Transposase_31 - PFAM28P - GREMLIN Contacts

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Transposase_31 - Putative transposase, YhgA-like

PFAM:	PF04754	Sequences: NPHDAFFKELFSDPEVARDFLRGFLPEELVALLDLSTLELVPGSFVDEDLRERESDLLYRVRLKGGREAYVYLLLEHQSTPDPLMALRLLRYMVLIWERHLKEKKKKKLPPVIPIVLYHGKRPWTAPTDLADLFDPPELAKYLPDFRYLLIDLSRYSDEELKGRRNLAAALLLLKHIRDRDLLELLEELLELLKELEETETQL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	203 (194)
Sequences:	6281 (4971)
Seq/√Len:	356.9
META:	0.843

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_T	62_R	3.808	1.00
91_R	98_E	3.645	1.00
39_E	60_R	3.591	1.00
78_Q	88_R	3.427	1.00
141_K	147_R	3.108	1.00
131_A	145_D	2.831	1.00
78_Q	85_M	2.772	1.00
90_L	94_V	2.613	1.00
129_D	145_D	2.449	1.00
18_R	22_R	2.418	1.00
129_D	147_R	2.362	1.00
85_M	88_R	2.207	1.00
5_A	52_E	2.157	1.00
152_D	155_R	2.138	1.00
4_D	8_K	2.109	1.00
41_V	60_R	2.048	1.00
58_L	96_I	2.013	1.00
157_S	160_E	2.005	1.00
14_P	18_R	1.970	1.00
37_T	61_V	1.950	1.00
20_F	151_I	1.945	1.00
81_P	126_A	1.930	1.00
89_L	116_V	1.896	1.00
47_D	95_L	1.885	1.00
44_S	54_E	1.839	1.00
95_L	98_E	1.827	1.00
93_M	114_P	1.826	1.00
45_F	58_L	1.799	1.00
93_M	112_V	1.793	1.00
93_M	97_W	1.727	1.00
129_D	132_D	1.726	1.00
97_W	134_F	1.711	1.00
93_M	146_F	1.678	1.00
127_P	132_D	1.672	1.00
81_P	125_T	1.666	1.00
86_A	148_Y	1.618	1.00
32_L	64_K	1.603	1.00
167_L	171_L	1.590	1.00
40_L	59_Y	1.556	1.00
30_V	35_L	1.545	1.00
8_K	44_S	1.536	1.00
108_K	135_D	1.536	1.00
87_L	94_V	1.535	1.00
85_M	116_V	1.532	1.00
158_D	176_H	1.526	1.00
60_R	68_E	1.525	1.00
91_R	94_V	1.506	1.00
99_R	103_E	1.500	1.00
45_F	55_S	1.491	1.00
34_D	37_T	1.443	1.00
123_P	155_R	1.436	1.00
62_R	68_E	1.387	1.00
100_H	110_P	1.370	1.00
7_F	11_F	1.364	1.00
33_L	61_V	1.361	1.00
172_L	175_K	1.360	1.00
20_F	24_F	1.328	1.00
16_V	19_D	1.317	1.00
171_L	174_L	1.314	1.00
91_R	95_L	1.310	1.00
87_L	91_R	1.296	1.00
53_R	91_R	1.283	1.00
113_I	149_L	1.280	1.00
171_L	175_K	1.269	1.00
17_A	59_Y	1.252	1.00
126_A	148_Y	1.223	1.00
84_L	133_L	1.205	1.00
34_D	62_R	1.204	1.00
7_F	117_L	1.204	1.00
100_H	103_E	1.189	1.00
151_I	164_R	1.178	1.00
130_L	146_F	1.177	1.00
55_S	58_L	1.172	1.00
176_H	179_D	1.168	1.00
137_P	140_A	1.162	1.00
79_S	119_H	1.154	1.00
63_L	69_A	1.151	1.00
142_Y	149_L	1.147	1.00
134_F	143_L	1.147	1.00
99_R	102_K	1.142	1.00
169_A	173_L	1.139	1.00
189_L	192_L	1.135	1.00
185_L	188_E	1.130	1.00
82_D	88_R	1.128	1.00
21_L	73_L	1.125	1.00
158_D	175_K	1.120	1.00
10_L	16_V	1.114	1.00
11_F	170_A	1.090	1.00
19_D	23_G	1.085	1.00
168_A	171_L	1.065	1.00
67_R	135_D	1.053	1.00
8_K	54_E	1.052	1.00
78_Q	82_D	1.045	1.00
10_L	170_A	1.039	1.00
128_T	147_R	1.025	1.00
60_R	70_Y	1.024	1.00
22_R	30_V	1.022	1.00
174_L	177_I	1.016	1.00
13_D	16_V	1.007	1.00
89_L	114_P	1.003	1.00
170_A	174_L	1.001	1.00
21_L	71_V	0.985	1.00
172_L	176_H	0.979	1.00
8_K	52_E	0.976	1.00
168_A	174_L	0.971	1.00
168_A	175_K	0.968	1.00
70_Y	100_H	0.967	1.00
2_P	5_A	0.961	1.00
97_W	112_V	0.947	1.00
118_Y	154_S	0.946	1.00
90_L	146_F	0.941	1.00
53_R	95_L	0.937	1.00
130_L	134_F	0.933	1.00
185_L	189_L	0.924	1.00
169_A	172_L	0.919	1.00
104_K	107_K	0.916	1.00
93_M	130_L	0.904	1.00
40_L	57_L	0.903	1.00
181_D	184_E	0.894	1.00
18_R	35_L	0.892	1.00
82_D	85_M	0.890	1.00
43_G	55_S	0.889	1.00
19_D	22_R	0.889	1.00
117_L	153_L	0.887	1.00
17_A	38_L	0.869	1.00
181_D	185_L	0.859	1.00
191_E	194_K	0.855	1.00
131_A	140_A	0.840	1.00
12_S	40_L	0.832	1.00
168_A	172_L	0.827	1.00
18_R	36_S	0.819	1.00
123_P	154_S	0.819	1.00
156_Y	160_E	0.814	1.00
84_L	87_L	0.811	1.00
12_S	57_L	0.808	1.00
40_L	99_R	0.802	1.00
26_P	29_L	0.801	1.00
119_H	174_L	0.799	1.00
24_F	151_I	0.798	1.00
57_L	75_L	0.792	1.00
97_W	109_L	0.790	1.00
58_L	72_Y	0.789	1.00
27_E	30_V	0.788	1.00
74_L	114_P	0.788	1.00
170_A	175_K	0.786	1.00
80_T	88_R	0.785	1.00
116_V	148_Y	0.779	1.00
55_S	74_L	0.778	1.00
174_L	178_R	0.775	1.00
186_L	189_L	0.775	1.00
84_L	101_L	0.765	1.00
167_L	174_L	0.762	1.00
42_P	45_F	0.741	1.00
5_A	9_E	0.741	1.00
7_F	77_H	0.740	1.00
44_S	52_E	0.739	1.00
111_P	143_L	0.739	1.00
188_E	192_L	0.734	1.00
48_E	51_R	0.730	1.00
169_A	175_K	0.730	1.00
43_G	99_R	0.726	1.00
22_R	35_L	0.723	0.99
11_F	17_A	0.722	0.99
151_I	156_Y	0.715	0.99
87_L	97_W	0.710	0.99
142_Y	147_R	0.708	0.99
58_L	70_Y	0.708	0.99
89_L	146_F	0.705	0.99
173_L	177_I	0.705	0.99
40_L	43_G	0.705	0.99
47_D	91_R	0.704	0.99
7_F	174_L	0.704	0.99
184_E	187_E	0.702	0.99
119_H	153_L	0.701	0.99
87_L	109_L	0.698	0.99
6_F	10_L	0.697	0.99
45_F	99_R	0.697	0.99
15_E	19_D	0.697	0.99
14_P	36_S	0.695	0.99
188_E	191_E	0.693	0.99
33_L	71_V	0.690	0.99
86_A	133_L	0.687	0.99
98_E	102_K	0.687	0.99
162_K	165_R	0.685	0.99
8_K	12_S	0.684	0.99
74_L	96_I	0.683	0.99
24_F	115_I	0.680	0.99
115_I	151_I	0.680	0.99
32_L	138_E	0.680	0.99
120_G	123_P	0.678	0.99
167_L	172_L	0.672	0.99
187_E	190_L	0.672	0.99
84_L	109_L	0.669	0.99
15_E	18_R	0.668	0.99
90_L	144_P	0.668	0.99
163_G	168_A	0.667	0.99
83_P	107_K	0.666	0.99
83_P	108_K	0.661	0.99
11_F	77_H	0.660	0.99
35_L	38_L	0.656	0.99
187_E	191_E	0.655	0.99
119_H	152_D	0.654	0.99
63_L	66_G	0.652	0.99
32_L	136_P	0.651	0.99
86_A	130_L	0.648	0.99
136_P	139_L	0.647	0.99
96_I	112_V	0.647	0.99
38_L	59_Y	0.647	0.99
90_L	130_L	0.642	0.99
12_S	99_R	0.638	0.99
116_V	150_L	0.638	0.99
81_P	120_G	0.636	0.99
128_T	150_L	0.635	0.99
183_L	190_L	0.635	0.99
86_A	126_A	0.632	0.99
25_L	29_L	0.630	0.99
175_K	179_D	0.626	0.99
21_L	25_L	0.625	0.99
140_A	145_D	0.621	0.98
28_E	138_E	0.616	0.98
123_P	152_D	0.616	0.98
43_G	54_E	0.611	0.98
5_A	50_L	0.608	0.98
111_P	139_L	0.608	0.98
85_M	124_W	0.606	0.98
128_T	132_D	0.605	0.98
97_W	100_H	0.603	0.98
85_M	126_A	0.601	0.98
47_D	53_R	0.600	0.98
17_A	75_L	0.600	0.98
78_Q	119_H	0.598	0.98
5_A	46_V	0.597	0.98
183_L	192_L	0.596	0.98
131_A	143_L	0.594	0.98
153_L	175_K	0.591	0.98
7_F	21_L	0.582	0.98
170_A	173_L	0.580	0.98
183_L	188_E	0.578	0.98
191_E	195_E	0.577	0.98
72_Y	96_I	0.574	0.97
42_P	99_R	0.574	0.97
169_A	176_H	0.572	0.97
182_L	186_L	0.568	0.97
130_L	145_D	0.567	0.97
46_V	74_L	0.566	0.97
87_L	101_L	0.566	0.97
24_F	164_R	0.565	0.97
29_L	139_L	0.562	0.97
162_K	188_E	0.561	0.97
28_E	142_Y	0.560	0.97
33_L	63_L	0.557	0.97
100_H	106_K	0.557	0.97
179_D	182_L	0.556	0.97
184_E	194_K	0.551	0.97
6_F	16_V	0.550	0.97
44_S	74_L	0.550	0.97
7_F	119_H	0.548	0.97
17_A	73_L	0.548	0.97
70_Y	110_P	0.547	0.97
159_E	163_G	0.545	0.96
29_L	77_H	0.540	0.96
176_H	180_R	0.540	0.96
176_H	181_D	0.540	0.96
111_P	134_F	0.539	0.96
109_L	133_L	0.538	0.96
45_F	54_E	0.535	0.96
9_E	13_D	0.533	0.96
97_W	111_P	0.532	0.96
104_K	108_K	0.531	0.96
180_R	183_L	0.530	0.96
77_H	119_H	0.530	0.96
190_L	193_L	0.529	0.96
187_E	192_L	0.527	0.96
188_E	195_E	0.524	0.96
131_A	134_F	0.523	0.96
48_E	91_R	0.522	0.96
47_D	51_R	0.519	0.95
83_P	105_K	0.519	0.95
89_L	93_M	0.517	0.95
74_L	93_M	0.516	0.95
81_P	122_R	0.516	0.95
94_V	97_W	0.516	0.95
182_L	185_L	0.514	0.95
54_E	72_Y	0.510	0.95
183_L	187_E	0.510	0.95
5_A	8_K	0.504	0.95
187_E	195_E	0.503	0.95
14_P	59_Y	0.502	0.95
81_P	118_Y	0.501	0.94
128_T	148_Y	0.500	0.94
94_V	98_E	0.500	0.94

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
2vldA	2	0.5862	5.4	0.951	Contact Map
2krcA	1	0.2414	3.5	0.955	Contact Map
3au4B	1	0.1576	3.4	0.955	Contact Map
2l2dA	1	0.2709	3	0.957	Contact Map
4bhvA	3	0.1281	2.8	0.957	Contact Map
1b0xA	2	0.335	2.3	0.959	Contact Map
3zh9B	1	0.5123	2.3	0.959	Contact Map
2wujA	2	0.2167	2.3	0.959	Contact Map
4anoA	1	0.8966	1.9	0.961	Contact Map
3wolA	2	0.936	1.9	0.961	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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