LUTA - BACSU - GREMLIN Contacts

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LUTA - Lactate utilization protein A

UniProt:	O07020	Sequences: MKVSLFVTCLVDMFQTNVGKATVELLERLGCEVDFPEGQICCGQPAYNSGYVHDAKKAMKRMIETFQDSEYVVSPSGSCTTMFREYPHLFQDDPKWADKAKKLADKTYELTDFIVNVLGVEDVGATLHTKATLHTSCHMTRLLGVRKEPMKLLSHVKGLQFTELPGKHNCCGFGGTFSVKMAQISEQMVDEKVECVEETGAEVLIGADCGCLMNIGGRLGRKDKNVKVMHIAEVLNSR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	238 (219)
Sequences:	7551 (4702)
Seq/√Len:	317.7

ECOLI - YKGE GLCF GLPC YDIJ
BACSU - LUTA GLCF FADF
HALSA - Q9HHI4 Q9HNS2 Q9HMZ3 Q9HMR2
SULSO - Q97Z11 Q97W77 Q97VI0 Q97Z15 Q97U61 Q97U89 Q7LX43

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
130_K	160_Q	3.658	1.00
24_E	236_N	3.658	1.00
21_A	233_E	3.637	1.00
130_K	162_T	3.322	1.00
115_V	151_K	3.244	1.00
110_L	232_A	3.154	1.00
51_Y	54_D	2.921	1.00
108_Y	116_N	2.821	1.00
74_S	80_T	2.668	1.00
203_V	229_M	2.520	1.00
41_C	79_C	2.474	1.00
129_T	203_V	2.431	1.00
22_T	75_P	2.327	1.00
22_T	110_L	2.268	1.00
17_N	233_E	2.229	1.00
166_G	195_C	2.167	1.00
135_T	150_M	2.160	1.00
164_L	196_V	2.137	1.00
165_P	198_E	2.115	1.00
189_V	218_R	2.112	1.00
205_I	234_V	2.106	1.00
150_M	163_E	2.063	1.00
11_V	19_G	2.001	1.00
3_V	113_F	1.964	1.00
5_L	75_P	1.896	1.00
9_C	41_C	1.857	1.00
31_C	113_F	1.851	1.00
151_K	154_S	1.828	1.00
84_R	112_D	1.814	1.00
150_M	154_S	1.792	1.00
59_M	86_Y	1.774	1.00
18_V	233_E	1.752	1.00
129_T	202_E	1.739	1.00
42_C	79_C	1.733	1.00
194_E	198_E	1.690	1.00
71_Y	106_K	1.650	1.00
56_K	60_K	1.632	1.00
47_Y	82_M	1.626	1.00
132_T	164_L	1.590	1.00
189_V	214_N	1.575	1.00
9_C	79_C	1.570	1.00
40_I	61_R	1.551	1.00
116_N	148_E	1.543	1.00
131_A	159_L	1.510	1.00
186_E	218_R	1.509	1.00
71_Y	108_Y	1.496	1.00
103_L	107_T	1.489	1.00
108_Y	113_F	1.480	1.00
130_K	202_E	1.479	1.00
108_Y	112_D	1.453	1.00
195_C	198_E	1.452	1.00
23_V	33_V	1.436	1.00
131_A	234_V	1.433	1.00
76_S	208_D	1.430	1.00
60_K	64_E	1.417	1.00
153_L	205_I	1.368	1.00
140_T	146_R	1.365	1.00
182_A	186_E	1.358	1.00
131_A	205_I	1.339	1.00
189_V	193_V	1.314	1.00
64_E	67_Q	1.309	1.00
28_R	236_N	1.297	1.00
80_T	143_L	1.295	1.00
4_S	70_E	1.287	1.00
190_D	194_E	1.263	1.00
128_H	160_Q	1.263	1.00
147_K	151_K	1.248	1.00
61_R	65_T	1.241	1.00
133_L	149_P	1.240	1.00
21_A	236_N	1.227	1.00
74_S	83_F	1.219	1.00
166_G	191_E	1.213	1.00
171_C	211_C	1.204	1.00
112_D	148_E	1.198	1.00
112_D	116_N	1.194	1.00
80_T	107_T	1.188	1.00
132_T	199_T	1.184	1.00
22_T	26_L	1.180	1.00
73_V	113_F	1.178	1.00
71_Y	113_F	1.175	1.00
27_E	33_V	1.174	1.00
62_M	83_F	1.172	1.00
23_V	27_E	1.171	1.00
145_V	148_E	1.168	1.00
44_Q	78_S	1.166	1.00
9_C	42_C	1.164	1.00
31_C	117_V	1.158	1.00
25_L	235_L	1.152	1.00
196_V	204_L	1.140	1.00
20_K	24_E	1.137	1.00
46_A	54_D	1.135	1.00
229_M	233_E	1.126	1.00
4_S	69_S	1.125	1.00
166_G	169_N	1.123	1.00
207_A	231_I	1.122	1.00
8_T	76_S	1.115	1.00
156_V	159_L	1.112	1.00
111_T	231_I	1.109	1.00
112_D	145_V	1.098	1.00
59_M	90_F	1.095	1.00
131_A	203_V	1.093	1.00
34_D	69_S	1.085	1.00
194_E	197_E	1.080	1.00
36_P	39_Q	1.079	1.00
154_S	161_F	1.078	1.00
219_L	228_V	1.075	1.00
72_V	103_L	1.061	1.00
25_L	236_N	1.056	1.00
7_V	39_Q	1.051	1.00
3_V	31_C	1.049	1.00
7_V	35_F	1.020	1.00
193_V	219_L	1.017	1.00
113_F	117_V	1.001	1.00
24_E	28_R	1.000	1.00
229_M	234_V	0.981	1.00
44_Q	48_N	0.978	1.00
114_I	235_L	0.975	1.00
206_G	212_L	0.967	1.00
3_V	73_V	0.957	1.00
55_A	82_M	0.956	1.00
151_K	155_H	0.952	1.00
19_G	23_V	0.950	1.00
167_K	195_C	0.943	1.00
87_P	104_A	0.941	1.00
25_L	110_L	0.941	1.00
132_T	196_V	0.940	1.00
136_S	206_G	0.936	1.00
147_K	150_M	0.934	1.00
116_N	120_V	0.926	1.00
165_P	195_C	0.916	1.00
128_H	158_G	0.914	1.00
58_A	62_M	0.911	1.00
196_V	226_V	0.904	1.00
153_L	159_L	0.904	1.00
204_L	215_I	0.900	1.00
119_G	151_K	0.899	1.00
147_K	168_H	0.892	1.00
90_F	93_D	0.885	1.00
17_N	20_K	0.881	1.00
127_L	159_L	0.880	1.00
49_S	176_T	0.877	1.00
7_V	19_G	0.875	1.00
132_T	201_A	0.871	1.00
187_Q	190_D	0.870	1.00
110_L	114_I	0.867	1.00
183_Q	187_Q	0.867	1.00
63_I	67_Q	0.863	1.00
59_M	89_L	0.858	1.00
182_A	217_G	0.857	1.00
115_V	119_G	0.851	1.00
15_Q	18_V	0.850	1.00
5_L	22_T	0.848	1.00
16_T	20_K	0.844	1.00
5_L	19_G	0.840	1.00
60_K	93_D	0.835	1.00
25_L	232_A	0.835	1.00
115_V	148_E	0.833	1.00
108_Y	117_V	0.832	1.00
62_M	65_T	0.813	1.00
81_T	142_L	0.808	1.00
53_H	56_K	0.807	1.00
48_N	78_S	0.803	1.00
54_D	58_A	0.802	1.00
176_T	180_K	0.802	1.00
130_K	200_G	0.802	1.00
46_A	58_A	0.800	1.00
117_V	120_V	0.800	1.00
23_V	35_F	0.799	1.00
26_L	31_C	0.796	1.00
5_L	11_V	0.795	1.00
47_Y	55_A	0.793	1.00
164_L	167_K	0.782	1.00
139_M	145_V	0.775	1.00
3_V	33_V	0.775	1.00
4_S	66_F	0.771	1.00
117_V	121_E	0.770	1.00
20_K	23_V	0.764	0.99
58_A	61_R	0.760	0.99
78_S	208_D	0.753	0.99
74_S	107_T	0.752	0.99
127_L	203_V	0.750	0.99
15_Q	209_C	0.750	0.99
119_G	155_H	0.750	0.99
190_D	218_R	0.750	0.99
24_E	27_E	0.747	0.99
133_L	161_F	0.743	0.99
197_E	225_N	0.739	0.99
91_Q	105_D	0.735	0.99
18_V	21_A	0.733	0.99
139_M	207_A	0.732	0.99
54_D	57_K	0.728	0.99
204_L	226_V	0.728	0.99
65_T	68_D	0.722	0.99
126_T	158_G	0.721	0.99
205_I	231_I	0.718	0.99
78_S	138_H	0.717	0.99
148_E	151_K	0.716	0.99
173_F	178_S	0.714	0.99
81_T	85_E	0.712	0.99
80_T	84_R	0.712	0.99
129_T	159_L	0.711	0.99
193_V	197_E	0.707	0.99
136_S	139_M	0.707	0.99
183_Q	186_E	0.705	0.99
114_I	118_L	0.703	0.99
11_V	75_P	0.702	0.99
70_E	106_K	0.698	0.99
132_T	204_L	0.694	0.99
27_E	32_E	0.690	0.99
186_E	190_D	0.688	0.99
55_A	59_M	0.686	0.99
135_T	146_R	0.685	0.99
22_T	232_A	0.685	0.99
47_Y	52_V	0.683	0.99
57_K	60_K	0.678	0.99
61_R	64_E	0.676	0.99
163_E	167_K	0.676	0.99
78_S	210_G	0.673	0.99
114_I	152_L	0.669	0.99
29_L	117_V	0.669	0.99
191_E	194_E	0.666	0.99
76_S	79_C	0.657	0.98
85_E	142_L	0.657	0.98
147_K	154_S	0.655	0.98
173_F	210_G	0.653	0.98
39_Q	66_F	0.652	0.98
136_S	208_D	0.650	0.98
215_I	219_L	0.647	0.98
8_T	208_D	0.645	0.98
26_L	110_L	0.643	0.98
57_K	61_R	0.637	0.98
62_M	86_Y	0.634	0.98
4_S	36_P	0.632	0.98
25_L	152_L	0.625	0.98
22_T	73_V	0.625	0.98
196_V	215_I	0.623	0.98
133_L	150_M	0.621	0.98
212_L	228_V	0.616	0.98
17_N	21_A	0.613	0.98
178_S	185_S	0.612	0.97
11_V	18_V	0.611	0.97
123_V	155_H	0.610	0.97
115_V	152_L	0.609	0.97
38_G	69_S	0.609	0.97
135_T	163_E	0.608	0.97
83_F	103_L	0.606	0.97
27_E	31_C	0.606	0.97
233_E	236_N	0.606	0.97
197_E	201_A	0.605	0.97
154_S	158_G	0.604	0.97
15_Q	212_L	0.602	0.97
119_G	122_D	0.601	0.97
78_S	173_F	0.599	0.97
55_A	89_L	0.598	0.97
84_R	143_L	0.592	0.97
193_V	215_I	0.591	0.97
219_L	226_V	0.589	0.97
85_E	88_H	0.589	0.97
71_Y	74_S	0.589	0.97
128_H	159_L	0.586	0.97
153_L	161_F	0.582	0.97
66_F	72_V	0.582	0.97
216_G	227_K	0.580	0.97
177_F	188_M	0.579	0.97
111_T	149_P	0.578	0.96
192_K	195_C	0.578	0.96
137_C	170_C	0.576	0.96
168_H	192_K	0.575	0.96
86_Y	89_L	0.574	0.96
5_L	33_V	0.574	0.96
15_Q	213_M	0.572	0.96
111_T	207_A	0.570	0.96
215_I	228_V	0.570	0.96
106_K	116_N	0.569	0.96
190_D	197_E	0.567	0.96
64_E	68_D	0.566	0.96
204_L	219_L	0.564	0.96
150_M	161_F	0.561	0.96
21_A	25_L	0.560	0.96
124_G	127_L	0.560	0.96
77_G	207_A	0.558	0.96
145_V	149_P	0.556	0.96
88_H	91_Q	0.555	0.96
135_T	140_T	0.553	0.95
126_T	129_T	0.552	0.95
161_F	164_L	0.552	0.95
12_D	19_G	0.551	0.95
48_N	210_G	0.550	0.95
52_V	56_K	0.547	0.95
72_V	83_F	0.546	0.95
132_T	162_T	0.545	0.95
135_T	148_E	0.543	0.95
111_T	115_V	0.543	0.95
179_V	212_L	0.542	0.95
138_H	214_N	0.541	0.95
152_L	235_L	0.540	0.95
137_C	211_C	0.540	0.95
80_T	109_E	0.540	0.95
4_S	72_V	0.539	0.95
6_F	66_F	0.538	0.95
201_A	226_V	0.538	0.95
75_P	110_L	0.538	0.95
126_T	159_L	0.534	0.95
231_I	235_L	0.533	0.95
6_F	83_F	0.533	0.95
132_T	161_F	0.532	0.94
204_L	228_V	0.532	0.94
45_P	79_C	0.531	0.94
203_V	227_K	0.530	0.94
4_S	34_D	0.525	0.94
38_G	65_T	0.523	0.94
125_A	129_T	0.521	0.94
150_M	167_K	0.519	0.94
6_F	42_C	0.519	0.94
3_V	71_Y	0.518	0.94
125_A	128_H	0.516	0.94
133_L	153_L	0.515	0.93
118_L	152_L	0.515	0.93
135_T	167_K	0.514	0.93
177_F	185_S	0.514	0.93
156_V	234_V	0.510	0.93
133_L	207_A	0.508	0.93
77_G	136_S	0.507	0.93
189_V	215_I	0.505	0.93
173_F	214_N	0.504	0.93
135_T	149_P	0.500	0.92
118_L	121_E	0.500	0.92
139_M	206_G	0.500	0.92

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
3kwlA	1	0.9328	100	0.311	Contact Map
3cf4A	2	0.7731	100	0.565	Contact Map
3c8yA	1	0.895	98.4	0.836	Contact Map
2eq5A	2	0.4286	73.4	0.93	Contact Map
2gzmA	3	0.4244	73	0.93	Contact Map
2jfnA	1	0.8529	72	0.931	Contact Map
2jfzA	2	0.4118	70.4	0.931	Contact Map
3qvlA	3	0.8445	63.2	0.935	Contact Map
3outA	5	0.4286	62.4	0.935	Contact Map
1b73A	2	0.4118	56.3	0.937	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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