YTNM - BACSU - GREMLIN Contacts

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YTNM - UPF0721 transmembrane protein YtnM

UniProt:	O34430	Sequences: MKKLIVFAFIGLLSQLIDGSLGMAYGVTSTSLLLAFGITPAVASASVHLAEVVTTAASGVSHIKFGNVDKQTVYQLVIPGSIGAFLGAAFLSQLPGDVAKPYISLFLLLLGGYVLIRFLFQYKPALEKKHVPLNRKQSIPLGVIAGFADATGGGGWGPVTTPILLSRKGLSPRKVVGTVDTSEFAIAVSATAGFLISLGWEDVNWLWVFSLMAGGIIAAPIAAWLVQKFHPQLMGVLVGGFIILVNARTLINEWIANTAVHPLIYTAIGAIWLSAVLFVLSKIGNRNIVKTAVDVHLKEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	300 (245)
Sequences:	9677 (6681)
Seq/√Len:	426.8

ECOLI - YFCA
BACSU - YTNM YRKJ YDHB YUNE YJNA
HALSA - O54662
SULSO - Q981D0 Q97WF4 Q97UT0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
16_L	225_L	3.751	1.00
83_G	143_V	3.655	1.00
248_R	252_N	3.198	1.00
90_F	147_F	3.081	1.00
69_D	174_K	2.897	1.00
8_A	214_G	2.738	1.00
232_Q	236_V	2.552	1.00
63_I	70_K	2.530	1.00
233_L	236_V	2.430	1.00
57_A	216_I	2.410	1.00
77_V	185_A	2.373	1.00
112_G	116_I	2.363	1.00
53_V	212_M	2.360	1.00
10_I	32_L	2.360	1.00
141_L	163_I	2.345	1.00
79_P	139_I	2.289	1.00
224_W	228_K	2.122	1.00
73_V	181_T	2.121	1.00
171_S	174_K	2.112	1.00
48_H	190_A	2.097	1.00
104_S	253_E	2.077	1.00
104_S	246_N	1.987	1.00
85_F	193_G	1.983	1.00
57_A	220_P	1.960	1.00
247_A	251_I	1.914	1.00
111_G	246_N	1.888	1.00
69_D	72_T	1.884	1.00
42_V	45_A	1.880	1.00
12_L	217_I	1.822	1.00
71_Q	74_Y	1.795	1.00
49_L	208_V	1.789	1.00
111_G	243_I	1.783	1.00
72_T	170_L	1.782	1.00
46_S	208_V	1.782	1.00
230_H	233_L	1.768	1.00
14_S	28_T	1.723	1.00
61_S	223_A	1.721	1.00
108_L	246_N	1.688	1.00
62_H	67_N	1.655	1.00
115_L	239_G	1.651	1.00
105_L	109_L	1.641	1.00
12_L	218_A	1.641	1.00
11_G	211_L	1.630	1.00
145_A	159_V	1.608	1.00
71_Q	75_Q	1.599	1.00
74_Y	77_V	1.585	1.00
16_L	221_I	1.582	1.00
33_L	211_L	1.572	1.00
89_A	93_Q	1.563	1.00
81_S	189_S	1.546	1.00
236_V	240_G	1.525	1.00
74_Y	78_I	1.511	1.00
243_I	247_A	1.508	1.00
143_V	147_F	1.490	1.00
204_N	207_W	1.480	1.00
104_S	250_L	1.453	1.00
86_L	143_V	1.446	1.00
62_H	226_V	1.409	1.00
56_A	184_F	1.406	1.00
111_G	239_G	1.401	1.00
52_V	188_V	1.399	1.00
73_V	178_T	1.398	1.00
220_P	224_W	1.394	1.00
209_F	213_A	1.387	1.00
98_V	102_Y	1.376	1.00
206_L	210_S	1.376	1.00
9_F	13_L	1.372	1.00
70_K	74_Y	1.371	1.00
58_S	180_D	1.368	1.00
65_F	227_Q	1.363	1.00
39_T	42_V	1.360	1.00
213_A	217_I	1.346	1.00
160_T	182_S	1.345	1.00
8_A	210_S	1.342	1.00
195_L	205_W	1.330	1.00
85_F	89_A	1.320	1.00
83_G	87_G	1.317	1.00
42_V	204_N	1.316	1.00
59_G	181_T	1.312	1.00
4_L	210_S	1.303	1.00
60_V	64_K	1.302	1.00
80_G	186_I	1.300	1.00
5_I	9_F	1.297	1.00
67_N	177_G	1.296	1.00
192_A	196_I	1.295	1.00
84_A	190_A	1.278	1.00
136_K	140_P	1.259	1.00
161_T	175_V	1.254	1.00
67_N	227_Q	1.229	1.00
119_L	122_Y	1.226	1.00
59_G	63_I	1.225	1.00
11_G	214_G	1.203	1.00
240_G	244_L	1.203	1.00
106_F	152_G	1.190	1.00
56_A	60_V	1.181	1.00
58_S	219_A	1.179	1.00
116_I	119_L	1.176	1.00
34_L	40_P	1.166	1.00
193_G	197_S	1.157	1.00
136_K	139_I	1.145	1.00
21_L	237_L	1.128	1.00
88_A	190_A	1.125	1.00
218_A	221_I	1.113	1.00
38_I	207_W	1.109	1.00
54_T	215_G	1.106	1.00
70_K	73_V	1.098	1.00
76_L	182_S	1.080	1.00
62_H	223_A	1.077	1.00
79_P	142_G	1.069	1.00
134_N	137_Q	1.069	1.00
88_A	193_G	1.063	1.00
114_V	238_V	1.041	1.00
45_A	203_V	1.041	1.00
233_L	237_L	1.041	1.00
173_R	226_V	1.039	1.00
94_L	151_T	1.039	1.00
83_G	147_F	1.027	1.00
96_G	100_K	1.022	1.00
44_S	194_F	1.020	1.00
79_P	83_G	1.014	1.00
59_G	184_F	1.012	1.00
98_V	101_P	1.012	1.00
218_A	222_A	1.011	1.00
29_S	211_L	1.006	1.00
165_L	175_V	1.004	1.00
156_W	160_T	0.999	1.00
78_I	82_I	0.997	1.00
6_V	9_F	0.994	1.00
199_G	206_L	0.989	1.00
86_L	89_A	0.984	1.00
101_P	105_L	0.975	1.00
57_A	219_A	0.973	1.00
104_S	108_L	0.970	1.00
214_G	218_A	0.964	1.00
59_G	70_K	0.963	1.00
124_P	127_E	0.961	1.00
63_I	68_V	0.959	1.00
209_F	212_M	0.958	1.00
80_G	182_S	0.955	1.00
8_A	213_A	0.954	1.00
244_L	248_R	0.952	1.00
246_N	250_L	0.949	1.00
61_S	220_P	0.948	1.00
138_S	168_K	0.947	1.00
172_P	176_V	0.944	1.00
97_D	101_P	0.943	1.00
62_H	177_G	0.942	1.00
61_S	65_F	0.941	1.00
109_L	113_Y	0.936	1.00
248_R	251_I	0.935	1.00
108_L	243_I	0.933	1.00
7_F	210_S	0.927	1.00
140_P	144_I	0.923	1.00
142_G	160_T	0.915	1.00
76_L	164_L	0.909	1.00
165_L	172_P	0.909	1.00
156_W	162_P	0.908	1.00
224_W	227_Q	0.904	1.00
89_A	92_S	0.904	1.00
12_L	214_G	0.904	1.00
161_T	179_V	0.903	1.00
52_V	191_T	0.900	1.00
68_V	178_T	0.899	1.00
226_V	234_M	0.897	1.00
194_F	199_G	0.895	1.00
7_F	207_W	0.894	1.00
219_A	223_A	0.893	1.00
37_G	43_A	0.891	1.00
154_G	158_P	0.881	1.00
117_R	120_F	0.877	1.00
47_V	51_E	0.875	1.00
30_T	47_V	0.868	1.00
61_S	224_W	0.867	1.00
65_F	224_W	0.866	1.00
244_L	247_A	0.864	1.00
87_G	147_F	0.863	1.00
91_L	194_F	0.863	1.00
183_E	186_I	0.857	1.00
14_S	29_S	0.856	1.00
86_L	147_F	0.848	1.00
119_L	123_K	0.844	1.00
112_G	243_I	0.835	1.00
90_F	93_Q	0.833	1.00
12_L	221_I	0.833	1.00
217_I	220_P	0.832	1.00
108_L	112_G	0.826	1.00
117_R	235_G	0.820	1.00
8_A	12_L	0.817	1.00
149_D	186_I	0.810	1.00
92_S	197_S	0.809	1.00
46_S	203_V	0.809	1.00
57_A	61_S	0.801	1.00
161_T	176_V	0.796	1.00
101_P	253_E	0.795	1.00
88_A	189_S	0.794	1.00
16_L	218_A	0.794	1.00
7_F	211_L	0.791	1.00
19_G	58_S	0.778	1.00
84_A	88_A	0.778	1.00
49_L	191_T	0.777	1.00
53_V	216_I	0.775	1.00
97_D	100_K	0.773	1.00
42_V	46_S	0.772	1.00
86_L	90_F	0.772	1.00
34_L	43_A	0.770	1.00
206_L	209_F	0.769	1.00
89_A	197_S	0.768	1.00
88_A	194_F	0.767	1.00
45_A	191_T	0.765	1.00
75_Q	135_R	0.762	1.00
55_T	183_E	0.750	1.00
79_P	82_I	0.749	1.00
137_Q	140_P	0.748	1.00
110_L	158_P	0.747	1.00
26_G	150_A	0.746	1.00
229_F	233_L	0.745	1.00
63_I	66_G	0.740	1.00
6_V	10_I	0.739	1.00
82_I	86_L	0.738	1.00
210_S	214_G	0.726	1.00
29_S	33_L	0.725	1.00
60_V	63_I	0.723	1.00
19_G	223_A	0.723	1.00
73_V	182_S	0.722	1.00
238_V	242_I	0.721	1.00
68_V	73_V	0.720	1.00
61_S	64_K	0.720	1.00
95_P	98_V	0.719	1.00
20_S	222_A	0.717	1.00
70_K	181_T	0.716	1.00
123_K	127_E	0.715	1.00
163_I	167_R	0.714	1.00
145_A	156_W	0.710	1.00
12_L	16_L	0.708	1.00
71_Q	135_R	0.707	1.00
159_V	162_P	0.707	1.00
18_D	26_G	0.703	1.00
175_V	179_V	0.701	1.00
169_G	175_V	0.699	1.00
11_G	29_S	0.698	1.00
15_Q	25_Y	0.697	1.00
50_A	215_G	0.696	1.00
131_V	134_N	0.692	1.00
75_Q	78_I	0.691	1.00
221_I	224_W	0.688	1.00
51_E	55_T	0.686	1.00
195_L	203_V	0.685	1.00
216_I	220_P	0.685	1.00
80_G	160_T	0.684	1.00
181_T	185_A	0.679	1.00
188_V	192_A	0.678	1.00
191_T	208_V	0.671	1.00
56_A	59_G	0.669	1.00
149_D	156_W	0.666	1.00
17_I	28_T	0.664	1.00
27_V	107_L	0.664	1.00
100_K	252_N	0.660	0.99
55_T	153_G	0.648	0.99
139_I	142_G	0.646	0.99
26_G	51_E	0.645	0.99
121_Q	124_P	0.644	0.99
156_W	183_E	0.644	0.99
20_S	229_F	0.644	0.99
20_S	234_M	0.643	0.99
44_S	91_L	0.641	0.99
51_E	156_W	0.641	0.99
132_P	136_K	0.640	0.99
46_S	204_N	0.638	0.99
51_E	149_D	0.637	0.99
203_V	208_V	0.637	0.99
111_G	242_I	0.637	0.99
69_D	74_Y	0.636	0.99
132_P	135_R	0.635	0.99
101_P	104_S	0.634	0.99
113_Y	117_R	0.627	0.99
108_L	250_L	0.624	0.99
14_S	32_L	0.620	0.99
145_A	160_T	0.617	0.99
38_I	42_V	0.616	0.99
94_L	98_V	0.616	0.99
102_Y	152_G	0.613	0.99
160_T	164_L	0.612	0.99
90_F	94_L	0.612	0.99
142_G	146_G	0.610	0.99
205_W	208_V	0.610	0.99
18_D	149_D	0.609	0.99
7_F	36_F	0.609	0.99
20_S	225_L	0.608	0.99
11_G	15_Q	0.602	0.99
49_L	205_W	0.602	0.99
164_L	182_S	0.601	0.99
221_I	225_L	0.600	0.99
44_S	99_A	0.598	0.99
55_T	184_F	0.598	0.99
51_E	187_A	0.594	0.99
170_L	174_K	0.594	0.99
21_L	219_A	0.592	0.99
89_A	193_G	0.588	0.99
40_P	99_A	0.587	0.99
41_A	44_S	0.587	0.99
140_P	143_V	0.585	0.99
18_D	54_T	0.583	0.99
76_L	142_G	0.580	0.99
137_Q	163_I	0.578	0.99
190_A	193_G	0.578	0.99
50_A	211_L	0.576	0.99
174_K	177_G	0.575	0.99
205_W	209_F	0.573	0.99
41_A	99_A	0.571	0.99
18_D	28_T	0.570	0.99
82_I	143_V	0.570	0.99
208_V	212_M	0.570	0.99
15_Q	215_G	0.570	0.99
12_L	15_Q	0.570	0.99
108_L	247_A	0.569	0.98
236_V	239_G	0.569	0.98
18_D	183_E	0.568	0.98
38_I	43_A	0.566	0.98
172_P	238_V	0.562	0.98
111_G	115_L	0.557	0.98
163_I	168_K	0.554	0.98
156_W	179_V	0.553	0.98
232_Q	235_G	0.550	0.98
75_Q	139_I	0.550	0.98
42_V	199_G	0.548	0.98
8_A	217_I	0.547	0.98
239_G	243_I	0.546	0.98
29_S	51_E	0.546	0.98
8_A	11_G	0.545	0.98
104_S	249_T	0.545	0.98
149_D	154_G	0.544	0.98
153_G	179_V	0.543	0.98
41_A	45_A	0.538	0.98
69_D	178_T	0.538	0.98
36_F	43_A	0.537	0.98
67_N	174_K	0.533	0.98
230_H	234_M	0.532	0.98
44_S	48_H	0.529	0.98
40_P	96_G	0.528	0.98
85_F	196_I	0.528	0.98
21_L	241_F	0.526	0.97
96_G	151_T	0.526	0.97
157_G	219_A	0.520	0.97
29_S	50_A	0.520	0.97
38_I	204_N	0.519	0.97
77_V	80_G	0.517	0.97
225_L	228_K	0.516	0.97
48_H	153_G	0.516	0.97
33_L	43_A	0.515	0.97
130_H	134_N	0.515	0.97
194_F	198_L	0.513	0.97
55_T	187_A	0.512	0.97
173_R	231_P	0.511	0.97
199_G	204_N	0.510	0.97
18_D	55_T	0.509	0.97
40_P	100_K	0.509	0.97
109_L	112_G	0.508	0.97
160_T	183_E	0.508	0.97
48_H	51_E	0.507	0.97
18_D	23_M	0.507	0.97
88_A	145_A	0.507	0.97
51_E	238_V	0.506	0.97
49_L	212_M	0.505	0.97
84_A	189_S	0.504	0.97
4_L	8_A	0.504	0.97
157_G	179_V	0.503	0.97
41_A	91_L	0.503	0.97
44_S	88_A	0.500	0.97

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
2gfpA	2	0.8467	60.6	0.934	Contact Map
4j05A	3	0.85	60.2	0.934	Contact Map
3llqA	3	0.6367	47.2	0.939	Contact Map
1pw4A	1	0.8467	45	0.94	Contact Map
2f2bA	4	0.6267	41.6	0.941	Contact Map
4rp9A	2	0.41	34.1	0.944	Contact Map
4eneA	2	0.8567	32.4	0.944	Contact Map
4m64A	1	0.8733	32.2	0.944	Contact Map
4pypA	1	0.8533	31.8	0.945	Contact Map
3wdoA	1	0.9533	23	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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