YITT - BACSU - GREMLIN Contacts

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YITT - UPF0750 membrane protein YitT

UniProt:	P39803	Sequences: MVLDQTKKLLIVIIGALLNAAGLNLFLIPADVYASGFTGVAQLLSSVVDQYAPFYISTGTLLFLLNIPVGILGWLKVGKSFTVYSILSVALTTLFMGILPETSLSHDILLNAVFGGVISAVGIGLTLKYGASTGGLDIVAMVLAKWKDKPVGTYFFILNGIIILTAGLLQGWEKALYTLVTLYVTTRVIDAIHTRHMKLTAMIVTKKADEIKEAIYGKMVRGITTVPAKGAFTNEQKEMMIIVITRYELYDLEKIVKEVDPKAFTNIVQTTGIFGFFRKD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	280 (268)
Sequences:	3717 (2696)
Seq/√Len:	164.7

BACSU - YITT YXKD YPJC YDEO YQFU YVJA YITE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
13_I	87_L	5.630	1.00
207_K	210_E	4.997	1.00
227_P	236_Q	3.878	1.00
228_A	239_M	3.733	1.00
213_E	217_G	3.441	1.00
206_K	237_K	3.361	1.00
205_T	211_I	3.152	1.00
17_L	95_F	2.894	1.00
114_F	176_L	2.675	1.00
201_A	252_L	2.664	1.00
37_F	65_L	2.565	1.00
229_K	234_N	2.488	1.00
214_A	255_I	2.364	1.00
229_K	238_E	2.336	1.00
226_V	239_M	2.290	1.00
205_T	208_A	2.283	1.00
214_A	218_K	2.227	1.00
44_L	48_V	2.183	1.00
209_D	213_E	2.178	1.00
199_L	269_Q	2.108	1.00
227_P	238_E	2.074	1.00
223_I	231_A	2.035	1.00
9_L	87_L	1.998	1.00
15_G	122_G	1.925	1.00
13_I	91_L	1.923	1.00
8_K	84_Y	1.917	1.00
20_A	95_F	1.905	1.00
24_N	99_L	1.901	1.00
90_A	94_L	1.886	1.00
221_R	248_E	1.878	1.00
19_N	92_T	1.855	1.00
167_G	175_A	1.842	1.00
21_A	25_L	1.834	1.00
59_G	97_G	1.809	1.00
187_R	191_A	1.809	1.00
22_G	119_S	1.802	1.00
11_I	129_Y	1.787	1.00
126_T	133_T	1.717	1.00
212_K	231_A	1.706	1.00
152_G	190_D	1.704	1.00
44_L	61_L	1.687	1.00
167_G	172_W	1.686	1.00
256_V	263_A	1.659	1.00
30_A	111_N	1.633	1.00
223_I	240_M	1.629	1.00
225_T	240_M	1.629	1.00
215_I	252_L	1.628	1.00
206_K	235_E	1.613	1.00
171_G	174_K	1.604	1.00
107_D	177_Y	1.603	1.00
48_V	55_Y	1.601	1.00
208_A	238_E	1.593	1.00
256_V	265_T	1.551	1.00
206_K	262_K	1.540	1.00
8_K	129_Y	1.538	1.00
124_G	192_I	1.507	1.00
229_K	236_Q	1.499	1.00
71_I	75_L	1.499	1.00
219_M	252_L	1.496	1.00
212_K	234_N	1.494	1.00
109_L	180_V	1.467	1.00
214_A	259_V	1.458	1.00
241_I	266_N	1.430	1.00
200_T	268_V	1.421	1.00
209_D	234_N	1.410	1.00
81_F	132_S	1.394	1.00
202_M	241_I	1.392	1.00
212_K	225_T	1.369	1.00
24_N	100_P	1.368	1.00
157_I	161_I	1.358	1.00
40_V	44_L	1.346	1.00
161_I	165_T	1.337	1.00
15_G	126_T	1.331	1.00
12_V	88_S	1.324	1.00
17_L	99_L	1.322	1.00
21_A	99_L	1.320	1.00
244_I	252_L	1.315	1.00
163_I	182_L	1.298	1.00
67_I	71_I	1.297	1.00
59_G	93_T	1.275	1.00
37_F	69_V	1.274	1.00
27_L	115_G	1.274	1.00
62_L	96_M	1.268	1.00
228_A	237_K	1.264	1.00
31_D	174_K	1.264	1.00
262_K	276_F	1.259	1.00
57_S	97_G	1.259	1.00
120_A	124_G	1.245	1.00
215_I	242_I	1.243	1.00
210_E	259_V	1.238	1.00
156_F	186_T	1.199	1.00
77_V	81_F	1.194	1.00
200_T	266_N	1.181	1.00
140_A	155_F	1.175	1.00
73_G	82_T	1.175	1.00
22_G	122_G	1.169	1.00
83_V	87_L	1.169	1.00
183_Y	187_R	1.164	1.00
16_A	91_L	1.163	1.00
160_G	164_L	1.157	1.00
12_V	131_A	1.152	1.00
74_W	79_K	1.151	1.00
202_M	268_V	1.150	1.00
200_T	270_T	1.149	1.00
203_I	256_V	1.137	1.00
9_L	84_Y	1.134	1.00
22_G	118_I	1.131	1.00
117_V	188_V	1.130	1.00
253_E	272_G	1.126	1.00
225_T	238_E	1.123	1.00
214_A	258_E	1.122	1.00
249_L	267_I	1.120	1.00
216_Y	231_A	1.112	1.00
63_F	93_T	1.110	1.00
70_G	89_V	1.108	1.00
201_A	249_L	1.095	1.00
112_A	116_G	1.093	1.00
108_I	174_K	1.090	1.00
260_D	263_A	1.077	1.00
28_I	58_T	1.072	0.99
59_G	63_F	1.065	0.99
56_I	61_L	1.055	0.99
212_K	223_I	1.051	0.99
110_L	114_F	1.048	0.99
74_W	82_T	1.044	0.99
224_T	228_A	1.040	0.99
9_L	13_I	1.040	0.99
255_I	258_E	1.029	0.99
91_L	95_F	1.028	0.99
87_L	91_L	1.015	0.99
215_I	221_R	1.014	0.99
230_G	233_T	1.012	0.99
40_V	165_T	1.012	0.99
7_K	11_I	1.011	0.99
107_D	173_E	1.010	0.99
6_T	10_L	1.007	0.99
225_T	231_A	1.007	0.99
60_T	97_G	1.004	0.99
10_L	14_I	1.004	0.99
77_V	141_M	0.987	0.99
88_S	131_A	0.974	0.99
33_Y	166_A	0.967	0.99
252_L	256_V	0.953	0.99
42_Q	45_S	0.948	0.99
26_F	114_F	0.946	0.99
266_N	270_T	0.932	0.99
202_M	226_V	0.930	0.99
190_D	246_R	0.929	0.99
199_L	272_G	0.929	0.99
5_Q	8_K	0.926	0.98
33_Y	159_N	0.916	0.98
11_I	125_L	0.913	0.98
200_T	241_I	0.912	0.98
216_Y	223_I	0.907	0.98
143_L	147_K	0.906	0.98
200_T	243_V	0.905	0.98
76_K	146_W	0.904	0.98
202_M	266_N	0.900	0.98
61_L	65_L	0.898	0.98
250_Y	254_K	0.894	0.98
27_L	181_T	0.892	0.98
16_A	88_S	0.891	0.98
108_I	112_A	0.885	0.98
76_K	142_V	0.884	0.98
117_V	183_Y	0.883	0.98
31_D	46_S	0.882	0.98
152_G	186_T	0.880	0.98
112_A	180_V	0.878	0.98
152_G	189_I	0.876	0.98
68_P	71_I	0.870	0.98
121_V	192_I	0.870	0.98
211_I	255_I	0.869	0.98
72_L	76_K	0.865	0.98
38_T	96_M	0.859	0.98
123_I	127_L	0.859	0.98
77_V	132_S	0.842	0.97
216_Y	222_G	0.841	0.97
80_S	84_Y	0.840	0.97
245_T	248_E	0.829	0.97
97_G	100_P	0.828	0.97
226_V	241_I	0.824	0.97
225_T	229_K	0.823	0.97
185_T	189_I	0.823	0.97
201_A	256_V	0.821	0.97
149_K	154_Y	0.821	0.97
43_L	47_V	0.818	0.97
70_G	85_S	0.818	0.97
243_V	266_N	0.807	0.96
155_F	159_N	0.806	0.96
214_A	217_G	0.805	0.96
127_L	141_M	0.805	0.96
132_S	141_M	0.805	0.96
116_G	120_A	0.805	0.96
60_T	64_L	0.804	0.96
123_I	189_I	0.804	0.96
201_A	244_I	0.803	0.96
124_G	128_K	0.800	0.96
33_Y	178_T	0.798	0.96
110_L	176_L	0.795	0.96
16_A	126_T	0.794	0.96
17_L	91_L	0.793	0.96
19_N	122_G	0.793	0.96
255_I	259_V	0.792	0.96
70_G	86_I	0.791	0.96
7_K	129_Y	0.788	0.96
40_V	43_L	0.787	0.96
18_L	121_V	0.785	0.96
64_L	68_P	0.784	0.96
198_K	242_I	0.780	0.96
32_V	112_A	0.775	0.95
213_E	234_N	0.774	0.95
143_L	154_Y	0.768	0.95
254_K	258_E	0.765	0.95
208_A	211_I	0.760	0.95
69_V	139_V	0.753	0.95
212_K	216_Y	0.747	0.94
99_L	102_T	0.747	0.94
63_F	67_I	0.746	0.94
22_G	26_F	0.743	0.94
253_E	274_F	0.742	0.94
133_T	137_D	0.740	0.94
165_T	168_L	0.740	0.94
111_N	173_E	0.739	0.94
187_R	190_D	0.737	0.94
83_V	86_I	0.736	0.94
157_I	160_G	0.735	0.94
40_V	65_L	0.733	0.94
48_V	61_L	0.732	0.94
207_K	259_V	0.731	0.94
16_A	92_T	0.727	0.94
43_L	165_T	0.724	0.94
68_P	72_L	0.721	0.93
150_P	153_T	0.720	0.93
156_F	183_Y	0.719	0.93
139_V	143_L	0.717	0.93
205_T	260_D	0.717	0.93
136_L	158_L	0.716	0.93
150_P	190_D	0.715	0.93
113_V	184_V	0.713	0.93
63_F	90_A	0.713	0.93
70_G	73_G	0.713	0.93
57_S	60_T	0.708	0.93
108_I	111_N	0.708	0.93
95_F	98_I	0.707	0.93
69_V	85_S	0.707	0.93
105_S	173_E	0.707	0.93
23_L	92_T	0.706	0.93
106_H	173_E	0.703	0.93
221_R	245_T	0.702	0.92
218_K	255_I	0.701	0.92
136_L	170_Q	0.700	0.92
19_N	119_S	0.697	0.92
44_L	65_L	0.697	0.92
45_S	58_T	0.696	0.92
25_L	99_L	0.692	0.92
23_L	28_I	0.691	0.92
182_L	186_T	0.691	0.92
113_V	180_V	0.689	0.92
199_L	267_I	0.688	0.92
211_I	259_V	0.686	0.92
207_K	260_D	0.686	0.92
223_I	242_I	0.684	0.91
43_L	170_Q	0.682	0.91
218_K	251_D	0.680	0.91
141_M	151_V	0.679	0.91
230_G	237_K	0.678	0.91
222_G	232_F	0.676	0.91
18_L	118_I	0.676	0.91
224_T	230_G	0.674	0.91
39_G	177_Y	0.670	0.91
11_I	14_I	0.668	0.91
23_L	41_A	0.663	0.90
126_T	131_A	0.660	0.90
41_A	62_L	0.658	0.90
14_I	18_L	0.658	0.90
45_S	55_Y	0.654	0.90
201_A	267_I	0.650	0.89
5_Q	84_Y	0.649	0.89
218_K	258_E	0.648	0.89
134_G	137_D	0.647	0.89
71_I	74_W	0.645	0.89
161_I	164_L	0.644	0.89
142_V	146_W	0.644	0.89
81_F	141_M	0.643	0.89
136_L	159_N	0.643	0.89
125_L	129_Y	0.642	0.89
119_S	185_T	0.642	0.89
153_T	190_D	0.638	0.88
251_D	254_K	0.636	0.88
25_L	29_P	0.636	0.88
197_M	246_R	0.636	0.88
89_V	93_T	0.636	0.88
84_Y	130_G	0.635	0.88
112_A	184_V	0.632	0.88
123_I	133_T	0.630	0.88
254_K	257_K	0.630	0.88
155_F	189_I	0.630	0.88
107_D	112_A	0.625	0.87
221_R	277_F	0.624	0.87
85_S	138_I	0.621	0.87
257_K	274_F	0.620	0.87
73_G	81_F	0.620	0.87
28_I	45_S	0.620	0.87
204_V	241_I	0.619	0.87
159_N	277_F	0.618	0.87
20_A	92_T	0.614	0.86
127_L	137_D	0.611	0.86
164_L	168_L	0.610	0.86
166_A	175_A	0.609	0.86
61_L	64_L	0.609	0.86
114_F	179_L	0.608	0.86
208_A	212_K	0.607	0.86
47_V	68_P	0.606	0.86
116_G	184_V	0.605	0.86
203_I	252_L	0.605	0.86
194_T	271_T	0.604	0.86
38_T	92_T	0.603	0.85
123_I	185_T	0.603	0.85
6_T	9_L	0.601	0.85
205_T	238_E	0.599	0.85
105_S	108_I	0.599	0.85
28_I	42_Q	0.597	0.85
163_I	166_A	0.597	0.85
108_I	177_Y	0.596	0.85
112_A	181_T	0.596	0.85
209_D	238_E	0.594	0.85
243_V	270_T	0.594	0.85
138_I	152_G	0.593	0.85
159_N	178_T	0.589	0.84
45_S	61_L	0.586	0.84
224_T	264_F	0.584	0.84
267_I	272_G	0.583	0.84
94_L	98_I	0.583	0.84
44_L	56_I	0.582	0.83
86_I	89_V	0.581	0.83
34_A	137_D	0.580	0.83
178_T	244_I	0.579	0.83
147_K	154_Y	0.578	0.83
167_G	171_G	0.578	0.83
244_I	249_L	0.575	0.83
199_L	237_K	0.575	0.83
72_L	142_V	0.573	0.82
138_I	189_I	0.571	0.82
72_L	75_L	0.570	0.82
221_R	278_R	0.569	0.82
41_A	241_I	0.569	0.82
88_S	133_T	0.567	0.82
33_Y	42_Q	0.567	0.82
202_M	239_M	0.564	0.81
75_L	93_T	0.564	0.81
84_Y	178_T	0.561	0.81
151_V	190_D	0.558	0.81
153_T	156_F	0.558	0.81
48_V	56_I	0.557	0.81
253_E	257_K	0.554	0.80
171_G	175_A	0.553	0.80
85_S	89_V	0.550	0.80
105_S	111_N	0.550	0.80
273_I	278_R	0.550	0.80
57_S	101_E	0.549	0.80
70_G	107_D	0.549	0.80
264_F	273_I	0.549	0.80
42_Q	241_I	0.548	0.80
175_A	181_T	0.546	0.79
19_N	123_I	0.542	0.79
212_K	238_E	0.538	0.78
32_V	105_S	0.538	0.78
17_L	21_A	0.537	0.78
41_A	65_L	0.537	0.78
210_E	213_E	0.535	0.78
203_I	242_I	0.533	0.78
79_K	82_T	0.532	0.78
42_Q	46_S	0.532	0.78
120_A	189_I	0.531	0.77
202_M	270_T	0.530	0.77
58_T	62_L	0.529	0.77
233_T	262_K	0.528	0.77
121_V	188_V	0.528	0.77
46_S	170_Q	0.525	0.77
30_A	176_L	0.525	0.77
27_L	166_A	0.524	0.77
220_V	276_F	0.523	0.76
170_Q	174_K	0.522	0.76
149_K	153_T	0.522	0.76
41_A	58_T	0.521	0.76
64_L	261_P	0.520	0.76
158_L	162_I	0.519	0.76
144_A	147_K	0.515	0.75
7_K	258_E	0.515	0.75
127_L	151_V	0.514	0.75
110_L	183_Y	0.513	0.75
261_P	269_Q	0.511	0.75
127_L	193_H	0.511	0.75
13_I	95_F	0.509	0.74
113_V	237_K	0.508	0.74
141_M	145_K	0.507	0.74
42_Q	58_T	0.506	0.74
127_L	140_A	0.506	0.74
144_A	148_D	0.506	0.74
221_R	264_F	0.504	0.74
29_P	128_K	0.500	0.73
43_L	162_I	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
3hluA	2	0.2607	99.9	0.695	Contact Map
3ncqA	4	0.3036	82.7	0.941	Contact Map
2eg2A	5	0.2893	82.5	0.941	Contact Map
4affA	3	0.3036	82.4	0.941	Contact Map
3t9zA	3	0.2964	82.2	0.941	Contact Map
4co3A	3	0.3	82	0.941	Contact Map
2j9cA	3	0.3107	81.5	0.942	Contact Map
4r25A	3	0.3107	81.3	0.942	Contact Map
3bzqA	3	0.3036	80.1	0.942	Contact Map
4rwwA	3	0.3	80	0.942	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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