Bac_export_1 - PFAM28P - GREMLIN Contacts

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Bac_export_1 - Bacterial export proteins, family 1

PFAM:	PF01311	Sequences: LAAFLLVFARIGALFMLAPVFGSRAVPARVRLGLALALALLLPAPALPAPPSLLALALLLLKELLIGLALGFAARLVFAAVQLAGQLIDLQMGLSFASVFDPQSGAQSPVLGQFLNLLALLLFLALGGHHLLLRALADSFELLPPGLPGDLAELLVRLGGQMFVLALQLAAPVLAALLLVNLALGLLARAAPQLNVFFVGFPLKILVGLLLLALSLPLLLGVFERLFEEM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	230 (224)
Sequences:	18326 (13498)
Seq/√Len:	901.9
META:	0.822

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
138_D	141_E	4.711	1.00
9_A	60_L	4.376	1.00
181_N	204_K	3.831	1.00
92_M	208_G	3.774	1.00
81_V	119_A	3.460	1.00
134_R	138_D	3.459	1.00
153_E	157_R	3.048	1.00
53_L	57_A	2.961	1.00
42_L	137_A	2.845	1.00
127_G	130_H	2.603	1.00
13_A	64_L	2.519	1.00
147_L	150_D	2.518	1.00
116_N	120_L	2.410	1.00
164_V	168_Q	2.386	1.00
12_G	35_A	2.333	1.00
9_A	64_L	2.310	1.00
180_V	207_V	2.294	1.00
157_R	161_Q	2.119	1.00
176_A	211_L	2.117	1.00
83_L	166_A	1.986	1.00
28_A	31_R	1.978	1.00
7_V	140_F	1.940	1.00
184_L	200_G	1.919	1.00
8_F	39_A	1.918	1.00
154_L	157_R	1.899	1.00
11_I	136_L	1.887	1.00
101_D	104_S	1.885	1.00
9_A	13_A	1.841	1.00
12_G	16_M	1.834	1.00
96_F	100_F	1.830	1.00
115_L	212_L	1.720	1.00
123_F	128_G	1.690	1.00
111_L	212_L	1.674	1.00
6_L	59_L	1.656	1.00
131_L	134_R	1.637	1.00
82_Q	116_N	1.631	1.00
8_F	35_A	1.626	1.00
17_L	68_L	1.623	1.00
206_L	210_L	1.587	1.00
54_L	57_A	1.582	1.00
59_L	62_K	1.581	1.00
88_I	173_V	1.572	1.00
79_A	82_Q	1.565	1.00
75_R	79_A	1.551	1.00
126_L	224_E	1.508	1.00
83_L	162_M	1.507	1.00
156_V	159_G	1.504	1.00
161_Q	164_V	1.498	1.00
52_S	55_A	1.482	1.00
123_F	132_L	1.475	1.00
49_A	52_S	1.474	1.00
159_G	162_M	1.406	1.00
221_G	224_E	1.395	1.00
43_P	46_A	1.365	1.00
161_Q	165_L	1.363	1.00
176_A	180_V	1.353	1.00
137_A	141_E	1.348	1.00
13_A	17_L	1.336	1.00
14_L	136_L	1.328	1.00
96_F	99_V	1.310	1.00
53_L	56_L	1.303	1.00
58_L	62_K	1.286	1.00
157_R	160_G	1.285	1.00
158_L	161_Q	1.258	1.00
124_L	129_H	1.258	1.00
215_S	218_L	1.255	1.00
130_H	134_R	1.253	1.00
72_F	76_L	1.246	1.00
202_P	205_I	1.245	1.00
173_V	211_L	1.239	1.00
89_D	111_L	1.236	1.00
160_G	164_V	1.232	1.00
63_E	146_G	1.214	1.00
20_V	124_L	1.208	1.00
63_E	140_F	1.200	1.00
46_A	50_P	1.199	1.00
29_R	33_G	1.192	1.00
15_F	38_L	1.182	1.00
13_A	71_G	1.181	1.00
44_A	47_L	1.180	1.00
78_F	123_F	1.177	1.00
138_D	142_L	1.174	1.00
66_I	143_L	1.162	1.00
152_A	156_V	1.157	1.00
198_F	201_F	1.154	1.00
215_S	219_L	1.143	1.00
62_K	146_G	1.140	1.00
13_A	68_L	1.137	1.00
122_L	126_L	1.103	1.00
48_P	52_S	1.102	1.00
26_V	30_V	1.101	1.00
218_L	221_G	1.101	1.00
11_I	42_L	1.101	1.00
33_G	37_A	1.098	1.00
17_L	75_R	1.093	1.00
154_L	158_L	1.093	1.00
7_V	39_A	1.091	1.00
122_L	220_L	1.091	1.00
211_L	215_S	1.075	1.00
8_F	36_L	1.071	1.00
36_L	40_L	1.062	1.00
171_A	175_A	1.057	1.00
11_I	35_A	1.052	1.00
117_L	121_L	1.033	1.00
47_L	51_P	1.026	1.00
35_A	39_A	1.025	1.00
7_V	42_L	1.021	1.00
15_F	35_A	1.020	1.00
88_I	115_L	1.020	1.00
165_L	226_L	1.019	1.00
11_I	38_L	1.013	1.00
115_L	219_L	1.012	1.00
138_D	168_Q	1.012	1.00
80_A	84_A	1.011	1.00
90_L	95_S	1.010	1.00
217_P	220_L	1.001	1.00
92_M	111_L	0.986	1.00
4_F	8_F	0.982	1.00
70_L	139_S	0.980	1.00
17_L	71_G	0.977	1.00
76_L	159_G	0.962	1.00
27_P	30_V	0.959	1.00
45_P	48_P	0.958	1.00
75_R	82_Q	0.951	1.00
170_A	174_L	0.948	1.00
81_V	223_F	0.946	1.00
87_L	91_Q	0.945	1.00
188_A	196_V	0.943	1.00
69_A	73_A	0.935	1.00
14_L	70_L	0.927	1.00
69_A	151_L	0.927	1.00
43_P	47_L	0.926	1.00
120_L	124_L	0.924	1.00
4_F	39_A	0.917	1.00
118_L	220_L	0.910	1.00
90_L	99_V	0.901	1.00
195_N	198_F	0.899	1.00
14_L	17_L	0.891	1.00
123_F	126_L	0.884	1.00
9_A	12_G	0.882	1.00
13_A	16_M	0.880	1.00
51_P	55_A	0.880	1.00
80_A	165_L	0.876	1.00
15_F	34_L	0.870	1.00
153_E	156_V	0.869	1.00
213_A	217_P	0.868	1.00
11_I	140_F	0.867	1.00
191_A	194_L	0.865	1.00
198_F	202_P	0.865	1.00
61_L	65_L	0.864	1.00
86_Q	90_L	0.860	1.00
130_H	133_L	0.854	1.00
47_L	50_P	0.850	1.00
98_S	107_Q	0.839	1.00
140_F	145_P	0.839	1.00
128_G	131_L	0.835	1.00
79_A	162_M	0.833	1.00
38_L	133_L	0.828	1.00
64_L	68_L	0.827	1.00
117_L	120_L	0.826	1.00
85_G	115_L	0.823	1.00
84_A	170_A	0.822	1.00
89_D	109_P	0.822	1.00
121_L	125_A	0.820	1.00
94_L	205_I	0.819	1.00
100_F	104_S	0.817	1.00
59_L	146_G	0.814	1.00
29_R	32_L	0.812	1.00
217_P	221_G	0.812	1.00
156_V	160_G	0.808	1.00
141_E	144_P	0.804	1.00
37_A	41_L	0.798	1.00
84_A	88_I	0.795	1.00
59_L	145_P	0.791	1.00
131_L	135_A	0.790	1.00
223_F	227_F	0.777	1.00
221_G	225_R	0.773	1.00
161_Q	168_Q	0.771	1.00
34_L	38_L	0.770	1.00
119_A	223_F	0.768	1.00
65_L	68_L	0.763	1.00
58_L	61_L	0.761	1.00
28_A	32_L	0.756	1.00
55_A	59_L	0.752	1.00
89_D	94_L	0.749	1.00
134_R	141_E	0.744	1.00
8_F	12_G	0.744	1.00
135_A	169_L	0.736	1.00
197_F	201_F	0.731	1.00
187_L	196_V	0.731	1.00
13_A	35_A	0.730	1.00
7_V	11_I	0.729	1.00
5_L	60_L	0.722	1.00
14_L	132_L	0.720	1.00
82_Q	113_Q	0.719	1.00
184_L	203_L	0.718	1.00
61_L	64_L	0.718	1.00
83_L	86_Q	0.716	1.00
97_A	110_V	0.715	1.00
78_F	119_A	0.711	1.00
36_L	39_A	0.711	1.00
14_L	18_A	0.707	1.00
214_L	217_P	0.707	1.00
74_A	135_A	0.705	1.00
126_L	129_H	0.699	1.00
86_Q	98_S	0.697	1.00
92_M	177_L	0.697	1.00
2_A	56_L	0.690	1.00
18_A	74_A	0.690	1.00
32_L	35_A	0.685	1.00
46_A	51_P	0.684	1.00
50_P	53_L	0.683	1.00
78_F	116_N	0.682	1.00
220_L	224_E	0.680	1.00
212_L	215_S	0.679	1.00
85_G	89_D	0.677	1.00
21_F	133_L	0.673	1.00
173_V	177_L	0.673	1.00
12_G	32_L	0.671	1.00
32_L	36_L	0.669	1.00
131_L	138_D	0.669	1.00
91_Q	174_L	0.667	1.00
73_A	77_V	0.661	1.00
94_L	97_A	0.660	1.00
70_L	74_A	0.656	1.00
86_Q	95_S	0.653	1.00
47_L	52_S	0.650	1.00
84_A	166_A	0.649	1.00
15_F	31_R	0.646	1.00
188_A	198_F	0.646	1.00
101_D	108_S	0.645	1.00
88_I	170_A	0.644	1.00
4_F	36_L	0.643	1.00
54_L	58_L	0.634	1.00
87_L	174_L	0.634	1.00
46_A	49_A	0.632	1.00
13_A	18_A	0.628	1.00
91_Q	178_L	0.624	1.00
209_L	213_A	0.623	1.00
212_L	216_L	0.622	1.00
129_H	133_L	0.621	1.00
18_A	132_L	0.620	1.00
188_A	197_F	0.618	1.00
89_D	204_K	0.618	1.00
76_L	162_M	0.616	1.00
99_V	102_P	0.616	1.00
91_Q	181_N	0.615	1.00
73_A	158_L	0.614	1.00
184_L	196_V	0.613	1.00
167_L	174_L	0.608	1.00
62_K	66_I	0.608	1.00
224_E	227_F	0.607	1.00
160_G	163_F	0.605	1.00
171_A	200_G	0.604	1.00
171_A	174_L	0.604	1.00
214_L	218_L	0.604	1.00
187_L	190_A	0.603	1.00
67_G	71_G	0.601	1.00
158_L	162_M	0.599	1.00
151_L	154_L	0.595	1.00
5_L	56_L	0.595	1.00
89_D	181_N	0.594	1.00
118_L	216_L	0.593	1.00
11_I	39_A	0.588	1.00
142_L	165_L	0.585	1.00
184_L	204_K	0.583	1.00
166_A	170_A	0.581	1.00
18_A	21_F	0.581	1.00
55_A	58_L	0.579	1.00
122_L	224_E	0.576	1.00
6_L	60_L	0.575	1.00
134_R	137_A	0.575	1.00
89_D	112_G	0.572	1.00
77_V	80_A	0.572	1.00
43_P	48_P	0.572	1.00
150_D	153_E	0.570	1.00
168_Q	222_V	0.569	1.00
222_V	225_R	0.569	1.00
137_A	140_F	0.567	1.00
135_A	165_L	0.567	1.00
201_F	205_I	0.565	1.00
188_A	195_N	0.563	1.00
86_Q	109_P	0.562	1.00
74_A	132_L	0.562	1.00
202_P	206_L	0.561	1.00
43_P	49_A	0.560	1.00
195_N	201_F	0.558	1.00
194_L	198_F	0.558	1.00
97_A	100_F	0.558	1.00
98_S	102_P	0.554	1.00
50_P	54_L	0.549	1.00
96_F	201_F	0.542	1.00
210_L	213_A	0.542	1.00
50_P	55_A	0.541	1.00
85_G	110_V	0.541	1.00
201_F	206_L	0.539	1.00
155_L	159_G	0.539	1.00
191_A	198_F	0.539	1.00
162_M	165_L	0.534	1.00
122_L	125_A	0.534	1.00
180_V	184_L	0.533	1.00
207_V	210_L	0.533	1.00
190_A	200_G	0.532	1.00
76_L	79_A	0.532	1.00
83_L	87_L	0.532	1.00
218_L	222_V	0.531	1.00
48_P	51_P	0.531	1.00
43_P	51_P	0.531	1.00
159_G	163_F	0.527	1.00
24_R	105_G	0.526	1.00
38_L	136_L	0.524	1.00
195_N	200_G	0.523	1.00
86_Q	89_D	0.522	1.00
23_S	185_G	0.521	1.00
219_L	222_V	0.520	1.00
125_A	128_G	0.519	1.00
131_L	168_Q	0.518	1.00
173_V	215_S	0.517	1.00
89_D	92_M	0.517	1.00
22_G	26_V	0.516	1.00
151_L	155_L	0.514	1.00
34_L	37_A	0.514	1.00
73_A	154_L	0.512	1.00
101_D	105_G	0.511	1.00
69_A	72_F	0.511	1.00
63_E	145_P	0.511	1.00
113_Q	117_L	0.510	1.00
65_L	69_A	0.510	1.00
133_L	137_A	0.508	1.00
33_G	41_L	0.508	1.00
92_M	205_I	0.507	1.00
173_V	212_L	0.507	1.00
114_F	118_L	0.503	1.00
205_I	208_G	0.502	1.00
210_L	214_L	0.500	1.00
82_Q	101_D	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
2zy9A	2	0.5478	1.6	0.961	Contact Map
4rp9A	2	0.2913	1.6	0.961	Contact Map
2m0sA	1	0.1217	1.1	0.964	Contact Map
2kncA	1	0.1913	0.9	0.966	Contact Map
4p6vE	1	0.4043	0.6	0.97	Contact Map
4p6vD	1	0.3478	0.5	0.972	Contact Map
4httA	1	0.5261	0.5	0.973	Contact Map
3ci9A	5	0.0783	0.4	0.974	Contact Map
2kzqA	1	0.1565	0.4	0.974	Contact Map
4ogqG	1	0.1609	0.4	0.974	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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