FLGD - ECOLI - GREMLIN Contacts

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FLGD - Basal-body rod modification protein FlgD

UniProt:	P75936	Sequences: MSIAVTTTDPTNTGVSTTSSSSLTGSNAADLQSSFLTLLVAQLKNQDPTNPMENNELTSQLAQISTVSGIEKLNTTLGSISGQIDNSQSLQASNLIGHGVMIPGTTVLAGTGSEEGAVTTTTPFGVELQQAADKVTATITDKNGAVVRTIDIGELTAGVHSFTWDGTLTDGSTAPNGSYNVAISASNGGTQLVAQPLQFALVQGVIRGNSGNTLDLGTYGTTTLDEVRQII	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14268
Length:	231 (209)
Sequences:	1448 (1140)
Seq/√Len:	78.8

ECOLI - FLGD
BACSU - YLXG

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
168_L	172_S	5.509	1.00
141_D	145_A	5.404	1.00
132_A	135_V	4.410	1.00
168_L	174_A	4.291	1.00
140_T	182_A	3.834	1.00
53_E	56_E	3.805	1.00
100_V	202_V	3.445	1.00
47_D	50_N	3.244	1.00
140_T	146_V	3.173	1.00
148_R	169_T	2.808	1.00
70_I	73_L	2.650	1.00
138_T	146_V	2.579	1.00
223_T	226_E	2.523	1.00
167_T	173_T	2.461	1.00
49_T	57_L	2.349	1.00
30_D	34_S	2.287	1.00
216_L	219_Y	2.268	1.00
124_F	162_F	2.228	1.00
31_L	34_S	2.198	1.00
73_L	77_L	2.046	1.00
138_T	182_A	2.043	1.00
214_L	227_V	1.936	1.00
66_T	70_I	1.924	1.00
128_L	132_A	1.920	1.00
59_S	63_Q	1.848	1.00
36_L	40_V	1.809	1.00
138_T	184_S	1.806	1.00
147_V	174_A	1.788	1.00
132_A	185_A	1.786	1.00
93_S	230_I	1.773	1.00
200_A	216_L	1.735	1.00
32_Q	68_S	1.731	1.00
137_A	183_I	1.655	1.00
187_N	190_T	1.634	1.00
109_A	174_A	1.604	1.00
33_S	37_T	1.569	1.00
137_A	181_V	1.559	0.99
127_E	228_R	1.555	0.99
107_V	122_T	1.549	0.99
109_A	166_G	1.541	0.99
204_G	215_D	1.537	0.99
59_S	62_A	1.512	0.99
133_D	187_N	1.487	0.99
166_G	171_G	1.473	0.99
164_W	171_G	1.458	0.99
208_G	211_G	1.448	0.99
155_L	160_H	1.441	0.99
139_I	181_V	1.439	0.99
14_G	17_T	1.431	0.99
62_A	67_V	1.417	0.99
69_G	74_N	1.415	0.99
56_E	59_S	1.384	0.99
131_A	154_E	1.382	0.99
65_S	68_S	1.355	0.99
81_S	84_I	1.332	0.98
50_N	54_N	1.322	0.98
89_S	207_R	1.312	0.98
16_S	19_S	1.308	0.98
148_R	167_T	1.302	0.98
43_L	57_L	1.290	0.98
148_R	165_D	1.256	0.98
77_L	80_I	1.239	0.97
126_V	160_H	1.236	0.97
128_L	185_A	1.234	0.97
92_A	224_L	1.217	0.97
45_N	61_L	1.213	0.97
128_L	135_V	1.211	0.97
152_I	160_H	1.201	0.97
185_A	194_A	1.186	0.97
58_T	64_I	1.186	0.97
32_Q	40_V	1.182	0.96
185_A	192_L	1.164	0.96
175_P	179_Y	1.149	0.96
59_S	64_I	1.139	0.96
126_V	183_I	1.129	0.95
102_I	222_T	1.122	0.95
136_T	151_D	1.108	0.95
101_M	197_L	1.082	0.94
64_I	215_D	1.082	0.94
32_Q	64_I	1.069	0.94
67_V	74_N	1.066	0.94
36_L	67_V	1.056	0.93
42_Q	62_A	1.042	0.93
102_I	198_Q	1.040	0.93
30_D	58_T	1.036	0.93
31_L	64_I	1.034	0.93
137_A	152_I	1.028	0.93
92_A	205_V	1.026	0.92
139_I	164_W	1.022	0.92
99_G	201_L	1.016	0.92
93_S	98_H	1.004	0.92
135_V	183_I	1.004	0.92
184_S	191_Q	1.003	0.92
58_T	66_T	1.001	0.92
134_K	151_D	0.997	0.91
109_A	112_G	0.993	0.91
34_S	58_T	0.990	0.91
90_L	96_I	0.983	0.91
166_G	179_Y	0.973	0.90
49_T	55_N	0.958	0.90
41_A	44_K	0.958	0.90
54_N	61_L	0.956	0.90
37_T	44_K	0.951	0.89
140_T	180_N	0.944	0.89
32_Q	61_L	0.939	0.89
80_I	84_I	0.936	0.89
18_T	21_S	0.930	0.88
28_A	31_L	0.928	0.88
34_S	68_S	0.927	0.88
108_L	178_S	0.918	0.88
100_V	216_L	0.913	0.87
14_G	19_S	0.903	0.87
52_M	55_N	0.903	0.87
15_V	18_T	0.899	0.86
66_T	69_G	0.897	0.86
34_S	64_I	0.892	0.86
106_T	180_N	0.877	0.85
138_T	149_T	0.877	0.85
31_L	71_E	0.877	0.85
21_S	24_T	0.874	0.85
183_I	196_P	0.869	0.85
42_Q	51_P	0.863	0.84
102_I	200_A	0.855	0.84
31_L	57_L	0.855	0.84
70_I	77_L	0.845	0.83
134_K	186_S	0.834	0.82
152_I	155_L	0.830	0.82
39_L	58_T	0.830	0.82
127_E	197_L	0.828	0.82
68_S	72_K	0.825	0.81
39_L	74_N	0.820	0.81
147_V	179_Y	0.814	0.80
57_L	204_G	0.810	0.80
57_L	66_T	0.809	0.80
143_N	198_Q	0.808	0.80
126_V	152_I	0.807	0.80
113_S	176_N	0.805	0.80
49_T	61_L	0.804	0.80
17_T	20_S	0.799	0.79
19_S	22_S	0.797	0.79
146_V	149_T	0.794	0.79
89_S	96_I	0.792	0.79
112_G	176_N	0.783	0.78
200_A	219_Y	0.781	0.78
48_P	51_P	0.780	0.78
127_E	159_V	0.776	0.77
128_L	194_A	0.775	0.77
31_L	61_L	0.775	0.77
129_Q	194_A	0.774	0.77
132_A	192_L	0.773	0.77
110_G	113_S	0.770	0.77
66_T	73_L	0.766	0.76
56_E	81_S	0.766	0.76
128_L	160_H	0.765	0.76
41_A	45_N	0.764	0.76
91_Q	96_I	0.763	0.76
200_A	218_T	0.752	0.75
213_T	223_T	0.748	0.75
95_L	100_V	0.748	0.75
75_T	78_G	0.746	0.74
64_I	76_T	0.746	0.74
208_G	212_N	0.740	0.74
96_I	152_I	0.739	0.74
109_A	122_T	0.735	0.73
92_A	214_L	0.731	0.73
34_S	37_T	0.731	0.73
139_I	166_G	0.730	0.73
34_S	39_L	0.727	0.72
128_L	158_G	0.726	0.72
38_L	51_P	0.726	0.72
69_G	73_L	0.724	0.72
73_L	88_Q	0.723	0.72
57_L	64_I	0.723	0.72
110_G	176_N	0.723	0.72
20_S	25_G	0.716	0.71
83_Q	192_L	0.716	0.71
58_T	61_L	0.716	0.71
203_Q	215_D	0.715	0.71
80_I	164_W	0.714	0.71
34_S	61_L	0.711	0.71
62_A	66_T	0.710	0.71
63_Q	66_T	0.705	0.70
139_I	148_R	0.704	0.70
208_G	220_G	0.702	0.70
57_L	65_S	0.701	0.70
43_L	207_R	0.700	0.70
140_T	144_G	0.700	0.70
123_P	163_T	0.696	0.69
31_L	63_Q	0.694	0.69
80_I	204_G	0.694	0.69
54_N	69_G	0.692	0.69
14_G	18_T	0.691	0.69
131_A	156_T	0.690	0.68
28_A	32_Q	0.688	0.68
56_E	71_E	0.687	0.68
50_N	58_T	0.681	0.67
101_M	199_F	0.677	0.67
136_T	149_T	0.676	0.67
90_L	224_L	0.673	0.67
49_T	68_S	0.672	0.66
136_T	184_S	0.668	0.66
58_T	74_N	0.667	0.66
130_Q	133_D	0.661	0.65
31_L	62_A	0.661	0.65
54_N	62_A	0.652	0.64
68_S	71_E	0.652	0.64
40_V	44_K	0.652	0.64
40_V	65_S	0.650	0.64
186_S	191_Q	0.649	0.64
95_L	139_I	0.648	0.64
99_G	105_T	0.647	0.64
71_E	75_T	0.646	0.63
17_T	23_L	0.644	0.63
101_M	229_Q	0.642	0.63
73_L	80_I	0.642	0.63
149_T	161_S	0.638	0.62
32_Q	69_G	0.634	0.62
32_Q	36_L	0.632	0.62
91_Q	95_L	0.630	0.61
58_T	62_A	0.623	0.61
27_N	189_G	0.621	0.60
124_F	198_Q	0.621	0.60
38_L	165_D	0.620	0.60
57_L	61_L	0.620	0.60
165_D	171_G	0.619	0.60
72_K	78_G	0.617	0.60
32_Q	73_L	0.615	0.60
37_T	58_T	0.614	0.59
107_V	124_F	0.610	0.59
82_G	147_V	0.609	0.59
153_G	158_G	0.605	0.58
53_E	57_L	0.605	0.58
148_R	168_L	0.602	0.58
109_A	176_N	0.602	0.58
62_A	71_E	0.601	0.58
136_T	191_Q	0.598	0.57
88_Q	214_L	0.598	0.57
15_V	27_N	0.598	0.57
149_T	169_T	0.597	0.57
135_V	191_Q	0.595	0.57
24_T	78_G	0.594	0.57
207_R	212_N	0.594	0.57
171_G	177_G	0.591	0.57
32_Q	52_M	0.590	0.56
168_L	173_T	0.588	0.56
36_L	65_S	0.588	0.56
62_A	65_S	0.587	0.56
126_V	135_V	0.585	0.56
32_Q	72_K	0.584	0.56
28_A	71_E	0.583	0.56
19_S	23_L	0.581	0.55
217_G	229_Q	0.580	0.55
129_Q	189_G	0.578	0.55
222_T	226_E	0.577	0.55
36_L	57_L	0.577	0.55
67_V	70_I	0.575	0.55
125_G	159_V	0.575	0.55
31_L	67_V	0.575	0.55
146_V	182_A	0.572	0.54
14_G	23_L	0.569	0.54
142_K	176_N	0.567	0.54
64_I	95_L	0.565	0.53
36_L	63_Q	0.564	0.53
125_G	206_I	0.564	0.53
32_Q	71_E	0.563	0.53
28_A	34_S	0.561	0.53
142_K	178_S	0.560	0.53
59_S	197_L	0.560	0.53
149_T	153_G	0.559	0.53
166_G	177_G	0.558	0.52
123_P	161_S	0.553	0.52
44_K	76_T	0.552	0.52
148_R	173_T	0.548	0.51
72_K	75_T	0.548	0.51
141_D	147_V	0.546	0.51
16_S	20_S	0.545	0.51
94_N	146_V	0.544	0.51
82_G	110_G	0.543	0.50
49_T	101_M	0.543	0.50
197_L	228_R	0.542	0.50
15_V	22_S	0.541	0.50
111_T	176_N	0.539	0.50
30_D	57_L	0.538	0.50
42_Q	60_Q	0.535	0.49
47_D	57_L	0.534	0.49
168_L	171_G	0.534	0.49
22_S	26_S	0.532	0.49
56_E	197_L	0.527	0.48
135_V	162_F	0.527	0.48
68_S	98_H	0.525	0.48
22_S	142_K	0.524	0.48
181_V	196_P	0.523	0.48
70_I	124_F	0.522	0.48
39_L	201_L	0.522	0.48
41_A	80_I	0.519	0.47
125_G	196_P	0.519	0.47
40_V	52_M	0.517	0.47
147_V	173_T	0.516	0.47
176_N	179_Y	0.516	0.47
135_V	152_I	0.516	0.47
33_S	75_T	0.515	0.47
87_S	92_A	0.515	0.47
127_E	157_A	0.515	0.47
16_S	184_S	0.515	0.47
61_L	68_S	0.514	0.47
42_Q	65_S	0.512	0.46
40_V	67_V	0.509	0.46
91_Q	230_I	0.508	0.46
43_L	55_N	0.507	0.46
144_G	188_G	0.505	0.46
213_T	227_V	0.502	0.45
80_I	171_G	0.501	0.45
137_A	140_T	0.500	0.45
203_Q	212_N	0.500	0.45

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
3c12A	2	0.5931	100	0.541	Contact Map
3osvA	2	0.5758	100	0.546	Contact Map
1xf1A	2	0.9437	99.3	0.779	Contact Map
3isyA	1	0.4026	79.5	0.927	Contact Map
2c9rA	1	0.3377	78	0.928	Contact Map
1lyqA	1	0.3377	76.3	0.929	Contact Map
4q1zA	1	0.3983	73.6	0.93	Contact Map
3sd2A	2	0.316	68.5	0.933	Contact Map
3d33A	1	0.3983	59.5	0.937	Contact Map
2p9rA	1	0.4113	52.5	0.939	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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