GLNM - BACSU - GREMLIN Contacts

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GLNM - Probable glutamine ABC transporter permease protein GlnM

UniProt:	O34671	Sequences: MNVSILFDNFSMYMDGFYHTLLASVIALAGSFVLGVAVAVMRITVFKPLQWLGTAYVEFIRNIPLLLITFVFYFGLPNAGLRLDGFQAGTVALTIYTSAFIAEAIRAGIQSVSKGQMEAARSSGFTYSQAMLHIILPQAIKIVIPPLGNQFLNLVKNSSILGVVAGLDLMYQADLVSSSTLVVFDVYIFVALFYLVLTIPLSIGVNYLEKRLEKSY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	216 (204)
Sequences:	17740 (10668)
Seq/√Len:	746.9

ECOLI - GLTJ ARTQ HISQ HISM GLTK ARTM YHDY YHDX GLNP YECS YEHY
BACSU - GLNM TCYM YCKA GLNP ARTQ YXEN TCYL TCYB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
148_G	205_V	3.253	1.00
30_G	94_T	3.243	1.00
182_V	185_D	3.131	1.00
89_G	161_L	2.904	1.00
120_A	130_A	2.886	1.00
173_A	190_V	2.727	1.00
18_Y	22_L	2.679	1.00
126_T	129_Q	2.567	1.00
41_M	53_G	2.547	1.00
38_V	102_A	2.412	1.00
116_Q	138_Q	2.252	1.00
117_M	130_A	2.181	1.00
63_I	68_I	2.130	1.00
128_S	132_L	2.107	1.00
121_R	130_A	2.097	1.00
38_V	98_S	2.078	1.00
203_I	207_Y	2.071	1.00
48_P	52_L	2.056	1.00
171_Y	175_L	1.959	1.00
42_R	54_T	1.955	1.00
117_M	121_R	1.921	1.00
48_P	51_W	1.870	1.00
34_L	98_S	1.863	1.00
177_S	183_V	1.818	1.00
19_H	22_L	1.785	1.00
47_K	51_W	1.780	1.00
24_S	155_V	1.765	1.00
26_I	90_T	1.753	1.00
84_D	87_Q	1.725	1.00
14_M	18_Y	1.711	1.00
39_A	105_I	1.693	1.00
173_A	186_V	1.692	1.00
22_L	86_F	1.691	1.00
111_S	142_I	1.688	1.00
108_G	143_V	1.681	1.00
43_I	110_Q	1.650	1.00
17_F	197_L	1.639	1.00
23_A	161_L	1.613	1.00
207_Y	210_K	1.609	1.00
57_V	102_A	1.607	1.00
126_T	130_A	1.601	1.00
199_I	203_I	1.593	1.00
72_F	92_A	1.592	1.00
195_L	199_I	1.584	1.00
203_I	206_N	1.572	1.00
15_D	18_Y	1.532	1.00
31_S	97_T	1.532	1.00
19_H	166_G	1.487	1.00
28_L	151_F	1.479	1.00
103_E	106_R	1.476	1.00
38_V	53_G	1.465	1.00
127_Y	131_M	1.452	1.00
101_I	147_L	1.448	1.00
129_Q	133_H	1.426	1.00
12_M	15_D	1.392	1.00
36_V	105_I	1.354	1.00
24_S	158_S	1.341	1.00
129_Q	132_L	1.320	1.00
125_F	129_Q	1.299	1.00
204_G	207_Y	1.298	1.00
47_K	50_Q	1.258	1.00
10_F	14_M	1.251	1.00
68_I	96_Y	1.250	1.00
37_A	41_M	1.247	1.00
46_F	51_W	1.241	1.00
69_T	92_A	1.240	1.00
121_R	127_Y	1.230	1.00
172_Q	175_L	1.229	1.00
86_F	90_T	1.229	1.00
105_I	143_V	1.224	1.00
60_I	95_I	1.212	1.00
51_W	55_A	1.212	1.00
26_I	94_T	1.209	1.00
50_Q	54_T	1.208	1.00
101_I	150_Q	1.191	1.00
30_G	90_T	1.172	1.00
12_M	172_Q	1.161	1.00
167_L	171_Y	1.147	1.00
117_M	135_I	1.147	1.00
42_R	103_E	1.136	1.00
63_I	96_Y	1.130	1.00
15_D	19_H	1.122	1.00
46_F	49_L	1.120	1.00
33_V	37_A	1.119	1.00
177_S	187_Y	1.116	1.00
207_Y	211_R	1.113	1.00
22_L	26_I	1.106	1.00
35_G	101_I	1.101	1.00
171_Y	174_D	1.099	1.00
109_I	135_I	1.098	1.00
120_A	134_I	1.093	1.00
106_R	110_Q	1.090	1.00
104_A	150_Q	1.086	1.00
52_L	55_A	1.083	1.00
155_V	197_L	1.081	1.00
58_E	199_I	1.078	1.00
90_T	94_T	1.062	1.00
43_I	109_I	1.061	1.00
68_I	72_F	1.055	1.00
53_G	102_A	1.050	1.00
52_L	56_Y	1.032	1.00
87_Q	90_T	1.028	1.00
72_F	88_A	1.022	1.00
11_S	15_D	1.021	1.00
69_T	161_L	1.016	1.00
127_Y	130_A	1.012	1.00
174_D	177_S	1.010	1.00
41_M	44_T	1.007	1.00
60_I	99_A	1.006	1.00
104_A	146_P	1.005	1.00
85_G	165_A	1.002	1.00
56_Y	98_S	0.993	1.00
131_M	136_L	0.985	1.00
175_L	179_S	0.973	1.00
206_N	210_K	0.970	1.00
176_V	186_V	0.962	1.00
55_A	58_E	0.962	1.00
41_M	49_L	0.956	1.00
86_F	166_G	0.946	1.00
161_L	168_D	0.946	1.00
24_S	151_F	0.941	1.00
58_E	195_L	0.937	1.00
185_D	188_I	0.937	1.00
112_V	139_A	0.935	1.00
28_L	154_L	0.934	1.00
204_G	208_L	0.921	1.00
125_F	133_H	0.914	1.00
46_F	52_L	0.913	1.00
70_F	74_F	0.902	1.00
153_N	157_N	0.899	1.00
45_V	50_Q	0.894	1.00
69_T	160_I	0.891	1.00
206_N	209_E	0.884	1.00
73_Y	164_V	0.883	1.00
17_F	193_F	0.883	1.00
20_T	155_V	0.880	1.00
27_A	94_T	0.873	1.00
87_Q	91_V	0.867	1.00
32_F	147_L	0.867	1.00
155_V	201_L	0.863	1.00
39_A	43_I	0.859	1.00
65_L	157_N	0.859	1.00
56_Y	60_I	0.854	1.00
112_V	142_I	0.850	1.00
65_L	96_Y	0.849	1.00
51_W	54_T	0.844	1.00
26_I	30_G	0.837	1.00
39_A	109_I	0.836	1.00
75_G	79_A	0.832	1.00
115_G	119_A	0.830	1.00
29_A	33_V	0.829	1.00
163_V	167_L	0.829	1.00
159_S	194_Y	0.823	1.00
93_L	158_S	0.819	1.00
27_A	154_L	0.818	1.00
71_V	75_G	0.814	1.00
97_T	150_Q	0.807	1.00
155_V	198_T	0.806	1.00
17_F	169_L	0.806	1.00
16_G	172_Q	0.802	1.00
114_K	118_E	0.801	1.00
73_Y	88_A	0.797	1.00
131_M	135_I	0.797	1.00
44_T	53_G	0.791	1.00
11_S	14_M	0.788	1.00
117_M	127_Y	0.787	1.00
200_P	204_G	0.780	1.00
161_L	166_G	0.780	1.00
188_I	192_L	0.777	1.00
56_Y	99_A	0.773	1.00
179_S	182_V	0.773	1.00
169_L	193_F	0.770	1.00
31_S	101_I	0.768	1.00
44_T	127_Y	0.766	1.00
40_V	131_M	0.766	1.00
25_V	29_A	0.765	1.00
36_V	136_L	0.763	1.00
142_I	146_P	0.760	1.00
196_V	200_P	0.752	1.00
173_A	177_S	0.752	1.00
97_T	157_N	0.750	1.00
85_G	166_G	0.748	1.00
21_L	25_V	0.748	1.00
69_T	164_V	0.747	1.00
54_T	58_E	0.744	1.00
184_F	188_I	0.744	1.00
89_G	164_V	0.740	1.00
71_V	188_I	0.737	1.00
180_T	183_V	0.736	1.00
23_A	166_G	0.733	1.00
27_A	93_L	0.733	1.00
34_L	38_V	0.731	1.00
73_Y	83_L	0.728	1.00
20_T	24_S	0.726	1.00
66_L	163_V	0.722	1.00
167_L	172_Q	0.720	1.00
19_H	168_D	0.719	1.00
34_L	94_T	0.718	1.00
114_K	117_M	0.718	1.00
23_A	89_G	0.714	1.00
170_M	187_Y	0.714	1.00
83_L	87_Q	0.713	1.00
109_I	139_A	0.699	1.00
46_F	50_Q	0.697	1.00
42_R	57_V	0.697	1.00
20_T	194_Y	0.695	1.00
68_I	92_A	0.692	1.00
26_I	86_F	0.684	1.00
162_G	171_Y	0.682	1.00
93_L	154_L	0.682	1.00
101_I	105_I	0.681	1.00
42_R	50_Q	0.675	1.00
38_V	41_M	0.666	1.00
26_I	29_A	0.663	1.00
19_H	86_F	0.662	1.00
159_S	162_G	0.662	1.00
192_L	196_V	0.661	1.00
177_S	186_V	0.653	1.00
105_I	109_I	0.648	1.00
41_M	52_L	0.648	1.00
170_M	194_Y	0.645	1.00
23_A	27_A	0.644	1.00
145_P	209_E	0.643	1.00
187_Y	190_V	0.643	1.00
208_L	212_L	0.636	1.00
97_T	154_L	0.630	1.00
49_L	52_L	0.628	1.00
189_F	193_F	0.628	1.00
108_G	142_I	0.627	1.00
159_S	170_M	0.627	1.00
60_I	68_I	0.625	1.00
97_T	101_I	0.624	1.00
170_M	190_V	0.620	1.00
144_I	212_L	0.614	1.00
115_G	118_E	0.612	1.00
144_I	208_L	0.612	1.00
30_G	33_V	0.611	1.00
94_T	98_S	0.610	1.00
109_I	131_M	0.610	1.00
202_S	206_N	0.608	1.00
16_G	19_H	0.608	1.00
59_F	63_I	0.607	1.00
201_L	205_V	0.605	1.00
36_V	140_I	0.600	1.00
114_K	121_R	0.599	1.00
23_A	158_S	0.597	1.00
112_V	135_I	0.594	1.00
162_G	165_A	0.594	1.00
22_L	87_Q	0.589	1.00
120_A	125_F	0.589	1.00
190_V	193_F	0.588	1.00
42_R	102_A	0.582	1.00
38_V	56_Y	0.579	1.00
108_G	146_P	0.578	1.00
32_F	105_I	0.576	1.00
42_R	45_V	0.576	1.00
141_K	212_L	0.576	1.00
33_V	94_T	0.576	1.00
14_M	17_F	0.574	1.00
146_P	149_N	0.573	1.00
118_E	133_H	0.568	1.00
126_T	133_H	0.568	1.00
66_L	70_F	0.568	1.00
55_A	59_F	0.567	1.00
89_G	166_G	0.566	1.00
73_Y	85_G	0.564	1.00
13_Y	193_F	0.560	1.00
150_Q	153_N	0.556	1.00
200_P	207_Y	0.553	1.00
96_Y	157_N	0.553	1.00
54_T	57_V	0.553	1.00
135_I	138_Q	0.551	1.00
12_M	16_G	0.544	1.00
30_G	34_L	0.544	1.00
13_Y	173_A	0.544	1.00
33_V	36_V	0.542	1.00
93_L	161_L	0.542	1.00
34_L	37_A	0.542	1.00
35_G	39_A	0.541	1.00
18_Y	21_L	0.541	1.00
151_F	201_L	0.540	1.00
152_L	201_L	0.534	1.00
75_G	78_N	0.530	1.00
66_L	160_I	0.530	1.00
28_L	32_F	0.529	1.00
35_G	102_A	0.527	1.00
41_M	46_F	0.526	1.00
152_L	198_T	0.523	1.00
85_G	164_V	0.518	1.00
200_P	203_I	0.515	1.00
32_F	101_I	0.515	1.00
61_R	103_E	0.514	1.00
205_V	208_L	0.513	1.00
15_D	172_Q	0.510	1.00
32_F	151_F	0.510	1.00
14_M	193_F	0.509	1.00
140_I	212_L	0.508	1.00
45_V	127_Y	0.507	1.00
24_S	28_L	0.505	1.00
96_Y	150_Q	0.505	1.00
13_Y	176_V	0.504	1.00
12_M	175_L	0.503	1.00
15_D	22_L	0.503	1.00
130_A	135_I	0.503	1.00
113_S	142_I	0.501	1.00
195_L	198_T	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
4ymuD	2	0.9861	100	0.491	Contact Map
3tuiA	2	0.9676	99.9	0.558	Contact Map
2onkC	2	0.963	99.9	0.59	Contact Map
3rlfF	1	0.9398	99.9	0.592	Contact Map
3d31C	2	0.9444	99.9	0.598	Contact Map
4tquM	1	0.9861	99.9	0.622	Contact Map
3rlfG	1	0.9954	99.8	0.63	Contact Map
4tquN	1	0.9676	99.7	0.669	Contact Map
4ltoA	3	0.4676	7.2	0.956	Contact Map
3mktA	1	0.9167	6.9	0.957	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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