YihI - PFAM28P - GREMLIN Contacts

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YihI - Der GTPase activator (YihI)

PFAM:	PF04220	Sequences: KAAPKGKRKTREELDQEARERKRKKKHKGLKAGSRNSEASKKKKQNGQKQKKDPRIGSKKPIPLVVEAKKKPKKKKKKKKKPKKPRLSPEQELAMLENDERLDALLDRLENGETLSAEDQKYVDEKLDRIDELMEQLGIEDEEEEEESEDDLLRLF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	156 (152)
Sequences:	560 (352)
Seq/√Len:	28.6
META:	0.368

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
108_R	113_E	4.856	1.00
92_E	129_R	4.246	1.00
130_I	134_M	3.723	1.00
96_L	130_I	3.060	1.00
152_L	156_F	2.662	1.00
135_E	139_I	2.644	1.00
99_D	122_Y	2.467	0.99
124_D	127_L	2.337	0.99
84_K	89_P	2.232	0.98
101_R	119_D	2.128	0.98
127_L	130_I	2.089	0.97
120_Q	124_D	2.065	0.97
18_A	21_R	2.061	0.97
148_S	152_L	2.042	0.97
52_K	56_I	2.026	0.97
103_D	106_L	1.983	0.96
122_Y	152_L	1.929	0.96
17_E	21_R	1.928	0.96
134_M	139_I	1.909	0.95
109_L	123_V	1.870	0.95
153_L	156_F	1.841	0.94
120_Q	127_L	1.733	0.92
90_E	94_A	1.697	0.92
148_S	153_L	1.660	0.91
8_R	12_E	1.616	0.90
8_R	20_E	1.601	0.89
120_Q	123_V	1.588	0.89
71_K	74_K	1.573	0.88
89_P	129_R	1.488	0.85
70_K	74_K	1.470	0.84
152_L	155_L	1.463	0.84
89_P	92_E	1.438	0.83
10_T	14_L	1.429	0.83
117_A	121_K	1.352	0.79
21_R	24_K	1.351	0.79
61_P	108_R	1.343	0.79
15_D	27_H	1.343	0.79
116_S	119_D	1.306	0.77
132_E	142_E	1.301	0.76
149_E	152_L	1.297	0.76
6_G	31_K	1.279	0.75
79_K	82_P	1.262	0.74
100_E	119_D	1.246	0.73
89_P	131_D	1.205	0.71
43_K	142_E	1.178	0.69
11_R	14_L	1.173	0.68
76_K	82_P	1.170	0.68
75_K	78_K	1.161	0.68
148_S	154_R	1.151	0.67
123_V	127_L	1.144	0.66
23_R	27_H	1.142	0.66
38_E	149_E	1.140	0.66
47_G	69_K	1.132	0.66
19_R	134_M	1.131	0.66
59_K	124_D	1.117	0.65
149_E	153_L	1.114	0.64
31_K	122_Y	1.111	0.64
96_L	109_L	1.109	0.64
109_L	120_Q	1.106	0.64
103_D	156_F	1.105	0.64
89_P	105_L	1.103	0.64
24_K	27_H	1.083	0.62
77_K	81_K	1.083	0.62
128_D	134_M	1.082	0.62
27_H	30_L	1.077	0.62
65_V	68_A	1.072	0.61
117_A	120_Q	1.071	0.61
109_L	122_Y	1.067	0.61
25_K	118_E	1.066	0.61
100_E	104_A	1.061	0.60
9_K	17_E	1.051	0.60
110_E	123_V	1.040	0.59
39_A	153_L	1.025	0.58
6_G	30_L	1.020	0.57
19_R	30_L	1.017	0.57
94_A	111_N	1.013	0.57
135_E	140_E	1.009	0.57
88_S	150_D	1.005	0.56
103_D	110_E	0.998	0.56
116_S	122_Y	0.990	0.55
97_E	106_L	0.975	0.54
24_K	110_E	0.971	0.54
11_R	15_D	0.961	0.53
105_L	134_M	0.960	0.53
39_A	44_K	0.959	0.53
29_G	33_G	0.957	0.53
9_K	14_L	0.954	0.52
105_L	120_Q	0.953	0.52
65_V	71_K	0.949	0.52
39_A	94_A	0.945	0.52
32_A	42_K	0.937	0.51
9_K	12_E	0.929	0.50
95_M	126_K	0.921	0.50
109_L	139_I	0.915	0.49
133_L	138_G	0.914	0.49
30_L	101_R	0.902	0.48
19_R	25_K	0.901	0.48
129_R	132_E	0.891	0.47
78_K	82_P	0.886	0.47
10_T	13_E	0.886	0.47
12_E	15_D	0.883	0.47
99_D	108_R	0.876	0.46
50_Q	107_D	0.873	0.46
59_K	62_I	0.872	0.46
36_N	119_D	0.870	0.46
87_L	110_E	0.867	0.46
109_L	134_M	0.866	0.46
75_K	80_K	0.864	0.45
16_Q	62_I	0.861	0.45
101_R	122_Y	0.860	0.45
8_R	122_Y	0.860	0.45
46_N	117_A	0.859	0.45
15_D	123_V	0.852	0.44
43_K	46_N	0.832	0.43
36_N	107_D	0.831	0.43
94_A	98_N	0.831	0.43
34_S	84_K	0.824	0.42
75_K	94_A	0.820	0.42
35_R	137_L	0.815	0.42
92_E	98_N	0.814	0.42
32_A	41_K	0.810	0.41
96_L	131_D	0.809	0.41
44_K	146_E	0.801	0.41
101_R	118_E	0.794	0.40
36_N	39_A	0.786	0.39
108_R	119_D	0.780	0.39
107_D	153_L	0.778	0.39
150_D	156_F	0.772	0.38
126_K	139_I	0.769	0.38
49_K	69_K	0.761	0.38
36_N	152_L	0.761	0.38
111_N	132_E	0.753	0.37
8_R	68_A	0.750	0.37
107_D	135_E	0.731	0.35
78_K	81_K	0.728	0.35
101_R	126_K	0.728	0.35
107_D	113_E	0.725	0.35
45_Q	67_E	0.721	0.35
44_K	48_Q	0.705	0.34
76_K	83_K	0.702	0.33
89_P	136_Q	0.699	0.33
5_K	131_D	0.697	0.33
75_K	81_K	0.697	0.33
43_K	104_A	0.697	0.33
76_K	79_K	0.696	0.33
143_E	147_E	0.695	0.33
7_K	18_A	0.694	0.33
12_E	131_D	0.693	0.33
15_D	131_D	0.692	0.33
10_T	16_Q	0.689	0.33
51_K	111_N	0.689	0.33
36_N	96_L	0.687	0.32
14_L	18_A	0.681	0.32
19_R	109_L	0.681	0.32
10_T	15_D	0.679	0.32
39_A	145_E	0.675	0.32
19_R	106_L	0.670	0.31
63_P	66_V	0.668	0.31
23_R	127_L	0.664	0.31
68_A	72_P	0.658	0.30
75_K	83_K	0.657	0.30
136_Q	142_E	0.655	0.30
111_N	135_E	0.654	0.30
129_R	137_L	0.654	0.30
121_K	124_D	0.649	0.30
37_S	118_E	0.646	0.30
22_K	136_Q	0.646	0.30
28_K	98_N	0.641	0.29
89_P	98_N	0.640	0.29
8_R	13_E	0.639	0.29
17_E	22_K	0.632	0.29
18_A	151_D	0.617	0.28
88_S	91_Q	0.616	0.28
87_L	141_D	0.616	0.28
44_K	79_K	0.615	0.28
71_K	82_P	0.615	0.28
128_D	136_Q	0.610	0.27
14_L	140_E	0.610	0.27
95_M	141_D	0.609	0.27
148_S	156_F	0.609	0.27
7_K	154_R	0.603	0.27
25_K	130_I	0.600	0.27
26_K	62_I	0.595	0.27
47_G	148_S	0.594	0.26
131_D	134_M	0.594	0.26
15_D	130_I	0.591	0.26
67_E	72_P	0.589	0.26
48_Q	72_P	0.588	0.26
15_D	18_A	0.588	0.26
73_K	78_K	0.586	0.26
24_K	95_M	0.586	0.26
134_M	138_G	0.586	0.26
110_E	127_L	0.584	0.26
120_Q	134_M	0.581	0.26
34_S	39_A	0.576	0.25
87_L	95_M	0.575	0.25
128_D	132_E	0.573	0.25
105_L	133_L	0.566	0.25
103_D	134_M	0.565	0.25
141_D	148_S	0.560	0.24
9_K	61_P	0.558	0.24
69_K	94_A	0.558	0.24
28_K	150_D	0.557	0.24
42_K	52_K	0.556	0.24
45_Q	144_E	0.555	0.24
58_S	134_M	0.549	0.24
7_K	83_K	0.546	0.24
50_Q	82_P	0.544	0.24
45_Q	142_E	0.544	0.24
5_K	28_K	0.541	0.23
77_K	85_P	0.540	0.23
62_I	73_K	0.540	0.23
37_S	153_L	0.534	0.23
99_D	155_L	0.533	0.23
107_D	125_E	0.531	0.23
13_E	23_R	0.529	0.23
18_A	24_K	0.528	0.23
6_G	52_K	0.525	0.23
18_A	22_K	0.519	0.22
101_R	109_L	0.517	0.22
22_K	103_D	0.516	0.22
90_E	131_D	0.512	0.22
83_K	125_E	0.511	0.22
37_S	58_S	0.509	0.22
88_S	155_L	0.508	0.22
62_I	101_R	0.507	0.22
20_E	142_E	0.500	0.21
107_D	119_D	0.500	0.21

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
2k0mA	1	0.5	36.3	0.933	Contact Map
8tfvA	1	0.1346	19	0.942	Contact Map
1vp7A	2	0.4487	16.8	0.943	Contact Map
4gczA	2	0.4038	16.6	0.943	Contact Map
3zrgA	2	0.2885	14.8	0.944	Contact Map
5amrA	1	0.3718	11.9	0.947	Contact Map
2xi5A	5	0.3782	11.5	0.947	Contact Map
4j7qA	2	0.3974	9.2	0.949	Contact Map
4l6yA	2	0.3013	5.3	0.955	Contact Map
2nqbC	2	0.641	5.1	0.955	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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