Transposase_21 - PFAM28P - GREMLIN Contacts

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Transposase_21 - Transposase family tnp2

PFAM:	PF02992	Sequences: HMRWHAEGRKKDGKLRHPADGEAWKHFDRKYPDFAAEPRNVRLGLATDGFNPFGNMSSSYSTWPVILVPYNLPPWLCMKRENIMLSLLIPGPKQPGNDIDVYLQPLIDELKELWEEGVETYDASTKENFTLRAALLWTINDFPAYGNLSGWSTKGKLACPVCMKDTDSFWLKHGRKTCYMGHRRFLPPNHPYRRDKKAFDGKVEHRPAPRPLSGEEILEQLKDI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	224 (221)
Sequences:	882 (629)
Seq/√Len:	42.3
META:	0.501

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
3_R	7_E	5.637	1.00
142_F	160_P	4.994	1.00
2_M	41_V	4.309	1.00
140_N	144_A	3.838	1.00
195_D	198_A	3.790	1.00
33_D	132_R	3.755	1.00
44_G	70_Y	3.597	1.00
110_L	135_L	3.370	1.00
43_L	133_A	3.336	1.00
213_S	216_E	3.308	1.00
9_R	19_A	3.230	1.00
94_Q	147_N	3.194	1.00
66_I	83_I	2.994	1.00
120_T	131_L	2.716	1.00
156_K	177_T	2.706	1.00
112_E	116_E	2.269	1.00
109_E	112_E	2.239	1.00
170_W	177_T	2.236	1.00
219_E	222_K	2.201	1.00
142_F	145_Y	2.148	0.99
216_E	219_E	2.136	0.99
170_W	175_R	1.973	0.99
201_G	204_E	1.959	0.99
45_L	67_L	1.920	0.99
27_F	136_L	1.915	0.99
218_L	221_L	1.888	0.99
145_Y	160_P	1.885	0.99
28_D	42_R	1.883	0.99
15_L	21_G	1.859	0.98
41_V	109_E	1.854	0.98
27_F	31_Y	1.849	0.98
41_V	151_W	1.805	0.98
27_F	134_A	1.743	0.98
119_E	130_T	1.734	0.98
22_E	29_R	1.734	0.98
151_W	163_M	1.730	0.98
107_I	148_L	1.666	0.97
119_E	128_N	1.649	0.97
203_V	206_R	1.630	0.97
3_R	124_S	1.616	0.96
140_N	148_L	1.591	0.96
212_L	220_Q	1.566	0.96
200_D	204_E	1.551	0.95
2_M	151_W	1.534	0.95
6_A	38_P	1.520	0.95
146_G	153_T	1.502	0.94
45_L	138_T	1.457	0.93
21_G	27_F	1.457	0.93
76_L	94_Q	1.453	0.93
186_L	190_H	1.444	0.93
164_K	220_Q	1.427	0.93
210_R	216_E	1.409	0.92
91_G	95_P	1.376	0.91
208_A	211_P	1.376	0.91
187_P	190_H	1.366	0.91
51_N	56_M	1.350	0.91
51_N	54_G	1.343	0.90
103_L	148_L	1.335	0.90
188_P	207_P	1.314	0.89
103_L	135_L	1.313	0.89
88_L	192_Y	1.281	0.88
75_W	79_K	1.272	0.88
135_L	138_T	1.260	0.87
55_N	58_S	1.235	0.86
68_V	82_N	1.202	0.85
187_P	191_P	1.201	0.85
88_L	92_P	1.196	0.84
2_M	69_P	1.188	0.84
202_K	205_H	1.182	0.84
41_V	69_P	1.177	0.83
25_K	174_G	1.171	0.83
41_V	131_L	1.166	0.83
208_A	216_E	1.145	0.82
212_L	216_E	1.142	0.81
26_H	58_S	1.138	0.81
46_A	50_F	1.133	0.81
7_E	198_A	1.132	0.81
60_Y	90_P	1.125	0.80
147_N	154_K	1.117	0.80
52_P	114_W	1.113	0.80
181_G	184_R	1.107	0.79
8_G	14_K	1.094	0.79
181_G	206_R	1.093	0.78
207_P	210_R	1.088	0.78
21_G	137_W	1.079	0.78
174_G	178_C	1.076	0.77
28_D	59_S	1.073	0.77
218_L	222_K	1.054	0.76
2_M	27_F	1.049	0.76
51_N	57_S	1.044	0.75
215_E	218_L	1.030	0.74
90_P	105_P	1.017	0.73
207_P	211_P	1.016	0.73
65_V	70_Y	1.015	0.73
121_Y	171_L	1.006	0.72
12_D	16_R	1.006	0.72
64_P	159_C	1.005	0.72
189_N	194_R	1.004	0.72
50_F	134_A	1.000	0.72
109_E	161_V	0.995	0.72
43_L	142_F	0.994	0.71
56_M	59_S	0.993	0.71
13_G	21_G	0.986	0.71
191_P	222_K	0.985	0.71
212_L	215_E	0.977	0.70
81_E	94_Q	0.977	0.70
49_G	63_W	0.970	0.70
186_L	193_R	0.963	0.69
10_K	19_A	0.962	0.69
37_E	131_L	0.946	0.68
169_F	200_D	0.937	0.67
34_F	40_N	0.922	0.66
98_D	154_K	0.921	0.66
186_L	199_F	0.919	0.65
181_G	200_D	0.914	0.65
201_G	205_H	0.913	0.65
8_G	11_K	0.906	0.64
163_M	211_P	0.903	0.64
176_K	186_L	0.902	0.64
8_G	19_A	0.899	0.64
47_T	140_N	0.899	0.64
91_G	133_A	0.891	0.63
73_P	183_R	0.890	0.63
15_L	58_S	0.888	0.63
178_C	181_G	0.881	0.62
50_F	60_Y	0.879	0.62
198_A	220_Q	0.878	0.62
112_E	118_V	0.876	0.62
211_P	216_E	0.876	0.62
50_F	90_P	0.873	0.61
167_D	206_R	0.870	0.61
40_N	114_W	0.868	0.61
50_F	69_P	0.866	0.61
206_R	214_G	0.864	0.61
82_N	88_L	0.862	0.60
81_E	84_M	0.850	0.59
11_K	14_K	0.848	0.59
62_T	98_D	0.848	0.59
203_V	208_A	0.845	0.59
121_Y	124_S	0.843	0.59
215_E	221_L	0.840	0.58
167_D	217_I	0.840	0.58
6_A	11_K	0.836	0.58
82_N	89_I	0.835	0.58
104_Q	111_K	0.835	0.58
7_E	124_S	0.834	0.58
15_L	112_E	0.832	0.58
131_L	151_W	0.832	0.58
28_D	89_I	0.819	0.56
38_P	113_L	0.810	0.56
154_K	179_Y	0.805	0.55
14_K	187_P	0.800	0.55
50_F	120_T	0.800	0.55
52_P	105_P	0.787	0.53
197_K	201_G	0.786	0.53
3_R	6_A	0.786	0.53
43_L	137_W	0.780	0.53
215_E	220_Q	0.776	0.52
163_M	220_Q	0.774	0.52
142_F	147_N	0.773	0.52
122_D	129_F	0.762	0.51
174_G	195_D	0.762	0.51
15_L	181_G	0.752	0.50
215_E	219_E	0.748	0.50
188_P	203_V	0.745	0.50
174_G	182_H	0.742	0.49
56_M	157_L	0.741	0.49
123_A	179_Y	0.737	0.49
116_E	188_P	0.732	0.48
140_N	152_S	0.732	0.48
3_R	125_T	0.731	0.48
69_P	84_M	0.730	0.48
12_D	30_K	0.726	0.48
92_P	95_P	0.726	0.48
21_G	147_N	0.725	0.48
169_F	177_T	0.722	0.47
102_Y	105_P	0.720	0.47
190_H	199_F	0.715	0.47
184_R	206_R	0.715	0.47
99_I	103_L	0.712	0.46
20_D	162_C	0.711	0.46
217_I	220_Q	0.709	0.46
212_L	221_L	0.708	0.46
54_G	178_C	0.706	0.46
184_R	189_N	0.706	0.46
104_Q	158_A	0.706	0.46
189_N	195_D	0.704	0.46
60_Y	92_P	0.702	0.45
156_K	170_W	0.700	0.45
203_V	222_K	0.700	0.45
75_W	98_D	0.699	0.45
205_H	210_R	0.697	0.45
196_K	206_R	0.697	0.45
207_P	219_E	0.694	0.45
60_Y	71_N	0.693	0.45
216_E	222_K	0.685	0.44
47_T	54_G	0.684	0.44
141_D	159_C	0.683	0.44
128_N	156_K	0.682	0.44
10_K	115_E	0.679	0.43
165_D	210_R	0.677	0.43
135_L	175_R	0.674	0.43
10_K	208_A	0.671	0.43
48_D	91_G	0.665	0.42
201_G	206_R	0.662	0.42
44_G	68_V	0.661	0.42
10_K	14_K	0.652	0.41
183_R	193_R	0.650	0.41
191_P	196_K	0.649	0.41
113_L	133_A	0.646	0.40
36_A	131_L	0.645	0.40
44_G	78_M	0.643	0.40
109_E	151_W	0.641	0.40
19_A	84_M	0.641	0.40
114_W	145_Y	0.640	0.40
184_R	209_P	0.640	0.40
117_G	141_D	0.639	0.40
189_N	215_E	0.638	0.40
205_H	217_I	0.636	0.39
100_D	139_I	0.634	0.39
58_S	136_L	0.634	0.39
125_T	132_R	0.632	0.39
143_P	148_L	0.632	0.39
44_G	104_Q	0.628	0.39
145_Y	161_V	0.627	0.39
168_S	180_M	0.626	0.38
30_K	107_I	0.625	0.38
22_E	26_H	0.623	0.38
183_R	186_L	0.622	0.38
9_R	16_R	0.621	0.38
205_H	219_E	0.618	0.38
34_F	113_L	0.618	0.38
41_V	45_L	0.617	0.38
50_F	157_L	0.616	0.38
157_L	164_K	0.615	0.38
83_I	189_N	0.615	0.38
53_F	191_P	0.615	0.38
83_I	168_S	0.614	0.37
32_P	172_K	0.612	0.37
197_K	211_P	0.611	0.37
33_D	36_A	0.610	0.37
98_D	102_Y	0.605	0.37
62_T	170_W	0.603	0.36
191_P	197_K	0.602	0.36
171_L	176_K	0.602	0.36
106_L	133_A	0.599	0.36
3_R	8_G	0.596	0.36
21_G	136_L	0.595	0.36
207_P	214_G	0.594	0.36
82_N	90_P	0.593	0.36
210_R	221_L	0.588	0.35
196_K	219_E	0.586	0.35
50_F	178_C	0.584	0.35
129_F	133_A	0.583	0.35
9_R	15_L	0.581	0.35
214_G	218_L	0.581	0.35
23_A	151_W	0.580	0.34
63_W	66_I	0.579	0.34
215_E	222_K	0.578	0.34
85_L	161_V	0.578	0.34
141_D	173_H	0.576	0.34
144_A	152_S	0.575	0.34
5_H	18_P	0.570	0.34
101_V	183_R	0.568	0.33
46_A	68_V	0.565	0.33
140_N	147_N	0.564	0.33
85_L	175_R	0.563	0.33
99_I	135_L	0.559	0.33
53_F	88_L	0.559	0.33
81_E	153_T	0.558	0.33
57_S	221_L	0.556	0.32
26_H	30_K	0.556	0.32
85_L	88_L	0.552	0.32
66_I	140_N	0.551	0.32
132_R	136_L	0.549	0.32
23_A	26_H	0.548	0.32
152_S	184_R	0.544	0.31
95_P	144_A	0.544	0.31
87_L	145_Y	0.544	0.31
45_L	110_L	0.543	0.31
54_G	59_S	0.538	0.31
45_L	103_L	0.538	0.31
170_W	173_H	0.537	0.31
142_F	161_V	0.537	0.31
66_I	173_H	0.536	0.31
27_F	149_S	0.536	0.31
194_R	205_H	0.535	0.31
62_T	163_M	0.535	0.31
75_W	81_E	0.535	0.31
68_V	84_M	0.534	0.31
96_G	179_Y	0.533	0.31
3_R	15_L	0.533	0.31
48_D	141_D	0.532	0.31
141_D	162_C	0.531	0.30
210_R	220_Q	0.531	0.30
93_K	115_E	0.530	0.30
188_P	210_R	0.529	0.30
100_D	148_L	0.528	0.30
144_A	147_N	0.528	0.30
170_W	220_Q	0.528	0.30
127_E	217_I	0.528	0.30
84_M	154_K	0.527	0.30
177_T	195_D	0.526	0.30
147_N	152_S	0.526	0.30
22_E	221_L	0.525	0.30
46_A	133_A	0.525	0.30
100_D	122_D	0.525	0.30
43_L	67_L	0.525	0.30
6_A	90_P	0.524	0.30
194_R	208_A	0.522	0.30
138_T	148_L	0.522	0.30
179_Y	204_E	0.521	0.30
217_I	221_L	0.516	0.29
188_P	202_K	0.516	0.29
139_I	185_F	0.515	0.29
49_G	122_D	0.515	0.29
26_H	221_L	0.513	0.29
43_L	110_L	0.513	0.29
98_D	177_T	0.512	0.29
81_E	90_P	0.510	0.29
26_H	29_R	0.508	0.29
90_P	121_Y	0.508	0.29
153_T	174_G	0.508	0.29
54_G	205_H	0.508	0.29
24_W	40_N	0.507	0.29
194_R	197_K	0.506	0.28
36_A	98_D	0.504	0.28
104_Q	108_D	0.501	0.28
207_P	216_E	0.501	0.28
78_M	217_I	0.500	0.28
44_G	110_L	0.500	0.28
92_P	143_P	0.500	0.28

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
2nlvA	2	0.2634	14.2	0.964	Contact Map
3d7qA	2	0.2634	14	0.964	Contact Map
2nwvA	2	0.2634	14	0.964	Contact Map
2nvmA	2	0.2634	10.5	0.966	Contact Map
4opxA	1	0.3393	5.1	0.97	Contact Map
1uw0A	1	0.3527	5	0.97	Contact Map
2l08A	1	0.1473	4.3	0.971	Contact Map
2czvC	2	0.4464	4.3	0.971	Contact Map
3c8fA	1	0.4196	3.8	0.972	Contact Map
4yj0A	2	0.2857	3.5	0.972	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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