AlgF - PFAM28P - GREMLIN Contacts

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AlgF - Alginate O-acetyl transferase AlgF

PFAM:	PF11182	Sequences: ALALSLASLAAQAADAGLYAPGPPAGSAFVRVVNASDAPLSVTVGSKALQDLAAGGASDYRVVPAGKYTLSVGGKSLPVTLAAGEFYTVVVDAGGALVLVEDPPFDNALKALLAFYNLSDKPASLKTADGKTAVFEDVAPGASGRRAINPVKVSLAVFCGDKKVADLKPVALERGEAYS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	179 (172)
Sequences:	512 (401)
Seq/√Len:	30.6
META:	0.648

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
135_F	144_G	6.059	1.00
133_A	136_E	3.417	1.00
102_D	116_Y	3.295	1.00
146_R	149_N	3.235	1.00
26_G	84_G	2.628	1.00
85_E	101_E	2.584	1.00
126_K	158_F	2.536	0.99
170_V	174_R	2.488	0.99
28_A	81_L	2.475	0.99
33_V	88_T	2.366	0.99
110_K	118_L	2.345	0.99
127_T	130_G	2.280	0.99
163_K	166_D	2.256	0.99
169_P	174_R	2.160	0.98
134_V	155_L	2.104	0.98
77_L	113_L	2.035	0.98
21_P	155_L	2.016	0.97
127_T	147_A	1.957	0.97
137_D	140_P	1.952	0.97
151_V	155_L	1.924	0.96
148_I	151_V	1.915	0.96
166_D	169_P	1.818	0.95
117_N	146_R	1.807	0.95
24_P	134_V	1.715	0.93
28_A	33_V	1.703	0.93
99_L	123_A	1.649	0.92
105_F	112_L	1.646	0.92
49_L	58_S	1.628	0.91
49_L	52_L	1.618	0.91
33_V	57_A	1.586	0.90
73_G	89_V	1.586	0.90
172_L	176_E	1.575	0.90
122_P	125_L	1.556	0.89
23_P	62_V	1.552	0.89
35_A	112_L	1.550	0.89
75_K	91_V	1.529	0.89
27_S	64_P	1.527	0.88
20_A	86_F	1.511	0.88
6_L	9_L	1.490	0.87
24_P	130_G	1.463	0.86
25_A	32_V	1.425	0.85
102_D	111_A	1.410	0.84
101_E	104_P	1.403	0.84
96_A	122_P	1.388	0.83
26_G	148_I	1.352	0.81
92_D	113_L	1.322	0.80
90_V	141_G	1.310	0.79
28_A	64_P	1.309	0.79
21_P	24_P	1.306	0.79
153_V	156_A	1.304	0.79
113_L	164_V	1.297	0.79
34_N	146_R	1.291	0.78
69_T	78_P	1.278	0.78
11_A	151_V	1.269	0.77
72_V	111_A	1.257	0.76
98_V	113_L	1.256	0.76
22_G	25_A	1.251	0.76
115_F	125_L	1.247	0.76
57_A	109_L	1.226	0.75
23_P	149_N	1.213	0.74
148_I	175_G	1.191	0.72
17_G	157_V	1.189	0.72
32_V	61_R	1.188	0.72
53_A	90_V	1.169	0.71
45_G	53_A	1.165	0.71
65_A	134_V	1.155	0.70
100_V	117_N	1.153	0.70
71_S	115_F	1.150	0.70
32_V	44_V	1.127	0.68
24_P	149_N	1.105	0.67
60_Y	116_Y	1.085	0.65
138_V	146_R	1.084	0.65
22_G	85_E	1.084	0.65
115_F	135_F	1.080	0.65
16_A	24_P	1.079	0.65
30_V	113_L	1.064	0.64
54_A	67_K	1.064	0.64
20_A	145_R	1.054	0.63
21_P	28_A	1.039	0.62
53_A	74_G	1.028	0.61
21_P	115_F	0.999	0.59
113_L	155_L	0.999	0.59
22_G	145_R	0.985	0.57
150_P	176_E	0.984	0.57
69_T	75_K	0.981	0.57
60_Y	102_D	0.970	0.56
60_Y	100_V	0.965	0.56
87_Y	125_L	0.963	0.56
101_E	106_D	0.956	0.55
20_A	23_P	0.950	0.55
109_L	154_S	0.944	0.54
132_T	163_K	0.941	0.54
34_N	152_K	0.941	0.54
139_A	144_G	0.937	0.54
20_A	24_P	0.936	0.54
108_A	112_L	0.934	0.53
20_A	109_L	0.934	0.53
24_P	153_V	0.930	0.53
172_L	175_G	0.929	0.53
103_P	140_P	0.928	0.53
20_A	170_V	0.917	0.52
17_G	129_D	0.904	0.51
20_A	27_S	0.903	0.51
55_G	142_A	0.899	0.51
79_V	148_I	0.899	0.51
59_D	116_Y	0.896	0.50
21_P	62_V	0.891	0.50
167_L	173_E	0.889	0.50
162_K	165_A	0.888	0.50
43_T	54_A	0.861	0.48
115_F	168_K	0.859	0.47
173_E	176_E	0.858	0.47
130_G	158_F	0.856	0.47
67_K	99_L	0.850	0.47
15_D	61_R	0.849	0.47
89_V	99_L	0.849	0.47
138_V	160_G	0.849	0.47
134_V	149_N	0.844	0.46
138_V	157_V	0.840	0.46
90_V	100_V	0.833	0.45
132_T	153_V	0.830	0.45
21_P	102_D	0.823	0.45
30_V	139_A	0.823	0.45
35_A	120_D	0.822	0.44
23_P	81_L	0.822	0.44
167_L	171_A	0.820	0.44
19_Y	24_P	0.806	0.43
20_A	107_N	0.806	0.43
42_V	72_V	0.805	0.43
115_F	157_V	0.803	0.43
67_K	94_G	0.802	0.43
28_A	63_V	0.801	0.43
85_E	106_D	0.792	0.42
10_A	36_S	0.787	0.42
116_Y	143_S	0.786	0.42
46_S	51_D	0.783	0.41
10_A	120_D	0.778	0.41
159_C	174_R	0.770	0.40
46_S	142_A	0.766	0.40
86_F	151_V	0.762	0.40
28_A	123_A	0.748	0.39
79_V	136_E	0.748	0.39
70_L	74_G	0.743	0.38
46_S	49_L	0.742	0.38
113_L	152_K	0.741	0.38
109_L	119_S	0.737	0.38
105_F	110_K	0.736	0.38
50_Q	91_V	0.734	0.38
48_A	133_A	0.728	0.37
83_A	113_L	0.727	0.37
48_A	100_V	0.724	0.37
108_A	150_P	0.723	0.37
136_E	141_G	0.722	0.37
56_G	87_Y	0.718	0.36
114_A	176_E	0.713	0.36
126_K	130_G	0.713	0.36
67_K	152_K	0.706	0.36
72_V	155_L	0.706	0.36
169_P	175_G	0.702	0.35
166_D	170_V	0.699	0.35
35_A	91_V	0.698	0.35
166_D	174_R	0.693	0.35
70_L	130_G	0.692	0.35
35_A	45_G	0.689	0.34
66_G	118_L	0.684	0.34
129_D	158_F	0.682	0.34
156_A	160_G	0.682	0.34
170_V	175_G	0.676	0.33
105_F	108_A	0.674	0.33
20_A	105_F	0.666	0.33
88_T	165_A	0.664	0.33
85_E	89_V	0.659	0.32
116_Y	141_G	0.657	0.32
168_K	171_A	0.656	0.32
97_L	121_K	0.654	0.32
28_A	58_S	0.653	0.32
11_A	42_V	0.648	0.31
20_A	114_A	0.647	0.31
71_S	76_S	0.641	0.31
10_A	162_K	0.638	0.31
170_V	176_E	0.637	0.31
23_P	29_F	0.635	0.31
15_D	131_K	0.632	0.30
68_Y	81_L	0.632	0.30
8_S	160_G	0.632	0.30
127_T	134_V	0.631	0.30
76_S	120_D	0.629	0.30
135_F	150_P	0.620	0.30
23_P	169_P	0.618	0.29
39_P	58_S	0.617	0.29
22_G	114_A	0.616	0.29
79_V	90_V	0.614	0.29
115_F	138_V	0.613	0.29
96_A	161_D	0.612	0.29
47_K	53_A	0.611	0.29
38_A	93_A	0.610	0.29
115_F	131_K	0.610	0.29
36_S	88_T	0.608	0.29
117_N	125_L	0.607	0.29
19_Y	31_R	0.607	0.29
107_N	114_A	0.606	0.29
34_N	54_A	0.604	0.28
96_A	121_K	0.604	0.28
150_P	174_R	0.604	0.28
52_L	58_S	0.603	0.28
149_N	156_A	0.601	0.28
49_L	100_V	0.598	0.28
120_D	136_E	0.598	0.28
17_G	20_A	0.597	0.28
169_P	176_E	0.592	0.28
126_K	129_D	0.591	0.28
70_L	99_L	0.591	0.28
80_T	139_A	0.586	0.27
24_P	62_V	0.585	0.27
158_F	163_K	0.582	0.27
155_L	168_K	0.581	0.27
76_S	92_D	0.581	0.27
42_V	83_A	0.579	0.27
94_G	138_V	0.579	0.27
124_S	137_D	0.576	0.27
45_G	48_A	0.575	0.27
64_P	157_V	0.575	0.27
63_V	68_Y	0.575	0.27
7_A	76_S	0.574	0.27
13_A	141_G	0.573	0.26
91_V	165_A	0.573	0.26
93_A	124_S	0.571	0.26
37_D	69_T	0.566	0.26
123_A	159_C	0.563	0.26
131_K	145_R	0.563	0.26
75_K	96_A	0.560	0.26
159_C	162_K	0.556	0.25
13_A	104_P	0.552	0.25
28_A	88_T	0.549	0.25
16_A	28_A	0.547	0.25
110_K	155_L	0.546	0.25
8_S	132_T	0.542	0.25
133_A	148_I	0.541	0.25
25_A	61_R	0.538	0.24
62_V	68_Y	0.534	0.24
58_S	63_V	0.534	0.24
135_F	157_V	0.532	0.24
112_L	145_R	0.531	0.24
125_L	143_S	0.530	0.24
21_P	29_F	0.530	0.24
127_T	158_F	0.526	0.24
27_S	161_D	0.524	0.24
28_A	31_R	0.519	0.23
71_S	122_P	0.518	0.23
102_D	105_F	0.512	0.23
39_P	52_L	0.509	0.23
32_V	143_S	0.509	0.23
18_L	27_S	0.509	0.23
20_A	84_G	0.508	0.23
22_G	84_G	0.507	0.23
127_T	131_K	0.505	0.22
30_V	92_D	0.501	0.22
114_A	173_E	0.500	0.22

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
1ifrA	1	0.6201	20.3	0.94	Contact Map
4uqdA	1	0.4581	11.6	0.946	Contact Map
1id2A	1	0.5028	10.5	0.947	Contact Map
2rdyA	2	0.5084	9.3	0.948	Contact Map
4i3gA	1	0.4749	9.2	0.948	Contact Map
3c75A	1	0.4972	6.5	0.952	Contact Map
2k6wA	1	0.6425	6.3	0.952	Contact Map
2y24A	1	0.4693	5.9	0.953	Contact Map
1h54A	2	0.4022	5.4	0.954	Contact Map
2x41A	1	0.5084	4.6	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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