CHEW - ECOLI - GREMLIN Contacts

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CHEW - Chemotaxis protein CheW

UniProt:	P0A964	Sequences: MTGMTNVTKLASEPSGQEFLVFTLGDEEYGIDILKVQEIRGYDQVTRIANTPAFIKGVTNLRGVIVPIVDLRIKFSQVDVDYNDNTVVIVLNLGQRVVGIVVDGVSDVLSLTAEQIRPAPEFAVTLSTEYLTGLGALGDRMLILVNIEKLLNSEEMALLDSAASEVA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10149
Length:	167 (142)
Sequences:	5383 (3787)
Seq/√Len:	317.8

ECOLI - CHEW
BACSU - CHEW
HALSA - Q9HQW5 Q9HQY8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_E	140_R	3.678	1.00
117_R	136_A	3.142	1.00
18_E	110_S	2.871	1.00
38_E	62_R	2.822	1.00
88_V	99_G	2.794	1.00
111_L	135_G	2.757	1.00
23_T	104_G	2.738	1.00
37_Q	92_N	2.677	1.00
56_K	70_D	2.569	1.00
56_K	73_I	2.416	1.00
112_T	115_Q	2.371	1.00
116_I	133_G	2.368	1.00
35_K	148_E	2.305	1.00
56_K	101_V	2.294	1.00
73_I	79_D	2.066	1.00
60_N	63_G	2.044	1.00
91_L	100_I	2.030	1.00
68_I	88_V	1.948	1.00
132_T	146_N	1.913	1.00
72_R	103_D	1.903	1.00
17_Q	32_D	1.844	1.00
42_Y	45_V	1.839	1.00
82_Y	86_T	1.683	1.00
129_E	149_K	1.664	1.00
64_V	97_V	1.651	1.00
80_V	83_N	1.609	1.00
23_T	106_S	1.588	1.00
53_A	73_I	1.547	1.00
25_G	72_R	1.520	1.00
60_N	65_I	1.514	1.00
15_S	113_A	1.495	1.00
28_E	106_S	1.492	1.00
137_L	140_R	1.462	1.00
19_F	144_L	1.462	1.00
37_Q	97_V	1.412	1.00
32_D	132_T	1.391	1.00
68_I	99_G	1.378	1.00
41_G	87_V	1.372	1.00
42_Y	88_V	1.370	1.00
66_V	90_V	1.366	1.00
32_D	35_K	1.327	1.00
83_N	86_T	1.316	1.00
21_V	28_E	1.311	1.00
131_L	143_I	1.274	1.00
31_I	91_L	1.263	1.00
56_K	82_Y	1.255	1.00
23_T	26_D	1.244	1.00
17_Q	113_A	1.241	1.00
37_Q	64_V	1.236	1.00
14_P	114_E	1.232	1.00
59_T	88_V	1.209	1.00
116_I	144_L	1.190	1.00
71_L	150_L	1.186	1.00
74_K	155_E	1.169	1.00
70_D	73_I	1.160	1.00
45_V	68_I	1.157	1.00
19_F	111_L	1.123	1.00
20_L	39_I	1.097	1.00
22_F	89_I	1.096	1.00
21_V	109_L	1.070	1.00
20_L	89_I	1.050	1.00
42_Y	101_V	1.040	1.00
146_N	149_K	1.031	1.00
70_D	79_D	1.018	1.00
19_F	135_G	1.012	1.00
21_V	107_D	1.011	1.00
135_G	144_L	1.010	1.00
115_Q	137_L	1.009	1.00
59_T	68_I	1.009	1.00
30_G	142_L	1.007	1.00
20_L	87_V	0.989	1.00
21_V	142_L	0.981	1.00
25_G	77_Q	0.978	1.00
86_T	101_V	0.975	1.00
43_D	88_V	0.974	1.00
119_A	131_L	0.969	1.00
35_K	132_T	0.965	1.00
40_R	43_D	0.961	1.00
89_I	102_V	0.949	1.00
16_G	110_S	0.947	1.00
72_R	77_Q	0.941	1.00
61_L	90_V	0.939	1.00
21_V	106_S	0.936	1.00
36_V	89_I	0.931	1.00
30_G	135_G	0.929	1.00
120_P	123_A	0.912	1.00
15_S	112_T	0.911	1.00
16_G	113_A	0.905	1.00
54_F	74_K	0.905	1.00
94_G	148_E	0.902	1.00
18_E	33_I	0.891	1.00
16_G	112_T	0.890	1.00
91_L	147_I	0.881	1.00
31_I	147_I	0.881	1.00
70_D	74_K	0.859	1.00
88_V	101_V	0.854	1.00
23_T	28_E	0.853	1.00
92_N	97_V	0.851	1.00
55_I	69_V	0.847	1.00
71_L	100_I	0.845	1.00
149_K	153_S	0.837	1.00
17_Q	132_T	0.802	1.00
100_I	147_I	0.799	1.00
40_R	64_V	0.788	1.00
22_F	31_I	0.785	1.00
19_F	30_G	0.776	1.00
45_V	59_T	0.773	1.00
40_R	88_V	0.769	0.99
38_E	105_V	0.764	0.99
30_G	144_L	0.764	0.99
134_L	141_M	0.758	0.99
152_N	155_E	0.746	0.99
66_V	97_V	0.742	0.99
137_L	142_L	0.739	0.99
136_A	141_M	0.736	0.99
149_K	152_N	0.734	0.99
45_V	88_V	0.732	0.99
33_I	108_V	0.730	0.99
29_Y	75_F	0.728	0.99
42_Y	87_V	0.727	0.99
70_D	80_V	0.721	0.99
80_V	103_D	0.715	0.99
48_I	58_V	0.715	0.99
86_T	103_D	0.710	0.99
82_Y	101_V	0.707	0.99
51_T	55_I	0.705	0.99
60_N	136_A	0.698	0.99
46_T	65_I	0.697	0.99
24_L	71_L	0.691	0.99
55_I	67_P	0.690	0.99
50_N	53_A	0.690	0.99
145_V	150_L	0.690	0.99
31_I	100_I	0.678	0.99
72_R	78_V	0.678	0.99
133_G	144_L	0.678	0.99
15_S	114_E	0.677	0.99
40_R	105_V	0.675	0.99
129_E	153_S	0.673	0.99
103_D	108_V	0.666	0.99
48_I	51_T	0.661	0.98
151_L	155_E	0.655	0.98
65_I	143_I	0.653	0.98
14_P	26_D	0.649	0.98
21_V	30_G	0.643	0.98
40_R	61_L	0.640	0.98
41_G	141_M	0.640	0.98
35_K	147_I	0.639	0.98
48_I	122_F	0.636	0.98
46_T	49_A	0.634	0.98
51_T	54_F	0.631	0.98
126_L	145_V	0.630	0.98
87_V	104_G	0.630	0.98
143_I	146_N	0.630	0.98
74_K	154_E	0.627	0.98
45_V	90_V	0.627	0.98
15_S	53_A	0.627	0.98
116_I	135_G	0.618	0.98
66_V	99_G	0.615	0.98
35_K	146_N	0.614	0.98
102_V	105_V	0.614	0.98
115_Q	135_G	0.613	0.98
14_P	17_Q	0.607	0.97
56_K	79_D	0.605	0.97
115_Q	138_G	0.603	0.97
65_I	89_I	0.599	0.97
111_L	116_I	0.599	0.97
20_L	36_V	0.590	0.97
23_T	109_L	0.590	0.97
43_D	59_T	0.589	0.97
72_R	79_D	0.580	0.97
52_P	69_V	0.577	0.96
58_V	143_I	0.574	0.96
67_P	86_T	0.574	0.96
14_P	112_T	0.573	0.96
22_F	38_E	0.573	0.96
36_V	117_R	0.571	0.96
39_I	60_N	0.562	0.96
34_L	37_Q	0.559	0.96
26_D	80_V	0.556	0.96
90_V	97_V	0.553	0.95
119_A	123_A	0.551	0.95
80_V	114_E	0.550	0.95
18_E	40_R	0.549	0.95
33_I	39_I	0.549	0.95
20_L	134_L	0.546	0.95
24_L	98_V	0.545	0.95
33_I	40_R	0.544	0.95
139_D	152_N	0.542	0.95
83_N	114_E	0.541	0.95
42_Y	82_Y	0.541	0.95
20_L	41_G	0.540	0.95
29_Y	127_S	0.539	0.95
111_L	137_L	0.537	0.95
125_T	128_T	0.536	0.95
132_T	145_V	0.525	0.94
120_P	141_M	0.525	0.94
74_K	153_S	0.525	0.94
95_Q	125_T	0.525	0.94
128_T	149_K	0.524	0.94
59_T	90_V	0.523	0.94
81_D	86_T	0.522	0.94
22_F	106_S	0.519	0.94
109_L	140_R	0.518	0.94
45_V	56_K	0.518	0.94
40_R	59_T	0.512	0.93
47_R	51_T	0.512	0.93
93_L	145_V	0.510	0.93
70_D	87_V	0.507	0.93
42_Y	86_T	0.507	0.93
28_E	142_L	0.505	0.93
58_V	65_I	0.502	0.93
78_V	81_D	0.500	0.92
44_Q	93_L	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
2ho9A	1	1	100	0.15	Contact Map
2qdlA	1	0.9281	100	0.21	Contact Map
4jpbW	1	0.8383	100	0.236	Contact Map
1b3qA	2	0.8443	99.4	0.576	Contact Map
2dqwA	2	0.3952	3.3	0.941	Contact Map
2xheA	1	0.3174	3.3	0.941	Contact Map
3fdjA	1	0.3713	2.6	0.944	Contact Map
1pm3A	2	0.2515	2.4	0.945	Contact Map
4dmiA	5	0.7784	2.4	0.945	Contact Map
3i4wA	1	0.4551	2.4	0.945	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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