DDE_Tnp_IS66 - PFAM28P - GREMLIN Contacts

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DDE_Tnp_IS66 - Transposase IS66 family

PFAM:	PF03050	Sequences: KGQYGPGLLALVAYLKYADHLPLYRQEEILARLGVPLSRGTLANWVGRAAELLEPLYEALKEELLASPVLHADETGVRVLDPGRGKGKKGWLWVYVTDDRPAVLFDYHPSRGGEVPEELLGGFKGILVSDGYSGYDKLAGGITHQGCWAHLRRKFVEAAEADPKSPEAAEALKRIRELYAIEREARDLSPEERLALRQERSRPLLDALKAWLEEQLRRVLPKSKLGKAIRYLLKHWDALLRFLDDGRVPIDNNLAERAIRPVVLGRKNSLFFRSERGAEA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	280 (273)
Sequences:	49130 (30570)
Seq/√Len:	1850.2
META:	0.961

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
72_A	127_L	2.740	1.00
129_S	144_H	2.539	1.00
196_L	200_R	2.456	1.00
71_H	255_A	2.426	1.00
126_I	145_Q	2.424	1.00
110_S	115_V	2.309	1.00
209_K	236_W	2.287	1.00
209_K	213_E	2.274	1.00
15_L	29_I	2.237	1.00
71_H	128_V	2.193	1.00
68_P	247_R	2.176	1.00
63_E	102_A	2.163	1.00
126_I	248_V	2.113	1.00
265_G	269_S	2.087	1.00
19_D	32_R	2.073	1.00
108_H	115_V	2.046	1.00
263_V	266_R	2.032	1.00
146_G	238_A	2.009	1.00
149_A	251_D	1.992	1.00
151_L	232_L	1.952	1.00
108_H	118_E	1.947	1.00
92_L	262_V	1.938	1.00
27_E	39_R	1.898	1.00
128_V	249_P	1.896	1.00
113_G	137_K	1.885	1.00
148_W	175_I	1.880	1.00
11_L	15_L	1.874	1.00
241_R	244_D	1.866	1.00
13_A	49_A	1.852	1.00
69_V	128_V	1.797	1.00
149_A	253_N	1.789	1.00
71_H	254_L	1.783	1.00
72_A	95_Y	1.780	1.00
61_K	104_L	1.772	1.00
96_V	254_L	1.716	1.00
170_E	174_R	1.704	1.00
156_V	159_A	1.700	1.00
194_L	198_Q	1.685	1.00
61_K	106_D	1.681	1.00
14_Y	19_D	1.680	1.00
128_V	145_Q	1.678	1.00
145_Q	248_V	1.676	1.00
60_L	102_A	1.676	1.00
189_S	192_E	1.662	1.00
131_G	235_H	1.646	1.00
185_A	196_L	1.636	1.00
184_E	200_R	1.613	1.00
31_A	36_P	1.602	1.00
19_D	29_I	1.599	1.00
4_Y	45_W	1.598	1.00
131_G	231_Y	1.593	1.00
61_K	65_L	1.592	1.00
24_Y	39_R	1.592	1.00
146_G	235_H	1.590	1.00
168_A	171_A	1.587	1.00
18_A	28_E	1.587	1.00
154_K	157_E	1.541	1.00
236_W	240_L	1.535	1.00
95_Y	119_L	1.533	1.00
76_G	89_K	1.520	1.00
179_Y	251_D	1.516	1.00
59_A	62_E	1.512	1.00
77_V	272_F	1.509	1.00
9_L	45_W	1.509	1.00
21_L	29_I	1.505	1.00
254_L	258_A	1.503	1.00
226_G	230_R	1.491	1.00
155_F	232_L	1.482	1.00
224_K	227_K	1.458	1.00
156_V	160_E	1.450	1.00
126_I	245_D	1.431	1.00
169_A	173_K	1.419	1.00
144_H	238_A	1.413	1.00
23_L	46_V	1.411	1.00
94_V	258_A	1.392	1.00
13_A	46_V	1.390	1.00
54_E	58_E	1.383	1.00
203_P	207_A	1.379	1.00
57_Y	104_L	1.378	1.00
131_G	146_G	1.373	1.00
16_K	26_Q	1.367	1.00
264_L	268_N	1.363	1.00
201_S	205_L	1.361	1.00
113_G	117_E	1.359	1.00
9_L	48_R	1.350	1.00
145_Q	241_R	1.335	1.00
211_W	215_Q	1.328	1.00
181_I	185_A	1.316	1.00
94_V	255_A	1.312	1.00
193_R	197_R	1.302	1.00
67_S	97_T	1.277	1.00
60_L	104_L	1.272	1.00
171_A	211_W	1.269	1.00
12_V	45_W	1.265	1.00
117_E	137_K	1.253	1.00
179_Y	183_R	1.252	1.00
111_R	132_Y	1.238	1.00
197_R	200_R	1.226	1.00
96_V	258_A	1.222	1.00
202_R	206_D	1.220	1.00
272_F	278_A	1.210	1.00
63_E	66_A	1.202	1.00
275_E	279_E	1.195	1.00
159_A	169_A	1.195	1.00
59_A	63_E	1.188	1.00
70_L	123_F	1.187	1.00
41_T	44_N	1.184	1.00
151_L	239_L	1.173	1.00
180_A	183_R	1.172	1.00
106_D	119_L	1.171	1.00
126_I	143_T	1.158	1.00
230_R	234_K	1.157	1.00
112_G	115_V	1.152	1.00
201_S	204_L	1.151	1.00
38_S	41_T	1.148	1.00
54_E	279_E	1.140	1.00
47_G	276_R	1.134	1.00
193_R	196_L	1.132	1.00
56_L	60_L	1.130	1.00
71_H	252_N	1.126	1.00
171_A	208_L	1.117	1.00
71_H	249_P	1.115	1.00
249_P	254_L	1.112	1.00
235_H	238_A	1.104	1.00
27_E	42_L	1.098	1.00
201_S	236_W	1.094	1.00
175_I	179_Y	1.077	1.00
176_R	179_Y	1.076	1.00
182_E	186_R	1.075	1.00
257_R	260_R	1.074	1.00
12_V	30_L	1.071	1.00
94_V	259_I	1.070	1.00
242_F	250_I	1.064	1.00
201_S	242_F	1.059	1.00
74_E	111_R	1.057	1.00
12_V	42_L	1.053	1.00
215_Q	218_R	1.049	1.00
76_G	91_W	1.048	1.00
197_R	201_S	1.047	1.00
22_P	25_R	1.045	1.00
198_Q	202_R	1.040	1.00
207_A	211_W	1.035	1.00
252_N	255_A	1.033	1.00
148_W	205_L	1.030	1.00
29_I	33_L	1.030	1.00
9_L	49_A	1.030	1.00
195_A	199_E	1.028	1.00
171_A	174_R	1.025	1.00
95_Y	106_D	1.021	1.00
74_E	91_W	1.020	1.00
79_V	107_Y	1.019	1.00
212_L	232_L	1.018	1.00
168_A	172_L	1.014	1.00
213_E	236_W	0.998	1.00
74_E	135_Y	0.983	1.00
11_L	29_I	0.983	1.00
196_L	199_E	0.982	1.00
57_Y	61_K	0.980	1.00
212_L	229_I	0.979	1.00
208_L	232_L	0.978	1.00
64_L	70_L	0.972	1.00
23_L	43_A	0.972	1.00
97_T	102_A	0.969	1.00
4_Y	9_L	0.966	1.00
85_G	278_A	0.966	1.00
202_R	243_L	0.965	1.00
133_S	136_D	0.962	1.00
238_A	241_R	0.961	1.00
71_H	96_V	0.958	1.00
180_A	184_E	0.955	1.00
103_V	258_A	0.948	1.00
143_T	241_R	0.948	1.00
20_H	268_N	0.946	1.00
114_E	118_E	0.946	1.00
124_K	141_G	0.944	1.00
136_D	238_A	0.943	1.00
167_E	171_A	0.942	1.00
260_R	263_V	0.941	1.00
192_E	196_L	0.941	1.00
58_E	61_K	0.940	1.00
48_R	52_L	0.939	1.00
182_E	185_A	0.935	1.00
139_A	144_H	0.935	1.00
177_E	204_L	0.931	1.00
11_L	33_L	0.926	1.00
15_L	21_L	0.926	1.00
20_H	25_R	0.925	1.00
6_P	10_A	0.924	1.00
174_R	207_A	0.919	1.00
90_G	109_P	0.915	1.00
131_G	154_K	0.914	1.00
90_G	107_Y	0.913	1.00
143_T	245_D	0.912	1.00
241_R	248_V	0.906	1.00
78_R	87_G	0.905	1.00
15_L	19_D	0.903	1.00
14_Y	18_A	0.897	1.00
267_K	270_L	0.894	1.00
179_Y	182_E	0.894	1.00
114_E	117_E	0.893	1.00
206_D	240_L	0.889	1.00
26_Q	30_L	0.887	1.00
91_W	111_R	0.886	1.00
192_E	195_A	0.886	1.00
181_I	184_E	0.883	1.00
136_D	144_H	0.882	1.00
251_D	257_R	0.881	1.00
205_L	209_K	0.878	1.00
176_R	180_A	0.871	1.00
80_L	87_G	0.870	1.00
64_L	102_A	0.870	1.00
173_K	176_R	0.870	1.00
69_V	249_P	0.868	1.00
192_E	197_R	0.866	1.00
174_R	177_E	0.863	1.00
23_L	42_L	0.861	1.00
200_R	203_P	0.853	1.00
81_D	273_R	0.853	1.00
113_G	134_G	0.852	1.00
149_A	153_R	0.846	1.00
201_S	208_L	0.842	1.00
208_L	211_W	0.839	1.00
154_K	227_K	0.837	1.00
136_D	146_G	0.834	1.00
43_A	47_G	0.830	1.00
168_A	173_K	0.829	1.00
158_A	228_A	0.827	1.00
79_V	90_G	0.824	1.00
95_Y	116_P	0.819	1.00
204_L	207_A	0.815	1.00
254_L	257_R	0.811	1.00
77_V	107_Y	0.809	1.00
216_L	230_R	0.804	1.00
200_R	207_A	0.803	1.00
219_V	226_G	0.802	1.00
132_Y	135_Y	0.802	1.00
41_T	45_W	0.798	1.00
209_K	233_L	0.798	1.00
95_Y	115_V	0.797	1.00
148_W	250_I	0.796	1.00
213_E	233_L	0.796	1.00
167_E	215_Q	0.794	1.00
208_L	212_L	0.794	1.00
17_Y	46_V	0.792	1.00
209_K	240_L	0.788	1.00
205_L	208_L	0.786	1.00
276_R	279_E	0.786	1.00
81_D	84_R	0.782	1.00
241_R	245_D	0.780	1.00
219_V	225_L	0.772	1.00
165_S	168_A	0.766	1.00
190_P	194_L	0.757	1.00
107_Y	275_E	0.757	1.00
11_L	30_L	0.757	1.00
177_E	180_A	0.754	1.00
56_L	59_A	0.749	1.00
223_S	226_G	0.749	1.00
110_S	114_E	0.747	1.00
264_L	267_K	0.744	1.00
18_A	32_R	0.743	1.00
213_E	216_L	0.740	1.00
61_K	119_L	0.740	1.00
223_S	227_K	0.734	1.00
58_E	62_E	0.733	1.00
201_S	207_A	0.732	1.00
193_R	201_S	0.726	1.00
166_P	169_A	0.725	1.00
85_G	90_G	0.723	1.00
104_L	119_L	0.722	1.00
62_E	65_L	0.721	1.00
178_L	243_L	0.721	1.00
77_V	92_L	0.717	1.00
106_D	115_V	0.715	1.00
136_D	235_H	0.705	1.00
237_D	240_L	0.704	1.00
8_L	12_V	0.704	1.00
225_L	228_A	0.703	1.00
109_P	275_E	0.702	1.00
24_Y	27_E	0.692	1.00
194_L	197_R	0.690	1.00
168_A	174_R	0.688	1.00
204_L	208_L	0.688	1.00
161_A	224_K	0.685	1.00
182_E	246_G	0.685	1.00
78_R	89_K	0.684	1.00
50_A	57_Y	0.680	1.00
206_D	209_K	0.680	1.00
11_L	26_Q	0.679	1.00
74_E	132_Y	0.678	1.00
154_K	231_Y	0.677	1.00
183_R	186_R	0.672	1.00
259_I	263_V	0.668	1.00
148_W	239_L	0.668	1.00
4_Y	8_L	0.666	1.00
191_E	194_L	0.664	1.00
181_I	196_L	0.660	1.00
205_L	243_L	0.660	1.00
19_D	25_R	0.659	1.00
152_R	156_V	0.654	1.00
178_L	201_S	0.654	1.00
126_I	241_R	0.653	1.00
186_R	249_P	0.653	1.00
15_L	26_Q	0.652	1.00
274_S	277_G	0.650	1.00
115_V	118_E	0.649	1.00
106_D	118_E	0.649	1.00
156_V	173_K	0.647	1.00
118_E	121_G	0.639	1.00
117_E	138_L	0.638	1.00
175_I	178_L	0.637	1.00
91_W	132_Y	0.636	1.00
70_L	120_L	0.635	1.00
90_G	275_E	0.634	1.00
206_D	210_A	0.632	1.00
190_P	193_R	0.630	1.00
207_A	210_A	0.630	1.00
169_A	172_L	0.628	1.00
131_G	151_L	0.628	1.00
167_E	172_L	0.627	1.00
28_E	32_R	0.626	1.00
16_K	23_L	0.626	1.00
37_L	41_T	0.625	1.00
209_K	212_L	0.620	1.00
215_Q	229_I	0.620	1.00
40_G	43_A	0.619	1.00
8_L	30_L	0.617	1.00
12_V	26_Q	0.615	1.00
174_R	208_L	0.614	1.00
53_L	57_Y	0.613	1.00
157_E	160_E	0.610	1.00
229_I	233_L	0.606	1.00
170_E	173_K	0.603	1.00
174_R	204_L	0.602	1.00
185_A	193_R	0.601	1.00
178_L	181_I	0.599	1.00
200_R	204_L	0.597	1.00
165_S	169_A	0.593	1.00
131_G	136_D	0.592	1.00
69_V	247_R	0.588	1.00
191_E	195_A	0.588	1.00
185_A	188_L	0.588	1.00
112_G	132_Y	0.588	1.00
129_S	146_G	0.587	1.00
156_V	172_L	0.587	1.00
176_R	183_R	0.585	1.00
226_G	229_I	0.581	1.00
107_Y	278_A	0.580	1.00
181_I	201_S	0.577	1.00
232_L	239_L	0.576	1.00
116_P	138_L	0.576	1.00
44_N	48_R	0.574	1.00
62_E	66_A	0.574	1.00
188_L	192_E	0.574	1.00
131_G	239_L	0.573	1.00
194_L	201_S	0.573	1.00
227_K	230_R	0.571	1.00
13_A	17_Y	0.570	1.00
57_Y	60_L	0.566	1.00
16_K	265_G	0.565	1.00
127_L	142_I	0.562	1.00
65_L	122_G	0.562	1.00
210_A	214_E	0.562	1.00
65_L	123_F	0.561	1.00
162_D	167_E	0.560	1.00
85_G	88_K	0.560	1.00
16_K	46_V	0.559	1.00
96_V	255_A	0.559	1.00
167_E	170_E	0.556	1.00
128_V	248_V	0.554	1.00
51_E	54_E	0.554	1.00
222_K	226_G	0.554	1.00
69_V	248_V	0.552	1.00
245_D	248_V	0.551	1.00
77_V	262_V	0.550	1.00
70_L	95_Y	0.549	1.00
4_Y	41_T	0.548	1.00
197_R	208_L	0.548	1.00
193_R	200_R	0.547	1.00
189_S	193_R	0.546	1.00
205_L	244_D	0.546	1.00
235_H	239_L	0.544	1.00
230_R	233_L	0.542	1.00
63_E	67_S	0.541	1.00
96_V	103_V	0.540	1.00
198_Q	201_S	0.539	1.00
159_A	163_P	0.538	1.00
190_P	246_G	0.537	1.00
188_L	196_L	0.531	1.00
216_L	233_L	0.530	1.00
8_L	35_V	0.530	1.00
177_E	207_A	0.529	1.00
111_R	134_G	0.527	1.00
84_R	88_K	0.524	1.00
106_D	279_E	0.524	1.00
148_W	151_L	0.522	1.00
54_E	57_Y	0.517	1.00
197_R	204_L	0.516	1.00
178_L	182_E	0.515	1.00
233_L	236_W	0.513	1.00
24_Y	28_E	0.513	1.00
111_R	135_Y	0.512	1.00
202_R	240_L	0.511	1.00
46_V	50_A	0.510	1.00
134_G	137_K	0.508	1.00
133_S	234_K	0.507	1.00
225_L	229_I	0.506	1.00
149_A	250_I	0.503	1.00
27_E	36_P	0.502	1.00
105_F	259_I	0.501	1.00
116_P	119_L	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
4u7bA	2	0.7714	93.6	0.907	Contact Map
1pdnC	1	0.1643	74.7	0.93	Contact Map
4fcyA	4	0.725	65.7	0.934	Contact Map
1jkoC	1	0.1571	59.2	0.937	Contact Map
2elhA	1	0.2429	56	0.938	Contact Map
2gloA	1	0.1929	55.1	0.938	Contact Map
2k27A	1	0.2607	54.3	0.939	Contact Map
2bw3A	3	0.8821	50.2	0.94	Contact Map
1k78A	1	0.175	49.4	0.94	Contact Map
2x48A	1	0.15	43.7	0.942	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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