Q9HMI1 - HALSA - GREMLIN Contacts

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Q9HMI1 - Dipeptide ABC transporter permease

UniProt:	Q9HMI1	Sequences: MSTNTDQSTDDGALADRSLLDRLRSSQFLSNLLSNRLAIIGLTIILGMLAVAIIARVSYDLSALRASNLGTVGDRLAPGWAGSGGATQQLFGTDAAGRDIFKRTLYGAWIAIKYGTVTVAASTFLGVALGIIAAYYSDLTDNVIMRTMDVLLAFPSLLLALALVAIFGAGLWKVVIALTLVYTPRFARVVRGAALKVLEDEYIEATEALGATDARVLARHVFPNTLAPVTVQSTLNYGLAIIDFAALSFLGFGAAPGMPSWGLMLSNGVTNGLLTGKWWMSLFPGLFLAILVLGFNLLGDGMRDALDPRMREAVD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	315 (265)
Sequences:	28831 (18704)
Seq/√Len:	1149.0

ECOLI - DPPC GSID OPPC DDPC YEJE SAPC NIKC NIKB DPPB OPPB DDPB GSIC YEJB SAPB
BACSU - DPPC APPC OPPC DPPB OPPB APPB
HALSA - Q9HMI1 Q9HMW2 Q9HMW3 Q9HMI2 Q9HMX0 Q9HMX1
SULSO - Q97VK7 Q97UH2 Q97YP2 Q97VF6 Q97UG3 Q97YP9 Q97VF8 Q97YP1 Q97VK6 Q97UH1 Q97YQ0 Q97UG4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
194_A	221_V	2.819	1.00
84_G	88_Q	2.753	1.00
141_D	191_R	2.685	1.00
207_E	213_D	2.478	1.00
197_V	202_Y	2.461	1.00
215_R	219_R	2.419	1.00
211_A	215_R	2.411	1.00
129_L	144_I	2.408	1.00
110_I	249_F	2.404	1.00
117_V	175_V	2.327	1.00
121_A	179_T	2.321	1.00
197_V	200_D	2.306	1.00
212_T	215_R	2.260	1.00
214_A	218_A	2.230	1.00
263_L	267_N	2.148	1.00
201_E	204_E	2.119	1.00
203_I	221_V	2.098	1.00
29_L	33_L	2.074	1.00
203_I	216_V	2.067	1.00
103_R	264_M	1.998	1.00
131_I	194_A	1.979	1.00
67_S	70_G	1.960	1.00
136_Y	213_D	1.957	1.00
132_I	136_Y	1.945	1.00
234_T	299_G	1.941	1.00
136_Y	140_T	1.889	1.00
99_D	102_K	1.886	1.00
124_F	128_A	1.865	1.00
87_T	90_L	1.833	1.00
186_F	236_N	1.799	1.00
94_D	98_R	1.792	1.00
135_Y	213_D	1.780	1.00
52_A	108_A	1.777	1.00
139_L	143_V	1.760	1.00
202_Y	224_N	1.760	1.00
134_A	194_A	1.734	1.00
197_V	225_T	1.709	1.00
40_I	44_I	1.702	1.00
96_A	103_R	1.682	1.00
91_F	283_F	1.672	1.00
101_F	105_L	1.672	1.00
125_L	183_T	1.646	1.00
125_L	128_A	1.645	1.00
198_L	221_V	1.641	1.00
122_S	182_Y	1.613	1.00
85_G	90_L	1.606	1.00
140_T	144_I	1.604	1.00
132_I	140_T	1.601	1.00
113_K	117_V	1.593	1.00
26_S	30_S	1.585	1.00
100_I	283_F	1.585	1.00
66_A	70_G	1.578	1.00
193_A	196_K	1.575	1.00
175_V	179_T	1.565	1.00
135_Y	217_L	1.546	1.00
144_I	187_A	1.537	1.00
89_Q	99_D	1.532	1.00
148_M	187_A	1.528	1.00
106_Y	109_W	1.518	1.00
95_A	267_N	1.514	1.00
123_T	233_S	1.507	1.00
268_G	280_M	1.500	1.00
119_V	233_S	1.451	1.00
126_G	186_F	1.441	1.00
54_I	57_V	1.431	1.00
62_S	65_R	1.422	1.00
205_A	209_L	1.417	1.00
196_K	200_D	1.414	1.00
98_R	102_K	1.412	1.00
265_L	284_P	1.404	1.00
130_G	134_A	1.398	1.00
80_W	83_S	1.379	1.00
146_R	149_D	1.366	1.00
126_G	190_V	1.365	1.00
231_V	303_R	1.356	1.00
158_L	162_A	1.341	1.00
38_A	301_G	1.336	1.00
129_L	187_A	1.331	1.00
110_I	113_K	1.329	1.00
191_R	195_L	1.324	1.00
139_L	142_N	1.318	1.00
130_G	190_V	1.312	1.00
238_G	292_V	1.307	1.00
197_V	203_I	1.289	1.00
35_N	293_L	1.288	1.00
197_V	221_V	1.283	1.00
134_A	198_L	1.280	1.00
172_W	176_I	1.280	1.00
65_R	68_N	1.271	1.00
131_I	217_L	1.265	1.00
133_A	144_I	1.259	1.00
179_T	183_T	1.252	1.00
302_M	305_A	1.250	1.00
91_F	101_F	1.248	1.00
278_W	282_L	1.243	1.00
189_V	232_Q	1.242	1.00
163_L	177_A	1.237	1.00
303_R	307_D	1.232	1.00
86_A	91_F	1.231	1.00
104_T	287_F	1.226	1.00
230_T	306_L	1.218	1.00
85_G	88_Q	1.213	1.00
41_G	294_G	1.212	1.00
42_L	289_A	1.200	1.00
206_T	220_H	1.185	1.00
206_T	216_V	1.176	1.00
98_R	103_R	1.162	1.00
41_G	301_G	1.161	1.00
114_Y	244_F	1.159	1.00
98_R	106_Y	1.148	1.00
206_T	211_A	1.146	1.00
194_A	225_T	1.144	1.00
137_S	198_L	1.140	1.00
50_A	54_I	1.139	1.00
36_R	39_I	1.129	1.00
190_V	194_A	1.117	1.00
42_L	46_L	1.114	1.00
151_L	184_P	1.113	1.00
177_A	181_V	1.111	1.00
142_N	146_R	1.100	1.00
131_I	222_F	1.095	1.00
33_L	39_I	1.090	1.00
147_T	151_L	1.086	1.00
190_V	229_V	1.081	1.00
127_V	190_V	1.080	1.00
55_A	106_Y	1.077	1.00
193_A	197_V	1.076	1.00
215_R	218_A	1.071	1.00
204_E	207_E	1.065	1.00
33_L	37_L	1.065	1.00
209_L	220_H	1.051	1.00
154_F	159_L	1.051	1.00
284_P	288_L	1.049	1.00
170_G	173_K	1.042	1.00
128_A	131_I	1.040	1.00
91_F	104_T	1.031	1.00
183_T	187_A	1.028	1.00
93_T	99_D	1.023	1.00
100_I	280_M	1.021	1.00
118_T	179_T	1.019	1.00
301_G	305_A	1.018	1.00
100_I	264_M	1.016	1.00
160_A	177_A	1.015	1.00
109_W	113_K	1.013	1.00
145_M	187_A	1.010	1.00
268_G	281_S	1.006	1.00
44_I	48_M	0.994	1.00
264_M	280_M	0.994	1.00
45_I	294_G	0.991	1.00
283_F	286_L	0.990	1.00
207_E	216_V	0.986	1.00
113_K	171_L	0.981	1.00
190_V	225_T	0.976	1.00
206_T	209_L	0.975	1.00
86_A	89_Q	0.975	1.00
141_D	195_L	0.975	1.00
103_R	280_M	0.971	1.00
137_S	199_E	0.965	1.00
266_S	270_T	0.964	1.00
172_W	175_V	0.963	1.00
237_Y	295_F	0.963	1.00
107_G	264_M	0.962	1.00
141_D	145_M	0.957	1.00
294_G	298_L	0.955	1.00
138_D	141_D	0.954	1.00
102_K	106_Y	0.953	1.00
143_V	147_T	0.952	1.00
37_L	40_I	0.950	1.00
85_G	89_Q	0.940	1.00
227_A	303_R	0.935	1.00
118_T	178_L	0.933	1.00
279_W	283_F	0.932	1.00
47_G	51_V	0.931	1.00
140_T	143_V	0.930	1.00
118_T	122_S	0.923	1.00
127_V	229_V	0.917	1.00
113_K	116_T	0.913	1.00
27_Q	31_N	0.910	1.00
61_L	64_L	0.908	1.00
35_N	297_L	0.907	1.00
142_N	145_M	0.905	1.00
211_A	216_V	0.902	1.00
156_S	243_D	0.895	1.00
295_F	299_G	0.888	1.00
40_I	43_T	0.887	1.00
167_F	173_K	0.886	1.00
104_T	283_F	0.878	1.00
230_T	299_G	0.876	1.00
225_T	228_P	0.876	1.00
138_D	142_N	0.871	1.00
148_M	184_P	0.867	1.00
124_F	127_V	0.866	1.00
130_G	194_A	0.866	1.00
43_T	47_G	0.865	1.00
60_D	64_L	0.864	1.00
213_D	216_V	0.863	1.00
59_Y	102_K	0.860	1.00
84_G	87_T	0.853	1.00
41_G	45_I	0.853	1.00
123_T	127_V	0.853	1.00
44_I	294_G	0.850	1.00
176_I	179_T	0.847	1.00
218_A	221_V	0.845	1.00
83_S	86_A	0.844	1.00
41_G	44_I	0.840	1.00
178_L	243_D	0.836	1.00
168_G	173_K	0.832	1.00
192_G	195_L	0.824	1.00
93_T	97_G	0.823	1.00
169_A	173_K	0.822	1.00
171_L	175_V	0.822	1.00
43_T	286_L	0.822	1.00
102_K	105_L	0.821	1.00
173_K	176_I	0.816	1.00
108_A	291_L	0.814	1.00
30_S	33_L	0.812	1.00
267_N	270_T	0.811	1.00
156_S	160_A	0.810	1.00
33_L	36_R	0.807	1.00
134_A	195_L	0.807	1.00
232_Q	236_N	0.807	1.00
103_R	106_Y	0.806	1.00
105_L	109_W	0.805	1.00
211_A	220_H	0.799	1.00
118_T	240_A	0.796	1.00
133_A	141_D	0.795	1.00
123_T	128_A	0.794	1.00
264_M	284_P	0.789	1.00
129_L	183_T	0.786	1.00
204_E	208_A	0.785	1.00
51_V	278_W	0.783	1.00
123_T	186_F	0.780	1.00
197_V	224_N	0.776	1.00
213_D	217_L	0.772	1.00
116_T	120_A	0.761	1.00
194_A	198_L	0.760	1.00
111_A	115_G	0.760	1.00
200_D	204_E	0.759	1.00
117_V	120_A	0.758	1.00
282_L	286_L	0.758	1.00
128_A	132_I	0.757	1.00
60_D	63_A	0.755	1.00
32_L	36_R	0.755	1.00
163_L	173_K	0.753	1.00
90_L	101_F	0.744	1.00
283_F	287_F	0.739	1.00
39_I	290_I	0.739	1.00
238_G	295_F	0.739	1.00
190_V	193_A	0.735	1.00
51_V	105_L	0.734	1.00
193_A	228_P	0.733	1.00
117_V	249_F	0.732	1.00
105_L	108_A	0.729	1.00
266_S	269_V	0.728	1.00
56_R	109_W	0.724	1.00
86_A	90_L	0.724	1.00
59_Y	106_Y	0.723	1.00
38_A	42_L	0.721	1.00
152_L	184_P	0.720	1.00
61_L	88_Q	0.719	1.00
26_S	29_L	0.719	1.00
94_D	277_K	0.719	1.00
121_A	175_V	0.719	1.00
89_Q	93_T	0.718	1.00
126_G	130_G	0.718	1.00
48_M	51_V	0.717	1.00
288_L	292_V	0.715	1.00
66_A	69_L	0.715	1.00
51_V	82_G	0.711	1.00
304_D	310_M	0.709	1.00
48_M	52_A	0.707	1.00
214_A	217_L	0.706	1.00
193_A	225_T	0.703	1.00
290_I	294_G	0.701	1.00
303_R	310_M	0.699	1.00
42_L	298_L	0.698	1.00
125_L	179_T	0.694	1.00
122_S	179_T	0.690	1.00
46_L	50_A	0.685	1.00
28_F	301_G	0.680	1.00
267_N	275_T	0.677	1.00
244_F	248_S	0.676	1.00
27_Q	304_D	0.676	1.00
242_I	245_A	0.670	1.00
282_L	285_G	0.667	1.00
48_M	291_L	0.667	1.00
86_A	286_L	0.667	1.00
298_L	302_M	0.665	1.00
234_T	295_F	0.664	1.00
216_V	221_V	0.663	1.00
182_Y	185_R	0.661	1.00
195_L	198_L	0.658	1.00
292_V	296_N	0.655	1.00
36_R	40_I	0.655	1.00
60_D	102_K	0.653	1.00
281_S	285_G	0.649	1.00
104_T	284_P	0.646	1.00
145_M	148_M	0.644	1.00
137_S	141_D	0.644	1.00
143_V	146_R	0.642	1.00
181_V	184_P	0.640	1.00
46_L	285_G	0.635	1.00
39_I	293_L	0.635	1.00
169_A	172_W	0.629	1.00
67_S	89_Q	0.629	1.00
133_A	145_M	0.626	1.00
32_L	38_A	0.626	1.00
156_S	159_L	0.626	1.00
162_A	166_I	0.620	1.00
90_L	99_D	0.619	1.00
60_D	101_F	0.619	1.00
32_L	297_L	0.612	1.00
125_L	129_L	0.612	1.00
243_D	246_A	0.611	1.00
174_V	244_F	0.610	1.00
61_L	102_K	0.609	1.00
144_I	148_M	0.608	1.00
64_L	69_L	0.608	1.00
65_R	69_L	0.606	1.00
148_M	183_T	0.605	1.00
186_F	232_Q	0.604	1.00
173_K	177_A	0.602	1.00
137_S	195_L	0.599	1.00
119_V	237_Y	0.598	1.00
51_V	108_A	0.598	1.00
135_Y	198_L	0.598	1.00
39_I	43_T	0.597	1.00
211_A	214_A	0.592	1.00
37_L	41_G	0.591	1.00
245_A	263_L	0.591	1.00
135_Y	218_A	0.589	1.00
265_L	288_L	0.589	1.00
186_F	190_V	0.589	1.00
108_A	112_I	0.589	1.00
242_I	246_A	0.588	1.00
136_Y	217_L	0.587	1.00
112_I	116_T	0.586	1.00
126_G	187_A	0.584	1.00
159_L	181_V	0.580	1.00
115_G	240_A	0.580	1.00
231_V	234_T	0.580	1.00
70_G	83_S	0.579	1.00
240_A	243_D	0.576	1.00
119_V	236_N	0.575	1.00
185_R	236_N	0.574	1.00
241_I	245_A	0.573	1.00
55_A	276_G	0.572	1.00
81_A	85_G	0.572	1.00
30_S	34_S	0.568	1.00
264_M	267_N	0.566	1.00
120_A	124_F	0.564	1.00
180_L	183_T	0.564	1.00
44_I	290_I	0.563	1.00
184_P	187_A	0.559	1.00
43_T	46_L	0.558	1.00
48_M	82_G	0.558	1.00
117_V	172_W	0.557	1.00
48_M	290_I	0.557	1.00
156_S	180_L	0.557	1.00
35_N	301_G	0.555	1.00
203_I	207_E	0.553	1.00
245_A	266_S	0.549	1.00
264_M	268_G	0.547	1.00
134_A	141_D	0.546	1.00
146_R	150_V	0.545	1.00
218_A	223_P	0.543	1.00
179_T	182_Y	0.542	1.00
182_Y	236_N	0.540	1.00
151_L	183_T	0.539	1.00
119_V	123_T	0.539	1.00
129_L	132_I	0.533	1.00
27_Q	30_S	0.533	1.00
176_I	180_L	0.533	1.00
44_I	83_S	0.532	1.00
123_T	229_V	0.531	1.00
115_G	237_Y	0.531	1.00
109_W	112_I	0.531	1.00
61_L	89_Q	0.529	1.00
279_W	282_L	0.525	1.00
145_M	149_D	0.525	1.00
164_V	168_G	0.524	1.00
103_R	107_G	0.523	1.00
185_R	232_Q	0.522	1.00
300_D	303_R	0.518	1.00
84_G	89_Q	0.515	1.00
45_I	295_F	0.515	1.00
189_V	193_A	0.514	1.00
38_A	41_G	0.513	1.00
245_A	267_N	0.512	1.00
27_Q	310_M	0.512	1.00
149_D	152_L	0.512	1.00
63_A	106_Y	0.511	1.00
45_I	298_L	0.508	1.00
35_N	38_A	0.506	1.00
160_A	246_A	0.504	1.00
66_A	96_A	0.503	1.00
212_T	216_V	0.501	1.00
154_F	158_L	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
4tquM	1	0.8032	99.9	0.657	Contact Map
3d31C	2	0.7333	99.9	0.661	Contact Map
3tuiA	2	0.6444	99.9	0.668	Contact Map
2onkC	2	0.7524	99.9	0.677	Contact Map
3rlfF	1	0.873	99.8	0.689	Contact Map
4ymuD	2	0.6603	99.8	0.7	Contact Map
4tquN	1	0.8381	99.8	0.712	Contact Map
3rlfG	1	0.819	99.8	0.718	Contact Map
3j9pD	4	0.7365	41.4	0.948	Contact Map
2kogA	1	0.1746	15	0.958	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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