DUF1833 - PFAM28P - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

DUF1833 - Domain of unknown function (DUF1833)

PFAM:	PF08875	Sequences: ALKEALAAAPTDEVFLHLLEITHPSFAEPIRLVNDTEDITSRGETGETVTFTAFPFEITLPDDDEDGPPELQLTIDNVDREIVDAIRAALGSPEPITVTYRIYLSSDLSPPAVEPPLTLTLRNVSYDATTVTGTLGFEDLLNRPFPRERY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	150 (147)
Sequences:	1641 (1391)
Seq/√Len:	114.7
META:	0.857

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
38_D	53_A	5.758	1.00
16_L	33_V	4.719	1.00
35_D	39_I	4.269	1.00
121_L	133_G	3.867	1.00
57_E	74_T	3.095	1.00
70_E	134_T	2.912	1.00
139_D	142_N	2.877	1.00
23_H	26_F	2.744	1.00
20_E	101_R	2.648	1.00
40_T	45_T	2.630	1.00
123_N	134_T	2.206	1.00
13_E	106_S	2.138	1.00
74_T	130_T	2.102	1.00
109_S	112_A	2.015	1.00
24_P	94_E	1.992	1.00
22_T	29_P	1.991	1.00
83_V	126_Y	1.990	1.00
22_T	99_T	1.756	1.00
20_E	31_R	1.740	1.00
107_D	110_P	1.662	1.00
26_F	85_A	1.638	1.00
72_Q	134_T	1.636	1.00
105_S	108_L	1.590	1.00
72_Q	132_T	1.578	1.00
38_D	50_T	1.572	1.00
42_R	48_T	1.569	1.00
77_N	80_R	1.564	1.00
71_L	135_L	1.537	1.00
108_L	111_P	1.527	1.00
43_G	51_F	1.501	1.00
87_R	126_Y	1.499	1.00
38_D	45_T	1.477	1.00
18_L	41_S	1.470	1.00
17_H	34_N	1.462	1.00
38_D	52_T	1.431	1.00
43_G	49_V	1.427	1.00
124_V	133_G	1.375	1.00
52_T	81_E	1.366	1.00
7_A	10_P	1.359	1.00
31_R	44_E	1.355	1.00
5_A	9_A	1.349	1.00
74_T	132_T	1.332	1.00
64_D	67_G	1.316	1.00
11_T	14_V	1.312	1.00
17_H	102_I	1.295	1.00
13_E	105_S	1.278	0.99
59_T	72_Q	1.277	0.99
103_Y	111_P	1.274	0.99
97_T	120_T	1.236	0.99
57_E	130_T	1.227	0.99
20_E	29_P	1.219	0.99
33_V	39_I	1.214	0.99
86_I	124_V	1.212	0.99
20_E	51_F	1.202	0.99
40_T	50_T	1.193	0.99
17_H	100_Y	1.169	0.99
18_L	51_F	1.147	0.99
106_S	110_P	1.147	0.99
14_V	105_S	1.145	0.99
122_R	136_G	1.138	0.99
26_F	89_A	1.117	0.99
31_R	49_V	1.092	0.98
56_F	75_I	1.091	0.98
19_L	32_L	1.085	0.98
106_S	111_P	1.076	0.98
19_L	56_F	1.070	0.98
16_L	35_D	1.063	0.98
119_L	137_F	1.049	0.98
22_T	97_T	1.036	0.98
41_S	49_V	1.016	0.97
77_N	83_V	1.013	0.97
39_I	108_L	1.005	0.97
110_P	114_E	0.999	0.97
18_L	103_Y	0.991	0.97
80_R	83_V	0.952	0.96
85_A	88_A	0.947	0.96
102_I	113_V	0.945	0.96
9_A	12_D	0.930	0.95
21_I	26_F	0.928	0.95
107_D	111_P	0.926	0.95
17_H	71_L	0.919	0.95
99_T	118_T	0.907	0.95
30_I	82_I	0.905	0.95
5_A	13_E	0.894	0.94
32_L	56_F	0.893	0.94
83_V	87_R	0.886	0.94
41_S	44_E	0.869	0.93
31_R	47_E	0.863	0.93
32_L	54_F	0.859	0.93
5_A	14_V	0.853	0.93
26_F	29_P	0.853	0.93
82_I	85_A	0.847	0.93
30_I	85_A	0.833	0.92
5_A	11_T	0.832	0.92
20_E	42_R	0.828	0.92
103_Y	108_L	0.818	0.91
103_Y	106_S	0.816	0.91
104_L	112_A	0.812	0.91
45_T	49_V	0.811	0.91
13_E	108_L	0.809	0.91
70_E	136_G	0.805	0.91
126_Y	131_V	0.798	0.90
4_E	7_A	0.788	0.90
54_F	75_I	0.773	0.89
111_P	114_E	0.770	0.88
101_R	111_P	0.768	0.88
43_G	47_E	0.764	0.88
63_D	91_G	0.746	0.87
127_D	130_T	0.743	0.87
108_L	112_A	0.743	0.87
143_R	150_Y	0.739	0.86
42_R	46_G	0.735	0.86
46_G	50_T	0.734	0.86
44_E	51_F	0.725	0.85
41_S	108_L	0.723	0.85
6_L	9_A	0.722	0.85
8_A	11_T	0.721	0.85
68_P	141_L	0.711	0.84
83_V	131_V	0.710	0.84
105_S	111_P	0.706	0.84
34_N	55_P	0.696	0.83
30_I	50_T	0.686	0.82
101_R	116_P	0.679	0.81
119_L	139_D	0.674	0.81
6_L	11_T	0.673	0.81
101_R	104_L	0.668	0.80
63_D	87_R	0.663	0.80
23_H	89_A	0.663	0.80
90_L	93_P	0.661	0.80
85_A	133_G	0.650	0.78
42_R	101_R	0.647	0.78
33_V	36_T	0.645	0.78
137_F	141_L	0.643	0.78
43_G	46_G	0.642	0.78
140_L	148_E	0.641	0.77
98_V	105_S	0.641	0.77
41_S	50_T	0.639	0.77
21_I	86_I	0.633	0.77
5_A	10_P	0.632	0.76
45_T	52_T	0.629	0.76
68_P	137_F	0.628	0.76
52_T	57_E	0.624	0.76
54_F	83_V	0.623	0.75
6_L	15_F	0.616	0.75
112_A	115_P	0.615	0.75
55_P	76_D	0.614	0.74
36_T	55_P	0.613	0.74
133_G	145_F	0.609	0.74
71_L	100_Y	0.609	0.74
6_L	63_D	0.606	0.73
107_D	112_A	0.605	0.73
6_L	10_P	0.604	0.73
40_T	48_T	0.601	0.73
21_I	96_I	0.599	0.73
20_E	103_Y	0.598	0.72
101_R	106_S	0.597	0.72
24_P	97_T	0.597	0.72
104_L	107_D	0.595	0.72
105_S	109_S	0.593	0.72
121_L	139_D	0.592	0.72
113_V	116_P	0.591	0.72
105_S	110_P	0.588	0.71
30_I	137_F	0.586	0.71
83_V	127_D	0.582	0.70
98_V	135_L	0.582	0.70
41_S	45_T	0.581	0.70
79_D	82_I	0.581	0.70
5_A	8_A	0.581	0.70
98_V	101_R	0.579	0.70
110_P	113_V	0.577	0.70
76_D	130_T	0.576	0.70
46_G	49_V	0.574	0.69
27_A	88_A	0.574	0.69
42_R	109_S	0.574	0.69
34_N	57_E	0.572	0.69
18_L	101_R	0.569	0.69
6_L	12_D	0.569	0.69
121_L	124_V	0.564	0.68
69_P	79_D	0.561	0.68
111_P	116_P	0.560	0.68
18_L	39_I	0.558	0.67
30_I	75_I	0.558	0.67
41_S	51_F	0.557	0.67
63_D	66_D	0.556	0.67
55_P	126_Y	0.555	0.67
33_V	53_A	0.555	0.67
18_L	144_P	0.554	0.67
104_L	108_L	0.550	0.66
80_R	144_P	0.547	0.66
56_F	133_G	0.544	0.65
69_P	136_G	0.542	0.65
103_Y	109_S	0.542	0.65
125_S	132_T	0.540	0.65
5_A	15_F	0.537	0.64
32_L	52_T	0.535	0.64
57_E	117_L	0.535	0.64
121_L	128_A	0.534	0.64
63_D	70_E	0.531	0.63
55_P	143_R	0.526	0.63
29_P	49_V	0.525	0.63
26_F	30_I	0.525	0.63
13_E	21_I	0.524	0.62
61_P	76_D	0.523	0.62
56_F	87_R	0.522	0.62
70_E	122_R	0.522	0.62
61_P	119_L	0.521	0.62
7_A	18_L	0.520	0.62
122_R	138_E	0.517	0.61
143_R	147_R	0.517	0.61
54_F	127_D	0.516	0.61
44_E	82_I	0.515	0.61
26_F	131_V	0.513	0.61
57_E	73_L	0.512	0.61
68_P	71_L	0.508	0.60
21_I	75_I	0.506	0.60
136_G	141_L	0.505	0.60
23_H	29_P	0.501	0.59
88_A	99_T	0.501	0.59
31_R	43_G	0.500	0.59
120_T	139_D	0.500	0.59

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
3gs9A	3	0.46	6.1	0.933	Contact Map
2lezA	1	0.6467	5.9	0.933	Contact Map
2czyA	1	0.3667	5.6	0.934	Contact Map
1fr2A	1	0.4133	4	0.939	Contact Map
2f05A	1	0.3333	3.3	0.941	Contact Map
4fx9A	2	0.3	2.7	0.944	Contact Map
4fnqA	4	0.8	2.7	0.944	Contact Map
1ixmA	2	0.44	2.7	0.944	Contact Map
1gxgA	1	0.42	2.3	0.946	Contact Map
2uv9A	5	0	2	0.948	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.

Page generated in 0.0064 seconds.