FAD-SLDH - PFAM28P - GREMLIN Contacts

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FAD-SLDH - Membrane bound FAD containing D-sorbitol dehydrogenase

PFAM:	PF12318	Sequences: LSRRRLLAGLAALAAAAALPSALAAAAAAAAAAAADLDAFLALSALLTGRPDLDPALAARLLAALAAADPQFAAQLAALAALAAARGADPVDDLLAADAPDPGLAALARAIVSAWYLGVVGDGPDARVVAYEDALMYQPVADVLKPPTYCRGGPGYWAAKP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	161 (159)
Sequences:	927 (725)
Seq/√Len:	57.5
META:	0.672

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
41_L	58_A	7.984	1.00
44_S	115_W	4.719	1.00
151_R	156_Y	3.185	1.00
47_L	112_V	3.023	1.00
47_L	108_A	2.841	1.00
146_P	152_G	2.693	1.00
54_D	133_D	2.660	1.00
145_K	151_R	2.588	1.00
114_A	120_V	2.536	1.00
144_L	156_Y	2.429	1.00
69_D	75_Q	2.345	1.00
128_V	150_C	2.344	1.00
41_L	53_L	2.205	1.00
57_L	61_L	2.178	1.00
13_L	16_A	2.154	1.00
10_L	14_A	2.100	1.00
44_S	58_A	1.968	1.00
48_T	116_Y	1.813	0.99
144_L	151_R	1.711	0.99
90_P	93_D	1.688	0.99
140_V	144_L	1.592	0.99
53_L	135_L	1.541	0.98
71_Q	75_Q	1.538	0.98
149_Y	154_P	1.534	0.98
89_D	93_D	1.533	0.98
16_A	31_A	1.523	0.98
112_V	116_Y	1.505	0.98
113_S	117_L	1.488	0.98
145_K	150_C	1.485	0.98
75_Q	79_L	1.447	0.97
148_T	154_P	1.436	0.97
121_G	126_A	1.374	0.96
157_W	161_P	1.364	0.96
116_Y	139_P	1.356	0.96
50_R	138_Q	1.348	0.96
72_F	111_I	1.345	0.96
44_S	53_L	1.345	0.96
121_G	124_P	1.333	0.96
132_E	136_M	1.331	0.95
52_D	138_Q	1.323	0.95
119_V	128_V	1.309	0.95
35_A	74_A	1.281	0.94
155_G	158_A	1.280	0.94
64_A	114_A	1.272	0.94
53_L	115_W	1.267	0.94
64_A	120_V	1.253	0.94
71_Q	74_A	1.249	0.94
135_L	142_D	1.242	0.93
132_E	156_Y	1.239	0.93
16_A	22_A	1.207	0.92
128_V	146_P	1.193	0.92
145_K	148_T	1.189	0.92
128_V	134_A	1.186	0.92
3_R	7_L	1.186	0.92
40_F	115_W	1.181	0.92
65_L	110_A	1.169	0.91
144_L	154_P	1.169	0.91
132_E	148_T	1.157	0.91
84_A	87_G	1.144	0.90
153_G	156_Y	1.144	0.90
15_A	18_A	1.125	0.90
60_R	136_M	1.122	0.89
26_A	31_A	1.121	0.89
81_A	85_A	1.114	0.89
53_L	111_I	1.108	0.89
142_D	150_C	1.101	0.88
143_V	156_Y	1.089	0.88
141_A	144_L	1.072	0.87
61_L	128_V	1.068	0.87
68_A	110_A	1.056	0.86
91_V	94_L	1.051	0.86
39_A	77_A	1.047	0.86
143_V	150_C	1.046	0.86
8_A	13_L	1.042	0.86
152_G	156_Y	1.038	0.85
80_A	88_A	1.033	0.85
37_L	62_L	0.988	0.82
65_L	120_V	0.986	0.82
150_C	153_G	0.984	0.82
136_M	139_P	0.980	0.82
139_P	146_P	0.980	0.82
13_L	45_A	0.980	0.82
61_L	114_A	0.969	0.81
66_A	73_A	0.968	0.81
55_P	74_A	0.967	0.81
111_I	135_L	0.964	0.81
74_A	78_A	0.954	0.80
134_A	143_V	0.938	0.79
122_D	125_D	0.934	0.79
67_A	74_A	0.928	0.78
102_P	105_A	0.922	0.78
45_A	52_D	0.916	0.77
143_V	151_R	0.913	0.77
16_A	23_L	0.911	0.77
47_L	116_Y	0.905	0.76
137_Y	146_P	0.901	0.76
94_L	97_A	0.895	0.76
143_V	148_T	0.895	0.76
4_R	7_L	0.892	0.75
11_A	14_A	0.886	0.75
119_V	126_A	0.883	0.75
98_D	108_A	0.880	0.74
150_C	154_P	0.879	0.74
128_V	137_Y	0.873	0.74
114_A	146_P	0.858	0.73
117_L	147_P	0.853	0.72
142_D	149_Y	0.851	0.72
18_A	22_A	0.849	0.72
144_L	160_K	0.848	0.72
146_P	155_G	0.834	0.70
114_A	117_L	0.824	0.69
137_Y	144_L	0.821	0.69
145_K	152_G	0.821	0.69
131_Y	158_A	0.810	0.68
60_R	63_A	0.808	0.68
5_R	22_A	0.801	0.67
137_Y	140_V	0.790	0.66
145_K	156_Y	0.782	0.65
57_L	74_A	0.777	0.65
19_L	23_L	0.773	0.64
6_L	10_L	0.772	0.64
49_G	91_V	0.768	0.64
25_A	35_A	0.768	0.64
117_L	137_Y	0.758	0.63
144_L	148_T	0.756	0.63
17_A	22_A	0.755	0.63
105_A	140_V	0.748	0.62
72_F	83_A	0.745	0.62
146_P	151_R	0.743	0.61
15_A	19_L	0.739	0.61
133_D	138_Q	0.736	0.61
35_A	39_A	0.735	0.61
82_L	104_L	0.733	0.60
108_A	137_Y	0.731	0.60
63_A	67_A	0.731	0.60
29_A	34_A	0.731	0.60
5_R	55_P	0.725	0.60
72_F	76_L	0.720	0.59
64_A	129_V	0.719	0.59
150_C	155_G	0.718	0.59
31_A	39_A	0.711	0.58
14_A	18_A	0.710	0.58
107_L	110_A	0.709	0.58
44_S	135_L	0.701	0.57
118_G	130_A	0.696	0.56
136_M	140_V	0.693	0.56
137_Y	155_G	0.689	0.56
6_L	17_A	0.687	0.55
114_A	142_D	0.687	0.55
130_A	146_P	0.683	0.55
11_A	21_S	0.681	0.55
46_L	91_V	0.680	0.55
137_Y	147_P	0.679	0.55
143_V	158_A	0.673	0.54
72_F	79_L	0.671	0.54
147_P	156_Y	0.666	0.53
111_I	122_D	0.665	0.53
49_G	94_L	0.659	0.52
89_D	94_L	0.658	0.52
42_A	90_P	0.658	0.52
13_L	17_A	0.657	0.52
14_A	22_A	0.657	0.52
82_L	86_R	0.655	0.52
89_D	97_A	0.654	0.52
69_D	72_F	0.649	0.51
149_Y	153_G	0.646	0.51
26_A	29_A	0.642	0.50
88_A	92_D	0.636	0.50
46_L	53_L	0.634	0.50
45_A	84_A	0.632	0.49
152_G	155_G	0.630	0.49
137_Y	143_V	0.628	0.49
81_A	84_A	0.626	0.49
9_G	16_A	0.626	0.49
123_G	126_A	0.624	0.49
20_P	23_L	0.612	0.47
53_L	58_A	0.609	0.47
130_A	134_A	0.608	0.47
5_R	21_S	0.607	0.47
34_A	38_D	0.607	0.47
59_A	74_A	0.605	0.46
6_L	21_S	0.604	0.46
60_R	149_Y	0.604	0.46
41_L	115_W	0.602	0.46
156_Y	161_P	0.599	0.46
20_P	27_A	0.598	0.46
132_E	149_Y	0.597	0.46
117_L	150_C	0.596	0.45
128_V	145_K	0.595	0.45
119_V	127_R	0.595	0.45
117_L	143_V	0.595	0.45
91_V	112_V	0.594	0.45
117_L	130_A	0.593	0.45
92_D	95_L	0.593	0.45
151_R	154_P	0.592	0.45
72_F	147_P	0.592	0.45
20_P	45_A	0.590	0.45
37_L	58_A	0.587	0.44
54_D	61_L	0.578	0.43
97_A	100_P	0.573	0.43
33_A	74_A	0.573	0.43
82_L	101_D	0.571	0.43
10_L	20_P	0.567	0.42
121_G	148_T	0.565	0.42
60_R	120_V	0.564	0.42
57_L	129_V	0.558	0.41
6_L	77_A	0.558	0.41
146_P	150_C	0.555	0.41
62_L	66_A	0.555	0.41
142_D	147_P	0.553	0.41
136_M	146_P	0.553	0.41
99_A	117_L	0.552	0.41
75_Q	107_L	0.546	0.40
134_A	142_D	0.546	0.40
12_A	16_A	0.544	0.40
97_A	128_V	0.539	0.39
121_G	129_V	0.536	0.39
102_P	131_Y	0.535	0.39
18_A	21_S	0.535	0.39
27_A	31_A	0.534	0.39
85_A	88_A	0.533	0.39
7_L	38_D	0.532	0.39
95_L	99_A	0.531	0.39
25_A	28_A	0.530	0.38
20_P	38_D	0.529	0.38
41_L	44_S	0.526	0.38
8_A	18_A	0.526	0.38
65_L	72_F	0.523	0.38
53_L	130_A	0.521	0.37
29_A	32_A	0.521	0.37
5_R	8_A	0.521	0.37
5_R	78_A	0.512	0.37
89_D	95_L	0.508	0.36
132_E	146_P	0.507	0.36
3_R	118_G	0.506	0.36
2_S	11_A	0.505	0.36
56_A	59_A	0.502	0.36
2_S	5_R	0.500	0.35

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
2pq4B	1	0.205	77.4	0.894	Contact Map
1h2aS	1	0.6894	34.1	0.92	Contact Map
2wpnA	1	0.6273	29.1	0.923	Contact Map
3w36A	2	0.7702	25.2	0.925	Contact Map
1h6dA	8	0.6584	14.2	0.933	Contact Map
1q90R	1	0.1801	12.7	0.934	Contact Map
2vpzA	1	0.7702	12.3	0.935	Contact Map
3sbqA	2	0.3292	10.3	0.937	Contact Map
1kqfA	3	0.3789	10.1	0.937	Contact Map
4wedA	1	0.7267	9.4	0.938	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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