YqcI_YcgG - PFAM28P - GREMLIN Contacts

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YqcI_YcgG - YqcI/YcgG family

PFAM:	PF08892	Sequences: AYEEFRAFILDPDFPCVGAKSALARGQLRYGFYDDLGSPADDLRLARDLLEFVDEYRADPGLFTSLVAFFEPPEEDLSEEEFERLLWQRLQSLHDLDAEPWDPRVSSDPDDPHFSFSFGGEAFFVVGLHPAHASRKARRFPYPALVFNPHDQFERLRGETGRYERMREKIRERDEALDQGSINPMLADFGEASNREARQYSGRDVDEDPWKCPFH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	215 (206)
Sequences:	1666 (1250)
Seq/√Len:	87.1
META:	0.639

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
91_Q	95_D	6.324	1.00
33_Y	48_D	4.356	1.00
125_V	145_L	4.037	1.00
53_V	123_F	3.866	1.00
34_D	71_E	3.615	1.00
78_S	81_E	3.598	1.00
15_P	174_D	3.268	1.00
42_D	89_R	3.254	1.00
136_K	179_Q	2.778	1.00
31_G	48_D	2.596	1.00
29_R	55_E	2.591	1.00
155_R	160_T	2.521	1.00
46_A	118_F	2.477	1.00
31_G	66_L	2.474	1.00
171_R	182_I	2.211	1.00
106_S	111_D	2.199	1.00
45_L	68_A	2.081	1.00
50_L	119_G	2.079	1.00
164_E	167_R	2.057	1.00
93_L	118_F	2.054	1.00
91_Q	94_H	2.030	1.00
57_R	121_E	1.950	1.00
83_E	203_R	1.935	1.00
196_E	200_Y	1.915	1.00
105_V	115_S	1.901	1.00
86_L	90_L	1.895	1.00
30_Y	69_F	1.883	1.00
42_D	93_L	1.846	1.00
69_F	144_A	1.823	1.00
53_V	119_G	1.820	1.00
6_R	10_L	1.763	1.00
94_H	101_W	1.762	1.00
136_K	177_L	1.753	1.00
190_G	199_Q	1.677	1.00
33_Y	68_A	1.660	1.00
43_L	96_L	1.650	1.00
33_Y	45_L	1.643	1.00
4_E	141_P	1.636	1.00
185_M	198_R	1.601	1.00
104_R	121_E	1.599	1.00
115_S	196_E	1.584	1.00
211_K	215_H	1.572	1.00
175_E	182_I	1.514	1.00
5_F	69_F	1.514	1.00
38_S	41_D	1.496	1.00
102_D	122_A	1.486	0.99
193_S	197_A	1.469	0.99
22_A	28_L	1.464	0.99
165_R	169_K	1.412	0.99
41_D	44_R	1.372	0.99
140_F	144_A	1.350	0.99
50_L	98_A	1.344	0.99
49_L	147_F	1.343	0.99
46_A	50_L	1.319	0.99
147_F	153_F	1.300	0.99
36_L	85_L	1.298	0.99
40_A	99_E	1.296	0.99
212_C	215_H	1.279	0.98
45_L	93_L	1.277	0.98
30_Y	67_V	1.269	0.98
67_V	144_A	1.265	0.98
102_D	105_V	1.255	0.98
15_P	137_A	1.251	0.98
3_E	7_A	1.250	0.98
118_F	149_P	1.242	0.98
69_F	142_Y	1.213	0.98
5_F	9_I	1.209	0.98
49_L	118_F	1.205	0.98
92_S	96_L	1.181	0.97
79_E	134_S	1.153	0.97
48_D	66_L	1.150	0.97
45_L	89_R	1.137	0.97
60_P	64_T	1.132	0.97
115_S	154_E	1.095	0.96
171_R	175_E	1.080	0.96
94_H	214_F	1.075	0.95
189_F	196_E	1.071	0.95
18_G	166_M	1.067	0.95
105_V	117_S	1.064	0.95
165_R	168_E	1.058	0.95
9_I	13_D	1.058	0.95
81_E	85_L	1.055	0.95
150_H	157_R	1.047	0.95
88_Q	92_S	1.040	0.95
89_R	92_S	1.020	0.94
3_E	6_R	1.012	0.94
190_G	193_S	0.995	0.93
42_D	92_S	0.994	0.93
202_G	210_W	0.993	0.93
101_W	214_F	0.990	0.93
32_F	69_F	0.989	0.93
56_Y	149_P	0.989	0.93
6_R	23_L	0.983	0.93
190_G	196_E	0.983	0.93
96_L	118_F	0.982	0.93
42_D	45_L	0.977	0.93
150_H	190_G	0.974	0.92
180_G	183_N	0.974	0.92
208_D	211_K	0.973	0.92
8_F	14_F	0.965	0.92
33_Y	66_L	0.961	0.92
171_R	188_D	0.957	0.92
175_E	181_S	0.956	0.92
174_D	180_G	0.949	0.91
14_F	18_G	0.943	0.91
188_D	191_E	0.937	0.91
90_L	125_V	0.936	0.91
149_P	167_R	0.932	0.91
44_R	47_R	0.931	0.91
54_D	119_G	0.928	0.91
70_F	145_L	0.923	0.90
28_L	67_V	0.921	0.90
54_D	211_K	0.918	0.90
4_E	11_D	0.918	0.90
109_P	183_N	0.915	0.90
6_R	30_Y	0.915	0.90
37_G	85_L	0.914	0.90
150_H	200_Y	0.911	0.90
56_Y	121_E	0.907	0.89
198_R	205_V	0.898	0.89
167_R	188_D	0.897	0.89
23_L	28_L	0.894	0.89
10_L	23_L	0.893	0.89
18_G	23_L	0.893	0.89
77_L	131_A	0.890	0.89
90_L	116_F	0.880	0.88
73_P	85_L	0.878	0.88
65_S	147_F	0.874	0.88
82_F	129_H	0.874	0.88
29_R	66_L	0.871	0.87
51_E	78_S	0.861	0.87
126_V	147_F	0.860	0.87
137_A	146_V	0.854	0.86
47_R	51_E	0.853	0.86
183_N	202_G	0.852	0.86
5_F	67_V	0.851	0.86
84_R	107_S	0.842	0.86
106_S	113_H	0.835	0.85
126_V	152_Q	0.831	0.85
72_P	76_D	0.829	0.85
196_E	199_Q	0.829	0.85
35_D	42_D	0.821	0.84
39_P	92_S	0.816	0.84
129_H	201_S	0.815	0.84
187_A	191_E	0.809	0.83
169_K	172_E	0.803	0.83
5_F	155_R	0.801	0.83
4_E	8_F	0.801	0.83
126_V	146_V	0.800	0.83
96_L	99_E	0.795	0.82
46_A	96_L	0.794	0.82
153_F	199_Q	0.792	0.82
40_A	96_L	0.789	0.82
37_G	72_P	0.781	0.81
84_R	100_P	0.779	0.81
79_E	129_H	0.778	0.81
152_Q	174_D	0.774	0.81
105_V	122_A	0.773	0.80
115_S	186_L	0.756	0.79
23_L	30_Y	0.746	0.78
162_R	169_K	0.743	0.78
37_G	89_R	0.742	0.78
121_E	149_P	0.740	0.77
15_P	19_A	0.740	0.77
67_V	146_V	0.736	0.77
123_F	149_P	0.736	0.77
90_L	101_W	0.733	0.77
124_F	130_P	0.731	0.77
141_P	144_A	0.730	0.77
65_S	122_A	0.730	0.77
77_L	85_L	0.728	0.76
182_I	185_M	0.727	0.76
82_F	127_G	0.724	0.76
148_N	152_Q	0.723	0.76
87_W	97_D	0.722	0.76
46_A	64_T	0.721	0.76
18_G	124_F	0.716	0.75
137_A	174_D	0.714	0.75
63_F	102_D	0.713	0.75
183_N	201_S	0.711	0.75
14_F	149_P	0.704	0.74
49_L	66_L	0.703	0.74
192_A	198_R	0.702	0.74
86_L	127_G	0.701	0.74
52_F	66_L	0.700	0.73
7_A	10_L	0.698	0.73
33_Y	70_F	0.697	0.73
94_H	116_F	0.696	0.73
129_H	134_S	0.683	0.72
16_C	19_A	0.683	0.72
133_A	180_G	0.673	0.71
48_D	68_A	0.673	0.71
43_L	99_E	0.669	0.70
83_E	210_W	0.662	0.69
83_E	129_H	0.658	0.69
79_E	201_S	0.657	0.69
128_L	146_V	0.649	0.68
100_P	120_G	0.645	0.67
150_H	189_F	0.638	0.66
95_D	214_F	0.636	0.66
28_L	212_C	0.631	0.66
105_V	190_G	0.631	0.66
70_F	143_P	0.627	0.65
109_P	197_A	0.626	0.65
148_N	153_F	0.626	0.65
108_D	111_D	0.624	0.65
24_A	166_M	0.623	0.65
39_P	43_L	0.622	0.65
130_P	167_R	0.622	0.65
7_A	110_D	0.620	0.64
19_A	147_F	0.619	0.64
73_P	107_S	0.618	0.64
65_S	126_V	0.617	0.64
77_L	81_E	0.617	0.64
117_S	200_Y	0.617	0.64
129_H	203_R	0.616	0.64
83_E	166_M	0.615	0.64
27_Q	192_A	0.615	0.64
148_N	156_L	0.614	0.64
189_F	199_Q	0.614	0.64
29_R	145_L	0.612	0.63
51_E	208_D	0.611	0.63
8_F	140_F	0.611	0.63
43_L	47_R	0.610	0.63
14_F	22_A	0.609	0.63
137_A	177_L	0.608	0.63
38_S	42_D	0.607	0.63
91_Q	214_F	0.604	0.62
18_G	21_S	0.603	0.62
128_L	183_N	0.602	0.62
177_L	181_S	0.600	0.62
166_M	170_I	0.599	0.62
31_G	44_R	0.599	0.62
56_Y	151_D	0.598	0.61
86_L	201_S	0.595	0.61
102_D	149_P	0.594	0.61
103_P	211_K	0.592	0.61
135_R	183_N	0.589	0.60
186_L	190_G	0.586	0.60
193_S	198_R	0.586	0.60
23_L	162_R	0.584	0.60
53_V	121_E	0.583	0.60
70_F	89_R	0.583	0.60
75_E	80_E	0.583	0.60
32_F	71_E	0.583	0.60
58_A	124_F	0.582	0.59
92_S	99_E	0.582	0.59
160_T	163_Y	0.582	0.59
14_F	124_F	0.579	0.59
81_E	84_R	0.579	0.59
17_V	23_L	0.578	0.59
129_H	148_N	0.577	0.59
205_V	210_W	0.575	0.58
102_D	117_S	0.575	0.58
23_L	26_G	0.572	0.58
116_F	171_R	0.571	0.58
24_A	173_R	0.570	0.58
170_I	193_S	0.564	0.57
152_Q	201_S	0.563	0.57
146_V	151_D	0.562	0.57
22_A	65_S	0.561	0.57
80_E	103_P	0.559	0.56
6_R	100_P	0.558	0.56
82_F	135_R	0.558	0.56
164_E	168_E	0.557	0.56
17_V	20_K	0.557	0.56
43_L	92_S	0.552	0.55
56_Y	66_L	0.551	0.55
174_D	177_L	0.549	0.55
150_H	199_Q	0.549	0.55
17_V	124_F	0.548	0.55
34_D	37_G	0.546	0.55
26_G	47_R	0.545	0.55
111_D	142_Y	0.544	0.54
38_S	99_E	0.544	0.54
148_N	180_G	0.542	0.54
180_G	201_S	0.541	0.54
126_V	148_N	0.540	0.54
107_S	168_E	0.534	0.53
167_R	187_A	0.534	0.53
115_S	150_H	0.532	0.53
14_F	126_V	0.531	0.53
46_A	85_L	0.531	0.53
4_E	51_E	0.530	0.52
204_D	211_K	0.529	0.52
127_G	152_Q	0.528	0.52
52_F	94_H	0.527	0.52
19_A	156_L	0.527	0.52
113_H	212_C	0.525	0.52
163_Y	189_F	0.524	0.52
150_H	153_F	0.522	0.51
183_N	210_W	0.520	0.51
20_K	24_A	0.518	0.51
201_S	210_W	0.517	0.51
143_P	180_G	0.516	0.51
57_R	61_G	0.515	0.50
19_A	150_H	0.515	0.50
105_V	154_E	0.513	0.50
50_L	54_D	0.513	0.50
9_I	88_Q	0.509	0.50
112_P	120_G	0.507	0.49
105_V	157_R	0.507	0.49
47_R	75_E	0.506	0.49
85_L	89_R	0.505	0.49
121_E	167_R	0.504	0.49
72_P	85_L	0.503	0.49
187_A	192_A	0.502	0.49
6_R	28_L	0.501	0.49
83_E	205_V	0.500	0.48

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
4obuE	2	0.293	14.3	0.96	Contact Map
2dr1A	2	0.2837	10.9	0.962	Contact Map
3kgwA	2	0.2744	8.8	0.964	Contact Map
2hufA	2	0.2698	7.4	0.965	Contact Map
3k40A	2	0.2791	7.2	0.965	Contact Map
4p7xA	1	0.2977	5.8	0.966	Contact Map
2q2kA	3	0.2	5.4	0.967	Contact Map
4ritB	2	0.2698	5.4	0.967	Contact Map
2ch1A	2	0.2884	4.4	0.968	Contact Map
4l22A	1	0.3814	4.3	0.968	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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