45_L	0.969	1.00
272_A	275_F	0.968	1.00
45_L	51_A	0.962	1.00
194_A	197_L	0.962	1.00
248_G	254_A	0.958	1.00
45_L	49_F	0.957	1.00
62_S	66_I	0.955	1.00
66_I	69_D	0.951	1.00
149_L	152_F	0.939	1.00
50_D	54_A	0.936	1.00
209_L	213_L	0.935	1.00
192_Q	195_A	0.934	1.00
32_A	37_D	0.932	1.00
28_D	34_L	0.925	1.00
168_A	172_L	0.924	1.00
201_L	205_P	0.914	1.00
184_I	188_A	0.913	1.00
21_L	24_L	0.910	1.00
268_L	271_F	0.910	1.00
42_S	48_A	0.908	1.00
245_I	248_G	0.905	1.00
46_V	52_S	0.904	1.00
70_F	75_K	0.903	1.00
46_V	49_F	0.901	1.00
46_V	50_D	0.900	1.00
99_R	102_E	0.890	1.00
217_E	220_P	0.890	1.00
234_S	241_Y	0.889	1.00
114_V	119_I	0.889	1.00
210_S	214_F	0.887	1.00
41_L	44_E	0.887	1.00
232_I	235_Y	0.883	1.00
220_P	224_Q	0.881	1.00
100_E	105_T	0.881	1.00
56_A	59_E	0.875	1.00
247_R	250_L	0.872	1.00
219_M	224_Q	0.871	1.00
35_D	39_S	0.866	1.00
45_L	48_A	0.865	1.00
278_L	282_R	0.858	1.00
78_P	88_I	0.857	1.00
54_A	58_G	0.854	1.00
167_L	172_L	0.853	1.00
67_P	72_R	0.853	1.00
8_L	12_L	0.851	1.00
150_L	154_V	0.851	1.00
9_R	12_L	0.851	1.00
80_L	84_L	0.851	1.00
80_L	83_L	0.851	1.00
260_D	264_S	0.846	1.00
15_R	19_I	0.845	1.00
249_I	252_G	0.843	1.00
161_L	165_L	0.842	1.00
49_F	55_F	0.842	1.00
7_E	10_Q	0.842	1.00
159_S	162_L	0.840	1.00
270_A	274_V	0.838	1.00
156_L	159_S	0.831	1.00
95_L	99_R	0.831	1.00
40_S	44_E	0.829	1.00
38_G	41_L	0.825	1.00
32_A	36_A	0.824	1.00
43_R	49_F	0.824	1.00
51_A	57_S	0.822	1.00
180_L	201_L	0.819	1.00
166_L	170_L	0.818	1.00
251_L	254_A	0.816	1.00
19_I	23_L	0.814	1.00
121_L	280_V	0.809	1.00
120_L	280_V	0.808	1.00
154_V	158_G	0.808	1.00
37_D	41_L	0.807	1.00
28_D	36_A	0.801	1.00
31_L	34_L	0.801	1.00
242_F	245_I	0.799	1.00
148_L	152_F	0.796	1.00
53_L	59_E	0.796	1.00
17_T	21_L	0.793	1.00
264_S	271_F	0.783	1.00
64_L	70_F	0.781	1.00
29_L	36_A	0.778	1.00
246_L	249_I	0.778	1.00
79_G	86_P	0.777	1.00
197_L	200_F	0.775	1.00
167_L	171_L	0.773	1.00
29_L	35_D	0.770	1.00
210_S	213_L	0.766	1.00
97_I	185_S	0.761	1.00
122_G	126_P	0.758	1.00
102_E	191_Q	0.758	1.00
219_M	222_G	0.757	1.00
237_S	244_L	0.757	1.00
8_L	129_L	0.756	1.00
30_A	36_A	0.748	1.00
135_A	138_L	0.748	1.00
162_L	165_L	0.746	1.00
31_L	37_D	0.745	1.00
35_D	42_S	0.742	1.00
58_G	62_S	0.735	1.00
166_L	169_L	0.729	1.00
164_L	167_L	0.727	1.00
147_A	151_L	0.726	1.00
245_I	249_I	0.723	1.00
259_A	263_P	0.718	1.00
250_L	253_G	0.715	1.00
248_G	253_G	0.713	1.00
34_L	39_S	0.708	1.00
269_L	273_A	0.708	1.00
90_I	93_T	0.705	1.00
190_S	194_A	0.704	1.00
217_E	221_A	0.703	1.00
48_A	54_A	0.700	1.00
30_A	35_D	0.700	1.00
49_F	54_A	0.699	1.00
73_D	76_V	0.696	1.00
33_V	37_D	0.695	1.00
70_F	73_D	0.691	1.00
28_D	35_D	0.691	1.00
147_A	150_L	0.686	1.00
151_L	155_P	0.682	1.00
55_F	58_G	0.679	1.00
101_R	189_R	0.679	1.00
71_S	76_V	0.677	1.00
160_S	170_L	0.677	1.00
79_G	83_L	0.675	1.00
155_P	158_G	0.671	1.00
218_S	222_G	0.671	1.00
54_A	60_A	0.670	1.00
169_L	173_L	0.669	1.00
82_A	85_L	0.668	1.00
50_D	55_F	0.667	1.00
59_E	62_S	0.666	1.00
276_L	280_V	0.664	1.00
12_L	15_R	0.659	1.00
98_A	101_R	0.655	1.00
110_L	283_F	0.651	1.00
145_A	148_L	0.651	1.00
281_L	285_R	0.650	1.00
254_A	258_L	0.649	1.00
86_P	90_I	0.648	1.00
139_L	143_L	0.643	1.00
30_A	37_D	0.642	1.00
161_L	168_A	0.642	1.00
49_F	56_A	0.642	1.00
205_P	209_L	0.640	1.00
211_G	214_F	0.639	1.00
215_P	218_S	0.639	1.00
246_L	250_L	0.636	1.00
14_D	17_T	0.636	1.00
33_V	39_S	0.636	1.00
48_A	53_L	0.633	1.00
63_A	71_S	0.631	1.00
53_L	56_A	0.628	1.00
163_L	166_L	0.627	1.00
124_L	128_L	0.626	1.00
77_V	80_L	0.625	1.00
207_I	213_L	0.621	1.00
16_R	19_I	0.620	1.00
48_A	55_F	0.617	1.00
183_L	275_F	0.615	1.00
136_L	140_V	0.614	1.00
146_L	149_L	0.613	1.00
72_R	76_V	0.613	1.00
69_D	74_L	0.609	1.00
59_E	63_A	0.609	1.00
274_V	278_L	0.600	1.00
194_A	198_A	0.598	1.00
64_L	71_S	0.597	1.00
168_A	173_L	0.596	1.00
238_P	242_F	0.593	1.00
281_L	284_R	0.593	1.00
233_L	238_P	0.590	1.00
4_A	126_P	0.584	1.00
44_E	48_A	0.584	1.00
58_G	64_L	0.581	1.00
58_G	61_A	0.581	1.00
259_A	262_W	0.580	1.00
218_S	221_A	0.577	1.00
40_S	46_V	0.576	1.00
206_A	212_F	0.574	1.00
46_V	51_A	0.568	1.00
86_P	89_A	0.565	1.00
60_A	63_A	0.565	1.00
179_A	275_F	0.564	1.00
62_S	65_D	0.562	1.00
42_S	46_V	0.562	1.00
84_L	88_I	0.561	1.00
199_L	203_L	0.559	1.00
188_A	197_L	0.555	1.00
249_I	253_G	0.553	1.00
155_P	159_S	0.552	1.00
206_A	210_S	0.549	1.00
263_P	266_L	0.547	1.00
40_S	43_R	0.547	1.00
195_A	198_A	0.546	1.00
68_E	73_D	0.540	1.00
220_P	225_V	0.539	1.00
241_Y	245_I	0.539	1.00
35_D	41_L	0.537	1.00
51_A	58_G	0.535	1.00
38_G	42_S	0.535	1.00
97_I	186_T	0.533	1.00
35_D	40_S	0.533	1.00
241_Y	248_G	0.532	1.00
2_A	5_R	0.532	1.00
15_R	18_L	0.531	1.00
79_G	88_I	0.530	1.00
165_L	172_L	0.529	1.00
211_G	215_P	0.527	1.00
216_I	220_P	0.527	1.00
269_L	272_A	0.525	1.00
262_W	265_L	0.523	1.00
278_L	281_L	0.523	1.00
114_V	118_E	0.523	1.00
37_D	42_S	0.522	1.00
64_L	69_D	0.521	1.00
65_D	72_R	0.520	1.00
280_V	284_R	0.520	1.00
239_L	242_F	0.519	1.00
164_L	169_L	0.518	1.00
241_Y	246_L	0.518	1.00
261_L	268_L	0.518	1.00
266_L	269_L	0.517	1.00
261_L	265_L	0.515	1.00
89_A	92_L	0.515	1.00
89_A	93_T	0.513	1.00
55_F	59_E	0.513	1.00
32_A	38_G	0.512	1.00
159_S	166_L	0.512	1.00
237_S	248_G	0.510	1.00
65_D	71_S	0.510	1.00
265_L	268_L	0.509	1.00
134_L	142_L	0.508	1.00
277_A	280_V	0.507	1.00
232_I	237_S	0.505	1.00
208_L	211_G	0.503	1.00
31_L	36_A	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
1pi7A	1	0.0139	12.8	0.922	Contact Map
2q67A	3	0.3368	6.4	0.932	Contact Map
2m20A	2	0.1111	4.1	0.938	Contact Map
1iijA	1	0.1215	3.9	0.939	Contact Map
3j2wE	1	0.1597	3.7	0.939	Contact Map
2l2tA	2	0.1354	3.6	0.939	Contact Map
2llmA	1	0.1493	3.1	0.942	Contact Map
2jwaA	2	0.1424	3.1	0.942	Contact Map
2wswA	3	0.5521	2.7	0.943	Contact Map
3wajA	1	0.8681	2.5	0.944	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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