Q97VK7 - SULSO - GREMLIN Contacts

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Q97VK7 - Dipeptide ABC transporter permease protein (DppC-3)

UniProt:	Q97VK7	Sequences: MSESSGIRFMLKALIRDKAGLLGLIIVSLFLIWSLIQGILEILSSYLRKQYLGYILLPHNPFQYNLQLAFHPPSSTFLLGTNAEGEDILSRILYALPRDAFVAIVVVFSAIIIGGILGILAGYLGGIVDEILMRVTDAFLSLPALILVIAITVPLKATFFATILGLAVVWWPTYARFYRAQTLRIKNMDYISAAKLSNVSRISLFYRYIFLNAIDPVLAYAALDFGNVILTYSTLAFLGIGITPPIPELGEMAANGVTGLPQYWWWALFPGLTILIIVVGFVLLGDRLQDVVAGRIVY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	298 (261)
Sequences:	28844 (18263)
Seq/√Len:	1130.5

ECOLI - YEJE DPPC SAPC GSID DDPC NIKC OPPC YEJB NIKB DDPB DPPB GSIC OPPB SAPB
BACSU - DPPC APPC OPPC APPB DPPB OPPB
HALSA - Q9HMW2 Q9HMI1 Q9HMW3 Q9HMX1 Q9HMX0 Q9HMI2
SULSO - Q97VK7 Q97YP2 Q97UG3 Q97UH2 Q97YP9 Q97VF6 Q97VF8 Q97UH1 Q97VK6 Q97YQ0 Q97YP1 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
68_L	72_P	2.771	1.00
65_N	68_L	2.723	1.00
182_T	209_I	2.722	1.00
33_W	73_P	2.667	1.00
129_D	179_R	2.614	1.00
195_K	201_R	2.409	1.00
185_I	190_Y	2.408	1.00
199_V	203_S	2.381	1.00
203_S	207_R	2.353	1.00
117_L	132_L	2.327	1.00
185_I	188_M	2.310	1.00
105_V	163_I	2.299	1.00
98_R	237_F	2.289	1.00
200_S	203_S	2.281	1.00
202_I	206_Y	2.273	1.00
109_S	167_A	2.251	1.00
25_I	74_S	2.239	1.00
75_S	78_L	2.115	1.00
62_F	67_Q	2.108	1.00
11_L	15_I	2.099	1.00
189_D	192_S	2.085	1.00
251_E	255_N	2.071	1.00
38_G	61_P	2.066	1.00
191_I	209_I	2.017	1.00
191_I	204_L	2.002	1.00
91_R	252_M	1.957	1.00
119_I	182_T	1.943	1.00
222_A	285_G	1.938	1.00
124_L	201_R	1.872	1.00
120_L	124_L	1.863	1.00
112_I	116_I	1.845	1.00
87_D	90_S	1.819	1.00
124_L	128_V	1.804	1.00
174_Y	224_D	1.801	1.00
123_Y	201_R	1.763	1.00
82_N	86_E	1.755	1.00
34_S	96_L	1.726	1.00
190_Y	212_N	1.721	1.00
26_I	74_S	1.720	1.00
122_G	182_T	1.709	1.00
185_I	213_A	1.708	1.00
127_I	131_I	1.704	1.00
79_L	269_F	1.663	1.00
113_I	171_W	1.616	1.00
84_E	91_R	1.613	1.00
186_K	209_I	1.595	1.00
113_I	116_I	1.583	1.00
89_L	93_L	1.574	1.00
69_A	72_P	1.574	1.00
101_F	105_V	1.563	1.00
110_A	170_W	1.557	1.00
120_L	128_V	1.557	1.00
77_F	87_D	1.551	1.00
88_I	269_F	1.543	1.00
181_Q	184_R	1.529	1.00
163_I	167_A	1.523	1.00
68_L	71_H	1.522	1.00
94_Y	97_P	1.505	1.00
132_L	175_A	1.501	1.00
111_I	221_A	1.500	1.00
136_T	175_A	1.497	1.00
83_A	255_N	1.493	1.00
128_V	132_L	1.493	1.00
256_G	266_W	1.485	1.00
123_Y	205_F	1.461	1.00
86_E	90_S	1.460	1.00
253_A	270_P	1.431	1.00
184_R	188_M	1.422	1.00
107_V	221_A	1.418	1.00
114_G	174_Y	1.418	1.00
71_H	74_S	1.404	1.00
118_G	122_G	1.387	1.00
22_L	26_I	1.386	1.00
193_A	197_S	1.363	1.00
134_R	137_D	1.326	1.00
118_G	178_Y	1.321	1.00
179_R	183_L	1.314	1.00
114_G	178_Y	1.308	1.00
127_I	130_E	1.301	1.00
146_I	150_A	1.280	1.00
117_L	175_A	1.280	1.00
185_I	191_I	1.277	1.00
219_A	289_Q	1.270	1.00
98_R	101_F	1.268	1.00
20_G	287_R	1.261	1.00
17_D	279_V	1.260	1.00
160_F	164_L	1.252	1.00
79_L	89_L	1.251	1.00
122_G	186_K	1.248	1.00
36_I	39_I	1.242	1.00
289_Q	293_A	1.242	1.00
121_A	132_L	1.242	1.00
185_I	209_I	1.239	1.00
119_I	205_F	1.236	1.00
177_F	220_Y	1.229	1.00
167_A	171_W	1.224	1.00
264_W	268_L	1.214	1.00
92_I	273_T	1.206	1.00
151_I	165_G	1.196	1.00
69_A	73_P	1.192	1.00
288_L	291_V	1.184	1.00
218_L	292_V	1.181	1.00
24_L	275_L	1.180	1.00
23_G	280_G	1.162	1.00
102_V	232_Y	1.155	1.00
194_A	208_Y	1.152	1.00
86_E	91_R	1.133	1.00
139_F	172_P	1.124	1.00
194_A	204_L	1.114	1.00
32_I	36_I	1.110	1.00
194_A	199_V	1.105	1.00
23_G	287_R	1.103	1.00
119_I	210_F	1.102	1.00
86_E	94_Y	1.100	1.00
83_A	259_G	1.100	1.00
182_T	213_A	1.099	1.00
178_Y	217_V	1.085	1.00
115_G	178_Y	1.085	1.00
130_E	134_R	1.083	1.00
37_Q	94_Y	1.079	1.00
18_K	21_L	1.078	1.00
178_Y	182_T	1.073	1.00
181_Q	185_I	1.070	1.00
270_P	274_I	1.066	1.00
135_V	139_F	1.062	1.00
24_L	28_S	1.060	1.00
165_G	169_V	1.056	1.00
192_S	195_K	1.048	1.00
15_I	21_L	1.047	1.00
125_G	129_D	1.045	1.00
252_M	266_W	1.039	1.00
116_I	119_I	1.037	1.00
256_G	267_A	1.033	1.00
15_I	19_A	1.031	1.00
158_T	161_A	1.024	1.00
197_S	208_Y	1.012	1.00
27_V	280_G	1.010	1.00
81_T	87_D	1.004	1.00
133_M	175_A	1.002	1.00
142_L	147_L	1.001	1.00
79_L	92_I	1.000	1.00
26_I	30_F	0.996	1.00
203_S	206_Y	0.996	1.00
129_D	183_L	0.995	1.00
171_W	175_A	0.991	1.00
97_P	101_F	0.988	1.00
88_I	266_W	0.987	1.00
287_R	291_V	0.986	1.00
70_F	73_P	0.982	1.00
106_V	167_A	0.979	1.00
90_S	94_Y	0.979	1.00
148_V	165_G	0.978	1.00
66_L	69_A	0.974	1.00
269_F	272_L	0.968	1.00
254_A	258_T	0.968	1.00
195_K	204_L	0.965	1.00
129_D	133_M	0.962	1.00
160_F	163_I	0.961	1.00
95_A	252_M	0.959	1.00
91_R	266_W	0.958	1.00
101_F	159_F	0.957	1.00
88_I	252_M	0.954	1.00
178_Y	213_A	0.950	1.00
215_D	289_Q	0.938	1.00
265_W	269_F	0.936	1.00
101_F	104_I	0.930	1.00
194_A	197_S	0.927	1.00
131_I	135_V	0.924	1.00
280_G	284_L	0.924	1.00
41_E	90_S	0.913	1.00
9_F	13_A	0.911	1.00
199_V	204_L	0.907	1.00
115_G	217_V	0.903	1.00
155_L	161_A	0.903	1.00
106_V	110_A	0.902	1.00
144_A	231_T	0.901	1.00
281_F	285_G	0.900	1.00
19_A	22_L	0.897	1.00
128_V	131_I	0.895	1.00
22_L	25_I	0.889	1.00
218_L	285_G	0.887	1.00
29_L	33_W	0.883	1.00
106_V	166_L	0.872	1.00
201_R	204_L	0.871	1.00
92_I	269_F	0.864	1.00
22_L	74_S	0.863	1.00
125_G	186_K	0.862	1.00
25_I	29_L	0.861	1.00
136_T	172_P	0.855	1.00
164_L	167_A	0.853	1.00
118_G	182_T	0.848	1.00
38_G	41_E	0.847	1.00
77_F	81_T	0.847	1.00
213_A	216_P	0.847	1.00
15_I	18_K	0.846	1.00
17_D	283_L	0.845	1.00
130_E	133_M	0.844	1.00
112_I	115_G	0.842	1.00
70_F	74_S	0.838	1.00
159_F	163_I	0.836	1.00
220_Y	224_D	0.835	1.00
111_I	115_G	0.830	1.00
91_R	94_Y	0.829	1.00
157_A	161_A	0.828	1.00
255_N	258_T	0.823	1.00
23_G	27_V	0.821	1.00
23_G	26_I	0.820	1.00
81_T	85_G	0.819	1.00
93_L	97_P	0.817	1.00
12_K	15_I	0.817	1.00
26_I	280_G	0.816	1.00
166_L	231_T	0.815	1.00
121_A	129_D	0.814	1.00
180_A	183_L	0.809	1.00
96_L	277_I	0.807	1.00
111_I	116_I	0.805	1.00
252_M	270_P	0.805	1.00
201_R	205_F	0.804	1.00
122_G	183_L	0.801	1.00
206_Y	209_I	0.797	1.00
161_A	164_L	0.796	1.00
106_V	228_V	0.791	1.00
90_S	93_L	0.785	1.00
182_T	186_K	0.785	1.00
117_L	171_W	0.784	1.00
37_Q	40_L	0.784	1.00
144_A	148_V	0.779	1.00
111_I	174_Y	0.778	1.00
156_K	161_A	0.776	1.00
43_L	90_S	0.776	1.00
25_I	272_L	0.771	1.00
268_L	272_L	0.766	1.00
192_S	196_L	0.766	1.00
188_M	192_S	0.765	1.00
116_I	120_L	0.761	1.00
105_V	108_F	0.759	1.00
105_V	237_F	0.758	1.00
199_V	208_Y	0.756	1.00
274_I	278_V	0.750	1.00
185_I	212_N	0.750	1.00
33_W	93_L	0.745	1.00
21_L	276_I	0.743	1.00
104_I	108_F	0.737	1.00
255_N	259_G	0.734	1.00
151_I	161_A	0.732	1.00
78_L	89_L	0.731	1.00
254_A	257_V	0.726	1.00
9_F	290_D	0.726	1.00
93_L	96_L	0.724	1.00
269_F	273_T	0.723	1.00
140_L	172_P	0.723	1.00
20_G	24_L	0.721	1.00
41_E	94_Y	0.721	1.00
290_D	296_I	0.710	1.00
65_N	69_A	0.710	1.00
40_L	61_P	0.709	1.00
99_D	103_A	0.705	1.00
202_I	205_F	0.704	1.00
204_L	209_I	0.701	1.00
30_F	33_W	0.701	1.00
62_F	68_L	0.696	1.00
178_Y	181_Q	0.695	1.00
38_G	97_P	0.694	1.00
18_K	22_L	0.692	1.00
181_Q	216_P	0.691	1.00
268_L	271_G	0.691	1.00
109_S	163_I	0.690	1.00
276_I	280_G	0.690	1.00
103_A	225_F	0.684	1.00
125_G	187_N	0.679	1.00
170_W	173_T	0.679	1.00
24_L	284_L	0.676	1.00
114_G	118_G	0.676	1.00
36_I	40_L	0.676	1.00
10_M	287_R	0.673	1.00
42_I	89_L	0.672	1.00
113_I	167_A	0.672	1.00
28_S	32_I	0.671	1.00
222_A	281_F	0.669	1.00
30_F	34_S	0.666	1.00
169_V	172_P	0.666	1.00
14_L	18_K	0.659	1.00
289_Q	296_I	0.658	1.00
42_I	90_S	0.658	1.00
278_V	282_V	0.657	1.00
69_A	74_S	0.651	1.00
125_G	130_E	0.650	1.00
284_L	288_L	0.649	1.00
181_Q	213_A	0.647	1.00
267_A	271_G	0.646	1.00
230_L	233_S	0.645	1.00
92_I	270_P	0.645	1.00
110_A	167_A	0.644	1.00
14_L	283_L	0.643	1.00
30_F	277_I	0.642	1.00
121_A	133_M	0.639	1.00
37_Q	41_E	0.636	1.00
21_L	279_V	0.635	1.00
157_A	160_F	0.633	1.00
162_T	232_Y	0.632	1.00
230_L	234_T	0.631	1.00
133_M	136_T	0.626	1.00
82_N	263_Y	0.625	1.00
100_A	104_I	0.622	1.00
28_S	271_G	0.618	1.00
131_I	134_R	0.617	1.00
43_L	76_T	0.612	1.00
74_S	77_F	0.612	1.00
132_L	136_T	0.612	1.00
21_L	25_I	0.611	1.00
14_L	20_G	0.609	1.00
123_Y	186_K	0.607	1.00
183_L	186_K	0.606	1.00
173_T	224_D	0.606	1.00
78_L	87_D	0.605	1.00
147_L	169_V	0.605	1.00
107_V	224_D	0.604	1.00
123_Y	206_Y	0.603	1.00
113_I	117_L	0.601	1.00
232_Y	236_A	0.599	1.00
231_T	234_T	0.598	1.00
144_A	147_L	0.597	1.00
170_W	224_D	0.596	1.00
174_Y	178_Y	0.596	1.00
19_A	23_G	0.595	1.00
150_A	154_P	0.592	1.00
122_G	129_D	0.591	1.00
74_S	78_L	0.590	1.00
136_T	171_W	0.588	1.00
199_V	202_I	0.587	1.00
124_L	205_F	0.587	1.00
253_A	274_I	0.586	1.00
174_Y	220_Y	0.584	1.00
108_F	112_I	0.581	1.00
228_V	231_T	0.578	1.00
17_D	287_R	0.574	1.00
103_A	228_V	0.569	1.00
96_L	100_A	0.566	1.00
67_Q	71_H	0.566	1.00
233_S	251_E	0.565	1.00
61_P	64_Y	0.561	1.00
26_I	276_I	0.561	1.00
67_Q	73_P	0.560	1.00
139_F	171_W	0.559	1.00
73_P	265_W	0.557	1.00
134_R	138_A	0.553	1.00
161_A	165_G	0.553	1.00
225_F	281_F	0.551	1.00
144_A	168_V	0.551	1.00
233_S	254_A	0.549	1.00
91_R	95_A	0.549	1.00
65_N	73_P	0.549	1.00
114_G	175_A	0.547	1.00
152_T	156_K	0.547	1.00
12_K	16_R	0.547	1.00
111_I	217_V	0.546	1.00
191_I	195_K	0.546	1.00
286_D	289_Q	0.545	1.00
105_V	160_F	0.543	1.00
168_V	171_W	0.543	1.00
43_L	77_F	0.541	1.00
33_W	96_L	0.541	1.00
33_W	264_W	0.541	1.00
252_M	255_N	0.539	1.00
172_P	175_A	0.537	1.00
229_I	233_S	0.537	1.00
133_M	137_D	0.534	1.00
252_M	256_G	0.533	1.00
206_Y	211_L	0.533	1.00
73_P	76_T	0.526	1.00
9_F	296_I	0.526	1.00
173_T	220_Y	0.523	1.00
126_G	129_D	0.521	1.00
164_L	168_V	0.521	1.00
33_W	70_F	0.519	1.00
20_G	23_G	0.517	1.00
233_S	255_N	0.517	1.00
30_F	276_I	0.517	1.00
137_D	140_L	0.516	1.00
25_I	28_S	0.515	1.00
117_L	120_L	0.515	1.00
121_A	179_R	0.514	1.00
61_P	65_N	0.514	1.00
265_W	268_L	0.513	1.00
108_F	111_I	0.512	1.00
167_A	170_W	0.511	1.00
39_I	43_L	0.509	1.00
91_R	255_N	0.506	1.00
219_A	222_A	0.503	1.00
226_G	278_V	0.502	1.00
97_P	100_A	0.500	1.00
126_G	130_E	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	0.849	99.9	0.605	Contact Map
3tuiA	2	0.6779	99.9	0.633	Contact Map
3d31C	2	0.7752	99.8	0.668	Contact Map
3rlfF	1	0.8792	99.8	0.669	Contact Map
2onkC	2	0.7919	99.8	0.67	Contact Map
4tquN	1	0.8792	99.8	0.677	Contact Map
4ymuD	2	0.7013	99.8	0.678	Contact Map
3rlfG	1	0.8557	99.8	0.682	Contact Map
3hd7A	1	0.1242	4.9	0.964	Contact Map
3j9pD	4	0.7416	4.5	0.965	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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