TraT - PFAM28P - GREMLIN Contacts

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TraT - Enterobacterial TraT complement resistance protein

PFAM:	PF05818	Sequences: NLDVQTKMSDTIFLDPVAPDKRTVYVQVRNTSDKQEFDLESAIKAALAAKGYRVVDDPDKAHYWLQANVLYVGKAADPTAAEGALAGGYGGALAGAAAGAAAGAANGGSGGGAAGGGLAGGLAGGIADALVKDVTYTMVTDVQISERAGGKVTQDTQANLKQGTSGTSTQTSSEKSNWKKYRTRIVSTANKVNLKFEEAAPVLEEKLARSIAGIF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	215 (214)
Sequences:	756 (582)
Seq/√Len:	39.8
META:	0.804

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
23_T	55_V	4.459	1.00
57_D	60_K	4.324	1.00
116_G	120_G	4.242	1.00
85_L	186_V	3.401	1.00
191_K	198_E	3.253	1.00
124_G	128_D	3.051	1.00
64_W	178_W	3.018	1.00
122_L	126_I	2.830	1.00
18_A	59_D	2.741	1.00
145_S	180_K	2.697	1.00
40_E	44_K	2.691	1.00
187_S	203_L	2.520	1.00
26_V	44_K	2.514	1.00
120_G	124_G	2.351	1.00
95_G	120_G	2.239	1.00
3_D	74_K	2.207	0.99
148_A	152_V	2.186	0.99
24_V	65_L	2.134	0.99
111_G	115_G	2.125	0.99
174_E	179_K	2.087	0.99
45_A	48_A	2.033	0.99
18_A	57_D	2.029	0.99
133_D	190_N	1.999	0.99
122_L	125_G	1.968	0.99
24_V	215_F	1.953	0.99
156_T	166_G	1.932	0.99
17_V	21_K	1.926	0.99
154_Q	170_Q	1.919	0.98
202_V	205_E	1.871	0.98
112_G	115_G	1.855	0.98
166_G	182_R	1.810	0.98
98_A	102_A	1.807	0.98
23_T	60_K	1.804	0.98
21_K	59_D	1.794	0.98
208_A	212_A	1.728	0.97
65_L	215_F	1.694	0.97
187_S	206_K	1.690	0.97
10_D	164_T	1.678	0.96
108_G	112_G	1.675	0.96
63_Y	146_E	1.673	0.96
18_A	21_K	1.644	0.96
127_A	130_L	1.643	0.96
84_A	139_V	1.552	0.94
97_A	103_G	1.546	0.94
148_A	177_N	1.546	0.94
140_T	187_S	1.534	0.94
71_Y	137_T	1.524	0.94
17_V	62_H	1.510	0.94
159_N	169_T	1.502	0.93
31_T	68_N	1.465	0.93
89_Y	130_L	1.424	0.91
211_I	214_I	1.417	0.91
42_A	204_E	1.413	0.91
147_R	178_W	1.407	0.91
206_K	209_R	1.394	0.91
23_T	53_R	1.371	0.90
118_L	122_L	1.367	0.90
88_G	184_R	1.358	0.89
158_A	166_G	1.353	0.89
191_K	194_L	1.347	0.89
22_R	58_P	1.344	0.89
30_N	33_D	1.339	0.89
55_V	60_K	1.327	0.88
116_G	119_A	1.277	0.86
196_F	203_L	1.273	0.86
194_L	199_A	1.263	0.86
71_Y	128_D	1.261	0.86
21_K	62_H	1.252	0.85
110_G	113_A	1.245	0.85
133_D	192_V	1.242	0.85
6_T	210_S	1.228	0.84
19_P	56_D	1.223	0.84
126_I	191_K	1.209	0.83
85_L	89_Y	1.208	0.83
112_G	116_G	1.200	0.83
119_A	123_A	1.196	0.82
47_L	215_F	1.181	0.82
2_L	5_Q	1.173	0.81
150_G	172_S	1.163	0.81
22_R	211_I	1.134	0.79
154_Q	168_S	1.133	0.79
100_A	117_G	1.130	0.79
125_G	129_A	1.123	0.78
77_D	80_A	1.116	0.78
78_P	132_K	1.111	0.77
33_D	206_K	1.111	0.77
71_Y	139_V	1.106	0.77
95_G	116_G	1.104	0.77
113_A	116_G	1.104	0.77
159_N	167_T	1.104	0.77
91_G	102_A	1.086	0.76
44_K	48_A	1.084	0.76
64_W	180_K	1.070	0.75
49_A	197_E	1.068	0.74
158_A	168_S	1.068	0.74
97_A	118_L	1.057	0.74
83_G	136_Y	1.055	0.74
99_G	116_G	1.053	0.73
64_W	145_S	1.029	0.72
78_P	190_N	1.016	0.71
74_K	134_V	1.016	0.71
145_S	178_W	1.011	0.70
97_A	107_G	1.010	0.70
153_T	171_T	1.008	0.70
84_A	153_T	0.998	0.69
143_Q	182_R	0.988	0.69
96_A	100_A	0.986	0.68
114_A	117_G	0.975	0.67
93_L	97_A	0.973	0.67
92_A	124_G	0.967	0.67
39_L	185_I	0.964	0.67
28_V	43_I	0.963	0.67
124_G	138_M	0.962	0.66
34_K	196_F	0.960	0.66
105_A	109_S	0.956	0.66
97_A	102_A	0.939	0.65
9_S	85_L	0.939	0.65
28_V	67_A	0.927	0.64
138_M	187_S	0.915	0.63
124_G	127_A	0.914	0.62
15_D	180_K	0.913	0.62
72_V	213_G	0.906	0.62
166_G	170_Q	0.898	0.61
100_A	113_A	0.897	0.61
134_V	197_E	0.894	0.61
11_T	56_D	0.882	0.60
153_T	175_K	0.882	0.60
17_V	63_Y	0.878	0.59
67_A	140_T	0.877	0.59
142_V	167_T	0.870	0.59
24_V	205_E	0.865	0.58
37_F	166_G	0.865	0.58
8_M	70_L	0.861	0.58
37_F	138_M	0.860	0.58
17_V	57_D	0.860	0.58
82_E	124_G	0.859	0.58
34_K	187_S	0.848	0.57
29_R	140_T	0.847	0.57
54_V	110_G	0.847	0.57
64_W	147_R	0.842	0.56
46_A	205_E	0.838	0.56
15_D	146_E	0.837	0.56
134_V	192_V	0.835	0.55
164_T	182_R	0.825	0.55
135_T	188_T	0.821	0.54
45_A	98_A	0.818	0.54
49_A	98_A	0.818	0.54
80_A	84_A	0.802	0.52
155_D	166_G	0.801	0.52
98_A	101_A	0.801	0.52
151_K	175_K	0.800	0.52
138_M	204_E	0.799	0.52
200_A	204_E	0.799	0.52
12_I	144_I	0.798	0.52
30_N	68_N	0.796	0.52
10_D	161_K	0.793	0.52
154_Q	174_E	0.793	0.52
79_T	82_E	0.792	0.52
143_Q	160_L	0.791	0.51
142_V	211_I	0.789	0.51
27_Q	50_K	0.782	0.51
1_N	4_V	0.776	0.50
143_Q	181_Y	0.774	0.50
43_I	67_A	0.765	0.49
72_V	138_M	0.764	0.49
42_A	208_A	0.764	0.49
27_Q	43_I	0.763	0.49
135_T	190_N	0.760	0.49
192_V	196_F	0.760	0.49
134_V	194_L	0.753	0.48
110_G	114_A	0.749	0.48
24_V	47_L	0.748	0.48
203_L	213_G	0.738	0.47
68_N	181_Y	0.737	0.47
33_D	198_E	0.736	0.46
123_A	126_I	0.733	0.46
40_E	56_D	0.732	0.46
1_N	143_Q	0.731	0.46
52_Y	99_G	0.726	0.46
55_V	99_G	0.724	0.45
153_T	164_T	0.723	0.45
23_T	88_G	0.719	0.45
191_K	199_A	0.718	0.45
196_F	206_K	0.716	0.45
76_A	81_A	0.711	0.44
190_N	193_N	0.711	0.44
91_G	119_A	0.707	0.44
111_G	114_A	0.704	0.44
204_E	214_I	0.699	0.43
131_V	192_V	0.697	0.43
196_F	200_A	0.690	0.42
105_A	156_T	0.685	0.42
93_L	123_A	0.677	0.41
11_T	68_N	0.675	0.41
97_A	100_A	0.675	0.41
43_I	76_A	0.673	0.41
43_I	211_I	0.673	0.41
10_D	39_L	0.672	0.41
152_V	180_K	0.672	0.41
160_L	163_G	0.670	0.40
33_D	66_Q	0.670	0.40
32_S	104_A	0.668	0.40
183_T	189_A	0.666	0.40
140_T	190_N	0.659	0.40
44_K	56_D	0.655	0.39
15_D	36_E	0.654	0.39
14_L	33_D	0.652	0.39
144_I	214_I	0.650	0.39
111_G	117_G	0.648	0.39
127_A	192_V	0.645	0.38
57_D	86_A	0.641	0.38
45_A	49_A	0.641	0.38
25_Y	141_D	0.641	0.38
27_Q	55_V	0.641	0.38
30_N	120_G	0.638	0.38
185_I	210_S	0.637	0.38
17_V	29_R	0.635	0.37
154_Q	179_K	0.635	0.37
53_R	87_G	0.631	0.37
66_Q	143_Q	0.629	0.37
106_N	110_G	0.629	0.37
90_G	102_A	0.626	0.37
137_T	186_V	0.623	0.36
125_G	130_L	0.622	0.36
47_L	144_I	0.622	0.36
119_A	159_N	0.619	0.36
65_L	142_V	0.618	0.36
157_Q	169_T	0.615	0.36
141_D	184_R	0.614	0.36
34_K	138_M	0.610	0.35
26_V	48_A	0.609	0.35
121_G	191_K	0.608	0.35
187_S	196_F	0.606	0.35
150_G	175_K	0.604	0.35
13_F	58_P	0.603	0.35
12_I	31_T	0.602	0.35
22_R	100_A	0.601	0.35
153_T	156_T	0.601	0.35
113_A	170_Q	0.599	0.34
13_F	64_W	0.597	0.34
158_A	165_S	0.597	0.34
89_Y	212_A	0.593	0.34
61_A	199_A	0.593	0.34
154_Q	160_L	0.592	0.34
72_V	196_F	0.589	0.34
194_L	201_P	0.589	0.34
125_G	132_K	0.587	0.33
202_V	212_A	0.585	0.33
90_G	184_R	0.584	0.33
138_M	203_L	0.584	0.33
103_G	111_G	0.584	0.33
93_L	155_D	0.583	0.33
74_K	138_M	0.583	0.33
102_A	119_A	0.581	0.33
37_F	208_A	0.580	0.33
146_E	181_Y	0.580	0.33
42_A	46_A	0.579	0.33
58_P	146_E	0.577	0.33
109_S	144_I	0.575	0.32
179_K	206_K	0.572	0.32
120_G	209_R	0.569	0.32
6_T	9_S	0.568	0.32
154_Q	176_S	0.568	0.32
25_Y	61_A	0.565	0.32
30_N	144_I	0.564	0.32
40_E	142_V	0.563	0.32
22_R	56_D	0.563	0.32
27_Q	182_R	0.560	0.31
42_A	205_E	0.559	0.31
94_A	102_A	0.558	0.31
197_E	200_A	0.557	0.31
123_A	127_A	0.557	0.31
113_A	121_G	0.557	0.31
73_G	206_K	0.555	0.31
96_A	152_V	0.554	0.31
185_I	208_A	0.552	0.31
39_L	208_A	0.552	0.31
11_T	14_L	0.552	0.31
15_D	21_K	0.551	0.31
106_N	112_G	0.550	0.30
48_A	175_K	0.550	0.30
87_G	90_G	0.548	0.30
105_A	114_A	0.545	0.30
103_G	115_G	0.545	0.30
65_L	84_A	0.543	0.30
127_A	131_V	0.542	0.30
41_S	48_A	0.541	0.30
138_M	200_A	0.541	0.30
136_Y	152_V	0.540	0.30
142_V	164_T	0.538	0.30
34_K	72_V	0.537	0.29
152_V	174_E	0.536	0.29
26_V	41_S	0.535	0.29
3_D	16_P	0.530	0.29
137_T	175_K	0.529	0.29
57_D	98_A	0.527	0.29
76_A	135_T	0.527	0.29
53_R	205_E	0.527	0.29
188_T	211_I	0.525	0.29
96_A	123_A	0.523	0.28
83_G	100_A	0.522	0.28
54_V	170_Q	0.521	0.28
162_Q	181_Y	0.520	0.28
59_D	122_L	0.518	0.28
70_L	183_T	0.518	0.28
137_T	188_T	0.517	0.28
6_T	187_S	0.511	0.28
36_E	200_A	0.511	0.28
129_A	183_T	0.511	0.28
63_Y	125_G	0.510	0.27
72_V	187_S	0.509	0.27
81_A	128_D	0.507	0.27
142_V	183_T	0.506	0.27
140_T	207_L	0.506	0.27
18_A	46_A	0.505	0.27
109_S	112_G	0.504	0.27
114_A	120_G	0.503	0.27
118_L	147_R	0.502	0.27
210_S	214_I	0.502	0.27
148_A	151_K	0.502	0.27
171_T	176_S	0.500	0.27

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
4n4rB	1	0.6512	32.7	0.948	Contact Map
2r76A	2	0.5907	22.9	0.952	Contact Map
2lbgA	1	0.1256	21.8	0.952	Contact Map
2jxpA	1	0.6651	20.9	0.953	Contact Map
3bf2A	2	0.5721	15.1	0.956	Contact Map
2m5yA	1	0.507	12.2	0.957	Contact Map
2b0hA	1	0.2372	10	0.959	Contact Map
3ldtA	2	0.4047	7.9	0.961	Contact Map
2kvpA	1	0.3674	7.4	0.961	Contact Map
1h3lA	1	0.2465	6.1	0.963	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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