GLTI - ECOLI - GREMLIN Contacts

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GLTI - Glutamate/aspartate periplasmic-binding protein

UniProt:	P37902	Sequences: MQLRKPATAILALALSAGLAQADDAAPAAGSTLDKIAKNGVIVVGHRESSVPFSYYDNQQKVVGYSQDYSNAIVEAVKKKLNKPDLQVKLIPITSQNRIPLLQNGTFDFECGSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFANLKDKAVVVTSGTTSEVLLNKLNEEQKMNMRIISAKDHGDSFRTLESGRAVAFMMDDALLAGERAKAKKPDNWEIVGKPQSQEAYGCMLRKDDPQFKKLMDDTIAQVQTSGEAEKWFDKWFKNPIPPKNLNMNFELSDEMKALFKEPNDKALN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12700
Length:	302 (248)
Sequences:	19234 (14087)
Seq/√Len:	894.5

ECOLI - GLTI FLIY YHDW HISJ ARGT GLNH ARTJ ARTI MLTF EVGS
BACSU - YCKB GLNH TCYA YXEM TCYJ TCYK ARTP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
45_G	107_F	3.800	1.00
41_V	89_K	3.770	1.00
157_V	199_A	3.679	1.00
76_A	255_Q	2.957	1.00
165_E	183_S	2.429	1.00
186_D	189_D	2.418	1.00
101_L	107_F	2.403	1.00
43_V	89_K	2.381	1.00
116_N	235_G	2.374	1.00
128_D	254_A	2.361	1.00
41_V	87_Q	2.268	1.00
184_A	193_T	2.249	1.00
118_V	121_Q	2.243	1.00
263_E	267_D	2.182	1.00
261_E	264_K	2.179	1.00
254_A	258_T	2.154	1.00
165_E	169_N	2.145	1.00
116_N	121_Q	2.094	1.00
72_A	75_E	2.076	1.00
43_V	91_I	2.048	1.00
155_A	182_I	2.020	1.00
124_A	237_M	2.014	1.00
246_K	250_D	2.008	1.00
76_A	252_T	2.002	1.00
103_Q	123_Q	1.999	1.00
125_A	246_K	1.986	1.00
147_D	150_N	1.972	1.00
57_D	63_V	1.955	1.00
238_L	246_K	1.955	1.00
238_L	249_M	1.899	1.00
128_D	250_D	1.870	1.00
44_V	70_S	1.860	1.00
74_V	88_V	1.855	1.00
111_C	236_C	1.823	1.00
146_K	150_N	1.805	1.00
204_M	209_L	1.746	1.00
190_S	202_F	1.734	1.00
155_A	180_R	1.728	1.00
72_A	261_E	1.677	1.00
140_K	143_G	1.677	1.00
138_L	209_L	1.674	1.00
72_A	256_V	1.632	1.00
193_T	198_R	1.615	1.00
72_A	76_A	1.595	1.00
34_D	38_K	1.528	1.00
160_S	185_K	1.526	1.00
243_P	247_K	1.523	1.00
141_K	221_N	1.522	1.00
68_D	268_K	1.519	1.00
239_R	242_D	1.517	1.00
142_G	223_E	1.494	1.00
57_D	61_K	1.483	1.00
101_L	106_T	1.482	1.00
247_K	251_D	1.478	1.00
166_V	170_K	1.465	1.00
140_K	197_G	1.449	1.00
125_A	241_D	1.437	1.00
132_V	233_A	1.412	1.00
248_L	251_D	1.403	1.00
185_K	189_D	1.398	1.00
76_A	259_S	1.377	1.00
99_I	124_A	1.355	1.00
71_N	90_L	1.343	1.00
56_Y	92_P	1.334	1.00
70_S	111_C	1.326	1.00
48_E	92_P	1.320	1.00
55_Y	63_V	1.320	1.00
73_I	252_T	1.317	1.00
93_I	101_L	1.315	1.00
114_T	237_M	1.311	1.00
98_R	110_E	1.294	1.00
169_N	183_S	1.289	1.00
206_D	210_A	1.284	1.00
77_V	86_L	1.282	1.00
152_K	178_N	1.280	1.00
158_V	165_E	1.278	1.00
154_K	200_V	1.278	1.00
193_T	199_A	1.275	1.00
67_Q	71_N	1.269	1.00
40_G	86_L	1.265	1.00
119_E	122_K	1.260	1.00
110_E	114_T	1.254	1.00
155_A	200_V	1.248	1.00
127_S	250_D	1.246	1.00
141_K	223_E	1.239	1.00
137_L	201_A	1.234	1.00
157_V	184_A	1.233	1.00
156_V	201_A	1.231	1.00
105_G	239_R	1.212	1.00
68_D	269_W	1.210	1.00
66_S	130_I	1.209	1.00
61_K	71_N	1.198	1.00
195_E	221_N	1.188	1.00
252_T	255_Q	1.182	1.00
167_L	171_L	1.179	1.00
77_V	252_T	1.172	1.00
34_D	37_A	1.153	1.00
194_L	222_W	1.152	1.00
44_V	109_F	1.152	1.00
255_Q	259_S	1.150	1.00
71_N	75_E	1.146	1.00
136_R	206_D	1.142	1.00
257_Q	262_A	1.141	1.00
248_L	252_T	1.133	1.00
35_K	39_N	1.130	1.00
139_T	225_V	1.124	1.00
135_T	164_S	1.117	1.00
31_S	244_Q	1.109	1.00
192_R	195_E	1.107	1.00
44_V	88_V	1.103	1.00
39_N	43_V	1.092	1.00
100_P	103_Q	1.092	1.00
65_Y	265_W	1.084	1.00
69_Y	256_V	1.083	1.00
136_R	224_I	1.082	1.00
116_N	129_T	1.082	1.00
65_Y	270_F	1.074	1.00
252_T	256_V	1.070	1.00
69_Y	262_A	1.066	1.00
68_D	71_N	1.064	1.00
194_L	202_F	1.059	1.00
251_D	255_Q	1.059	1.00
125_A	240_K	1.058	1.00
93_I	107_F	1.056	1.00
70_S	90_L	1.055	1.00
65_Y	266_F	1.041	1.00
56_Y	60_Q	1.037	1.00
194_L	199_A	1.035	1.00
33_L	36_I	1.035	1.00
15_L	18_G	1.031	1.00
172_N	177_M	1.020	1.00
139_T	201_A	1.019	1.00
94_T	97_N	1.014	1.00
125_A	243_P	1.011	1.00
192_R	196_S	1.008	1.00
261_E	265_W	1.007	1.00
159_T	162_T	1.007	1.00
70_S	88_V	1.005	1.00
172_N	179_M	1.000	1.00
63_V	68_D	0.992	1.00
184_A	190_S	0.985	1.00
256_V	261_E	0.978	1.00
109_F	238_L	0.974	1.00
166_V	169_N	0.968	1.00
267_D	271_K	0.967	1.00
73_I	249_M	0.963	1.00
264_K	267_D	0.961	1.00
18_G	21_Q	0.956	1.00
109_F	249_M	0.953	1.00
157_V	190_S	0.950	1.00
128_D	257_Q	0.940	1.00
117_N	120_R	0.937	1.00
118_V	122_K	0.933	1.00
243_P	246_K	0.932	1.00
264_K	268_K	0.932	1.00
160_S	183_S	0.930	1.00
244_Q	248_L	0.928	1.00
36_I	40_G	0.920	1.00
100_P	104_N	0.917	1.00
188_G	192_R	0.917	1.00
53_F	131_F	0.901	1.00
99_I	114_T	0.900	1.00
126_F	237_M	0.900	1.00
189_D	192_R	0.896	1.00
65_Y	262_A	0.895	1.00
42_I	74_V	0.887	1.00
102_L	110_E	0.886	1.00
262_A	266_F	0.885	1.00
62_V	67_Q	0.884	1.00
139_T	143_G	0.883	1.00
127_S	249_M	0.882	1.00
103_Q	124_A	0.870	1.00
133_V	207_A	0.869	1.00
48_E	62_V	0.864	1.00
95_S	98_R	0.858	1.00
109_F	236_C	0.851	1.00
250_D	253_I	0.848	1.00
76_A	261_E	0.847	1.00
218_K	221_N	0.846	1.00
42_I	109_F	0.845	1.00
255_Q	258_T	0.844	1.00
36_I	86_L	0.844	1.00
70_S	236_C	0.843	1.00
137_L	203_M	0.843	1.00
51_V	55_Y	0.842	1.00
76_A	256_V	0.841	1.00
31_S	34_D	0.838	1.00
127_S	238_L	0.837	1.00
151_L	201_A	0.836	1.00
115_T	232_E	0.834	1.00
33_L	37_A	0.834	1.00
56_Y	62_V	0.830	1.00
149_A	152_K	0.830	1.00
139_T	223_E	0.819	1.00
236_C	249_M	0.816	1.00
144_D	223_E	0.813	1.00
72_A	252_T	0.801	1.00
86_L	248_L	0.798	1.00
120_R	126_F	0.798	1.00
250_D	254_A	0.797	1.00
73_I	111_C	0.797	1.00
22_A	25_A	0.791	1.00
244_Q	247_K	0.790	1.00
187_H	204_M	0.788	1.00
36_I	39_N	0.787	1.00
110_E	237_M	0.785	1.00
42_I	86_L	0.785	1.00
97_N	101_L	0.782	1.00
71_N	88_V	0.778	1.00
70_S	109_F	0.776	1.00
121_Q	240_K	0.772	1.00
172_N	178_N	0.769	1.00
133_V	206_D	0.767	1.00
158_V	183_S	0.762	1.00
167_L	170_K	0.761	1.00
77_V	248_L	0.761	1.00
55_Y	269_W	0.757	1.00
263_E	266_F	0.756	1.00
46_H	90_L	0.755	1.00
37_A	40_G	0.753	1.00
32_T	35_K	0.753	1.00
127_S	236_C	0.750	1.00
256_V	259_S	0.748	1.00
134_G	206_D	0.745	1.00
19_L	22_A	0.744	1.00
182_I	193_T	0.743	1.00
73_I	77_V	0.734	1.00
216_A	219_P	0.732	1.00
69_Y	253_I	0.730	1.00
251_D	254_A	0.727	1.00
14_A	17_A	0.722	1.00
46_H	67_Q	0.722	1.00
266_F	270_F	0.721	1.00
247_K	250_D	0.720	1.00
50_S	113_S	0.718	1.00
30_G	35_K	0.712	1.00
46_H	112_G	0.710	1.00
222_W	225_V	0.705	1.00
191_F	222_W	0.703	1.00
63_V	269_W	0.701	1.00
91_I	106_T	0.699	1.00
72_A	265_W	0.696	1.00
138_L	222_W	0.691	1.00
191_F	195_E	0.690	1.00
256_V	260_G	0.686	1.00
20_A	23_D	0.685	1.00
136_R	209_L	0.680	1.00
46_H	62_V	0.680	1.00
125_A	242_D	0.679	1.00
105_G	241_D	0.677	1.00
12_A	15_L	0.676	1.00
44_V	90_L	0.673	1.00
256_V	262_A	0.673	1.00
128_D	253_I	0.671	1.00
168_L	181_I	0.670	1.00
136_R	226_G	0.669	1.00
189_D	193_T	0.668	1.00
163_T	232_E	0.666	1.00
168_L	203_M	0.666	1.00
157_V	193_T	0.664	1.00
17_A	20_A	0.663	1.00
48_E	54_S	0.661	1.00
47_R	54_S	0.658	1.00
43_V	108_D	0.656	1.00
138_L	213_R	0.654	1.00
132_V	231_Q	0.652	1.00
12_A	16_S	0.651	1.00
184_A	199_A	0.649	1.00
210_A	224_I	0.645	1.00
54_S	112_G	0.644	1.00
126_F	235_G	0.642	1.00
13_L	16_S	0.641	1.00
242_D	245_F	0.641	1.00
18_G	22_A	0.639	1.00
47_R	112_G	0.639	1.00
15_L	19_L	0.635	1.00
106_T	198_R	0.634	1.00
156_V	168_L	0.634	1.00
31_S	35_K	0.633	1.00
91_I	107_F	0.633	1.00
155_A	199_A	0.628	1.00
97_N	100_P	0.627	1.00
254_A	257_Q	0.625	1.00
134_G	230_S	0.624	1.00
45_G	110_E	0.623	1.00
39_N	108_D	0.622	1.00
182_I	199_A	0.622	1.00
47_R	95_S	0.620	1.00
204_M	208_L	0.619	1.00
32_T	239_R	0.619	1.00
45_G	98_R	0.617	1.00
140_K	221_N	0.613	1.00
102_L	239_R	0.613	1.00
145_I	150_N	0.613	1.00
129_T	132_V	0.611	1.00
95_S	114_T	0.602	1.00
116_N	126_F	0.598	1.00
41_V	86_L	0.597	1.00
169_N	181_I	0.597	1.00
73_I	236_C	0.595	1.00
76_A	248_L	0.592	1.00
134_G	228_P	0.592	1.00
219_P	222_W	0.591	1.00
99_I	103_Q	0.591	1.00
127_S	253_I	0.589	1.00
35_K	38_K	0.589	1.00
37_A	248_L	0.586	1.00
115_T	120_R	0.585	1.00
141_K	220_D	0.585	1.00
16_S	19_L	0.583	1.00
159_T	187_H	0.581	1.00
21_Q	24_D	0.580	1.00
103_Q	239_R	0.579	1.00
156_V	179_M	0.577	1.00
152_K	177_M	0.577	1.00
260_G	263_E	0.577	1.00
114_T	124_A	0.572	1.00
68_D	265_W	0.569	1.00
75_E	261_E	0.568	1.00
70_S	74_V	0.568	1.00
160_S	165_E	0.566	1.00
217_K	220_D	0.565	1.00
213_R	222_W	0.565	1.00
135_T	203_M	0.564	1.00
142_G	197_G	0.564	1.00
195_E	219_P	0.564	1.00
66_S	113_S	0.564	1.00
256_V	265_W	0.563	1.00
138_L	191_F	0.562	1.00
98_R	114_T	0.560	1.00
137_L	151_L	0.560	1.00
205_D	234_Y	0.557	1.00
144_D	154_K	0.555	1.00
10_I	14_A	0.553	1.00
67_Q	90_L	0.553	1.00
74_V	85_D	0.552	1.00
98_R	107_F	0.552	1.00
168_L	172_N	0.551	1.00
209_L	213_R	0.550	1.00
30_G	34_D	0.549	1.00
238_L	242_D	0.549	1.00
115_T	205_D	0.547	1.00
10_I	13_L	0.546	1.00
265_W	268_K	0.546	1.00
62_V	92_P	0.544	1.00
52_P	55_Y	0.539	1.00
102_L	107_F	0.536	1.00
47_R	159_T	0.536	1.00
57_D	60_Q	0.535	1.00
206_D	228_P	0.534	1.00
195_E	222_W	0.533	1.00
146_K	223_E	0.531	1.00
213_R	224_I	0.528	1.00
133_V	234_Y	0.528	1.00
74_V	86_L	0.525	1.00
121_Q	125_A	0.524	1.00
77_V	245_F	0.524	1.00
33_L	248_L	0.518	1.00
257_Q	263_E	0.517	1.00
93_I	98_R	0.516	1.00
32_T	36_I	0.512	1.00
167_L	230_S	0.511	1.00
257_Q	260_G	0.510	1.00
14_A	18_G	0.508	1.00
51_V	211_G	0.504	1.00
11_L	15_L	0.504	1.00
134_G	229_Q	0.503	1.00
115_T	163_T	0.502	1.00
121_Q	126_F	0.501	1.00
42_I	77_V	0.501	1.00
236_C	253_I	0.501	1.00
107_F	110_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
2vhaA	2	0.9139	100	0.328	Contact Map
2ylnA	1	0.7815	100	0.354	Contact Map
4ohnA	1	0.8046	100	0.355	Contact Map
4powA	1	0.7483	100	0.356	Contact Map
1pb7A	1	0.8278	100	0.357	Contact Map
4ymxA	1	0.7219	100	0.364	Contact Map
2yjpA	1	0.8146	100	0.364	Contact Map
1xt8A	1	0.8278	100	0.365	Contact Map
3hv1A	2	0.8675	100	0.369	Contact Map
3k4uA	5	0.7616	100	0.373	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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