FlgH - PFAM28P - GREMLIN Contacts

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FlgH - Flagellar L-ring protein

PFAM:	PF02107	Sequences: PSAGSLWQAGSRYRSLFEDRRARRVGDILTVVIVESTSASKSASTSTSRSSSVSPSLLVSASSSSSFDGKGSTSRSNSLTGTITATVVEVLPNGNLVIEGEKEVRVNQEKQEIRLSGIVRPEDISPDNTVLSTRIADARIEYGGRGVIADAQRPGWLTRFFDSIWP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	166 (165)
Sequences:	12314 (7841)
Seq/√Len:	610.4
META:	0.869

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_S	68_D	2.915	1.00
89_E	97_V	2.878	1.00
95_N	118_I	2.818	1.00
50_S	64_S	2.743	1.00
120_R	123_D	2.593	1.00
103_E	110_K	2.354	1.00
119_V	135_I	2.343	1.00
32_V	129_T	2.285	1.00
131_L	134_R	2.260	1.00
29_L	85_A	2.209	1.00
54_S	60_S	2.101	1.00
154_P	162_D	2.089	1.00
20_R	122_E	2.066	1.00
105_R	110_K	2.064	1.00
87_V	96_L	2.002	1.00
115_L	135_I	1.996	1.00
48_S	66_S	1.993	1.00
32_V	82_T	1.967	1.00
125_S	129_T	1.967	1.00
48_S	70_K	1.958	1.00
52_S	66_S	1.950	1.00
44_S	74_S	1.922	1.00
101_E	114_R	1.914	1.00
116_S	139_R	1.840	1.00
119_V	130_V	1.811	1.00
85_A	100_G	1.799	1.00
42_S	76_S	1.787	1.00
46_S	70_K	1.747	1.00
91_L	97_V	1.736	1.00
99_E	116_S	1.730	1.00
34_V	131_L	1.724	1.00
50_S	66_S	1.691	1.00
33_I	81_G	1.689	1.00
98_I	135_I	1.682	1.00
98_I	119_V	1.676	1.00
48_S	68_D	1.667	1.00
46_S	72_S	1.629	1.00
103_E	139_R	1.625	1.00
44_S	70_K	1.582	1.00
29_L	119_V	1.527	1.00
3_A	8_Q	1.470	1.00
44_S	72_S	1.463	1.00
36_S	78_S	1.444	1.00
45_T	152_Q	1.440	1.00
42_S	72_S	1.419	1.00
86_T	137_D	1.388	1.00
88_V	99_E	1.377	1.00
26_G	86_T	1.365	1.00
15_S	18_E	1.365	1.00
35_E	102_K	1.363	1.00
30_T	84_T	1.353	1.00
40_S	78_S	1.336	1.00
153_R	159_R	1.327	1.00
40_S	74_S	1.314	1.00
50_S	68_D	1.309	1.00
161_F	165_W	1.307	1.00
120_R	128_N	1.298	1.00
97_V	118_I	1.298	1.00
82_T	133_T	1.286	1.00
99_E	114_R	1.282	1.00
31_V	85_A	1.281	1.00
54_S	64_S	1.280	1.00
42_S	74_S	1.263	1.00
147_V	154_P	1.255	1.00
101_E	112_E	1.244	1.00
32_V	131_L	1.241	1.00
53_V	61_A	1.191	1.00
52_S	64_S	1.184	1.00
75_R	109_E	1.183	1.00
85_A	98_I	1.182	1.00
114_R	141_E	1.163	1.00
32_V	125_S	1.157	1.00
28_I	84_T	1.147	1.00
91_L	118_I	1.116	1.00
147_V	150_D	1.115	1.00
43_A	148_I	1.104	1.00
108_Q	147_V	1.100	1.00
52_S	62_S	1.083	1.00
35_E	104_V	1.080	1.00
110_K	145_R	1.074	1.00
45_T	147_V	1.068	1.00
105_R	141_E	1.058	1.00
25_V	89_E	1.054	1.00
123_D	130_V	1.030	1.00
38_S	76_S	1.029	1.00
51_S	158_T	1.026	1.00
100_G	115_L	1.022	1.00
29_L	124_I	1.009	1.00
108_Q	153_R	1.006	1.00
125_S	134_R	1.005	1.00
82_T	129_T	1.005	1.00
19_D	22_A	1.002	1.00
41_K	77_N	0.985	1.00
103_E	112_E	0.985	1.00
71_G	148_I	0.984	1.00
91_L	95_N	0.976	1.00
45_T	73_T	0.973	1.00
34_V	80_T	0.973	1.00
34_V	133_T	0.971	1.00
69_G	146_G	0.961	1.00
151_A	162_D	0.925	1.00
28_I	95_N	0.921	1.00
81_G	113_I	0.900	1.00
118_I	137_D	0.895	1.00
8_Q	11_S	0.893	1.00
154_P	158_T	0.887	1.00
123_D	134_R	0.882	1.00
105_R	143_G	0.879	1.00
53_V	65_S	0.879	1.00
10_G	13_Y	0.878	1.00
38_S	78_S	0.874	1.00
37_T	81_G	0.872	1.00
40_S	76_S	0.871	1.00
71_G	146_G	0.867	1.00
55_P	58_L	0.855	1.00
81_G	132_S	0.847	1.00
28_I	136_A	0.844	1.00
31_V	98_I	0.840	1.00
88_V	97_V	0.824	1.00
150_D	159_R	0.820	1.00
41_K	109_E	0.812	1.00
156_W	160_F	0.808	1.00
57_L	60_S	0.808	1.00
41_K	79_L	0.806	1.00
91_L	96_L	0.805	1.00
123_D	128_N	0.797	1.00
106_V	109_E	0.787	1.00
47_T	151_A	0.784	1.00
47_T	154_P	0.779	1.00
54_S	62_S	0.777	1.00
79_L	142_Y	0.769	1.00
31_V	115_L	0.766	1.00
97_V	116_S	0.763	1.00
44_S	68_D	0.759	1.00
90_V	96_L	0.759	1.00
25_V	90_V	0.750	1.00
148_I	152_Q	0.746	1.00
85_A	135_I	0.743	1.00
114_R	143_G	0.742	1.00
35_E	81_G	0.727	1.00
49_R	67_F	0.727	1.00
150_D	163_S	0.720	1.00
18_E	23_R	0.719	1.00
47_T	162_D	0.715	1.00
39_A	79_L	0.713	1.00
107_N	144_G	0.707	1.00
73_T	152_Q	0.703	1.00
95_N	121_P	0.702	1.00
39_A	106_V	0.699	1.00
35_E	132_S	0.695	1.00
46_S	66_S	0.695	1.00
109_E	149_A	0.695	1.00
82_T	132_S	0.694	1.00
77_N	142_Y	0.689	1.00
154_P	159_R	0.688	1.00
82_T	134_R	0.683	1.00
115_L	138_A	0.681	1.00
65_S	151_A	0.681	1.00
73_T	107_N	0.678	1.00
130_V	134_R	0.673	1.00
150_D	154_P	0.673	1.00
29_L	98_I	0.672	1.00
14_R	18_E	0.671	1.00
108_Q	149_A	0.666	1.00
77_N	149_A	0.664	1.00
37_T	111_Q	0.660	1.00
68_D	72_S	0.659	1.00
33_I	37_T	0.657	1.00
71_G	151_A	0.656	1.00
121_P	124_I	0.645	1.00
38_S	80_T	0.637	1.00
47_T	147_V	0.634	1.00
45_T	69_G	0.633	1.00
9_A	12_R	0.632	1.00
94_G	121_P	0.631	1.00
36_S	80_T	0.620	1.00
155_G	158_T	0.618	1.00
45_T	148_I	0.615	1.00
43_A	75_R	0.613	1.00
77_N	144_G	0.612	1.00
41_K	106_V	0.612	1.00
86_T	136_A	0.609	1.00
159_R	163_S	0.609	1.00
41_K	75_R	0.608	1.00
132_S	140_I	0.603	1.00
158_T	162_D	0.601	1.00
32_V	127_D	0.598	1.00
77_N	111_Q	0.597	1.00
31_V	135_I	0.595	1.00
47_T	71_G	0.587	1.00
73_T	108_Q	0.584	1.00
156_W	163_S	0.583	1.00
102_K	138_A	0.581	1.00
28_I	123_D	0.578	1.00
155_G	159_R	0.577	1.00
50_S	62_S	0.576	1.00
26_G	100_G	0.576	1.00
86_T	118_I	0.572	1.00
129_T	134_R	0.569	1.00
43_A	152_Q	0.568	1.00
75_R	107_N	0.565	1.00
84_T	136_A	0.563	1.00
41_K	73_T	0.562	1.00
139_R	143_G	0.561	1.00
51_S	65_S	0.561	1.00
112_E	141_E	0.559	1.00
84_T	128_N	0.553	1.00
11_S	15_S	0.552	1.00
157_L	161_F	0.549	0.99
86_T	95_N	0.549	0.99
37_T	142_Y	0.546	0.99
111_Q	142_Y	0.545	0.99
148_I	151_A	0.545	0.99
33_I	132_S	0.542	0.99
155_G	165_W	0.540	0.99
40_S	72_S	0.539	0.99
16_L	20_R	0.539	0.99
37_T	113_I	0.536	0.99
125_S	131_L	0.534	0.99
31_V	119_V	0.534	0.99
51_S	61_A	0.529	0.99
12_R	15_S	0.528	0.99
147_V	159_R	0.528	0.99
102_K	134_R	0.526	0.99
51_S	63_S	0.525	0.99
147_V	153_R	0.524	0.99
147_V	152_Q	0.518	0.99
96_L	124_I	0.518	0.99
83_I	102_K	0.518	0.99
37_T	104_V	0.517	0.99
146_G	149_A	0.517	0.99
42_S	46_S	0.516	0.99
106_V	111_Q	0.514	0.99
144_G	149_A	0.514	0.99
112_E	145_R	0.513	0.99
22_A	29_L	0.512	0.99
102_K	113_I	0.511	0.99
39_A	142_Y	0.510	0.99
30_T	128_N	0.509	0.99
22_A	87_V	0.509	0.99
51_S	67_F	0.506	0.99
158_T	163_S	0.505	0.99
65_S	162_D	0.504	0.99
33_I	107_N	0.503	0.99
96_L	121_P	0.502	0.99
77_N	81_G	0.502	0.99
20_R	23_R	0.501	0.99
39_A	73_T	0.500	0.99

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
2dgyA	1	0.5422	19.9	0.928	Contact Map
3tiwA	1	0.3614	14.2	0.933	Contact Map
3bdlA	2	0.5	8.7	0.939	Contact Map
4toiA	2	0.4458	6.3	0.943	Contact Map
4ql5A	4	0.3976	5	0.946	Contact Map
1gmeA	6	0.7048	4.6	0.947	Contact Map
3wbkC	1	0.006	4.6	0.947	Contact Map
2d9rA	1	0.2108	4.3	0.948	Contact Map
1hr0W	1	0.3916	3.7	0.949	Contact Map
1ah9A	1	0.3916	3.6	0.949	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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