DUF4924 - PFAM28P - GREMLIN Contacts

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

DUF4924 - Domain of unknown function (DUF4924)

PFAM:	PF16271	Sequences: MLIAQQKRKENIAEYLLYMWQVEDLIRAYGFDIDRIEKNIISRYDLDEEQKEEIRDWYENLIDMMREEGVEEKGHLQINKNVIIELNDLHLRLLKSPKDPFYNALYYKALPFIVELRAKSGGKDENEIETCFNALYGVLLLRLQKKEISPETEEAIKQISKFLALLSDYYKKDKEGELD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	179 (178)
Sequences:	1481 (1115)
Seq/√Len:	83.5
META:	0.893

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_E	55_R	3.766	1.00
6_Q	10_E	3.535	1.00
47_D	50_Q	2.901	1.00
138_V	156_I	2.600	1.00
30_G	35_R	2.593	1.00
54_I	58_Y	2.450	1.00
35_R	39_N	2.424	1.00
2_L	54_I	2.285	1.00
37_E	42_S	2.256	1.00
33_I	62_I	2.234	1.00
29_Y	39_N	2.194	1.00
66_R	71_E	2.187	1.00
109_A	158_Q	2.146	1.00
113_I	131_C	2.122	1.00
70_V	76_L	2.079	1.00
46_L	50_Q	2.072	1.00
64_M	78_I	2.031	1.00
32_D	35_R	1.980	1.00
70_V	80_K	1.960	1.00
63_D	67_E	1.933	1.00
24_D	136_Y	1.919	1.00
87_N	126_N	1.899	1.00
30_G	72_E	1.835	1.00
168_D	172_K	1.819	1.00
167_S	171_K	1.804	1.00
99_D	169_Y	1.754	1.00
170_Y	174_K	1.748	1.00
22_V	58_Y	1.721	1.00
26_I	36_I	1.716	1.00
46_L	54_I	1.683	1.00
117_R	127_E	1.668	1.00
135_L	163_L	1.664	1.00
112_F	115_E	1.662	1.00
105_L	165_L	1.658	1.00
171_K	175_E	1.651	1.00
112_F	158_Q	1.622	1.00
172_K	177_E	1.621	1.00
56_D	60_N	1.564	1.00
5_Q	53_E	1.550	1.00
106_Y	127_E	1.544	1.00
23_E	75_H	1.530	1.00
89_L	173_D	1.515	0.99
88_D	92_R	1.475	0.99
90_H	102_Y	1.450	0.99
31_F	62_I	1.447	0.99
150_P	154_E	1.445	0.99
45_D	51_K	1.432	0.99
29_Y	35_R	1.409	0.99
65_M	70_V	1.397	0.99
169_Y	172_K	1.389	0.99
13_A	167_S	1.377	0.99
64_M	81_N	1.373	0.99
26_I	61_L	1.357	0.99
16_L	79_N	1.346	0.99
13_A	132_F	1.330	0.99
153_E	157_K	1.323	0.99
83_I	132_F	1.309	0.98
19_M	79_N	1.281	0.98
138_V	142_R	1.275	0.98
41_I	55_R	1.239	0.98
7_K	10_E	1.222	0.98
131_C	162_F	1.220	0.98
112_F	155_A	1.218	0.98
82_V	85_E	1.211	0.97
105_L	109_A	1.201	0.97
87_N	91_L	1.180	0.97
117_R	130_T	1.169	0.97
20_W	83_I	1.152	0.97
33_I	59_E	1.149	0.97
134_A	159_I	1.146	0.96
152_T	155_A	1.144	0.96
116_L	137_G	1.144	0.96
31_F	71_E	1.139	0.96
8_R	170_Y	1.130	0.96
33_I	41_I	1.121	0.96
2_L	50_Q	1.109	0.96
13_A	163_L	1.098	0.95
8_R	174_K	1.097	0.95
46_L	51_K	1.084	0.95
77_Q	81_N	1.069	0.95
41_I	54_I	1.059	0.94
110_L	114_V	1.050	0.94
99_D	165_L	1.050	0.94
40_I	44_Y	1.046	0.94
84_I	88_D	1.046	0.94
64_M	68_E	1.045	0.94
35_R	38_K	1.036	0.94
116_L	159_I	1.030	0.94
114_V	117_R	1.022	0.93
44_Y	54_I	1.000	0.93
139_L	142_R	0.996	0.92
48_E	51_K	0.994	0.92
160_S	164_A	0.992	0.92
116_L	134_A	0.983	0.92
88_D	91_L	0.981	0.92
68_E	77_Q	0.972	0.92
3_I	44_Y	0.964	0.91
11_N	14_E	0.963	0.91
20_W	132_F	0.960	0.91
134_A	156_I	0.959	0.91
22_V	26_I	0.957	0.91
150_P	153_E	0.956	0.91
20_W	129_E	0.947	0.90
91_L	95_K	0.943	0.90
85_E	92_R	0.936	0.90
5_Q	9_K	0.935	0.90
34_D	38_K	0.916	0.89
48_E	52_E	0.914	0.89
16_L	82_V	0.913	0.89
6_Q	9_K	0.912	0.89
50_Q	54_I	0.912	0.89
82_V	174_K	0.904	0.88
149_S	152_T	0.904	0.88
52_E	55_R	0.903	0.88
101_F	104_A	0.902	0.88
125_E	133_N	0.901	0.88
141_L	152_T	0.901	0.88
173_D	176_G	0.896	0.88
39_N	43_R	0.895	0.88
113_I	130_T	0.885	0.87
25_L	40_I	0.879	0.87
19_M	76_L	0.878	0.87
100_P	104_A	0.875	0.87
109_A	162_F	0.872	0.86
61_L	64_M	0.872	0.86
137_G	141_L	0.871	0.86
109_A	112_F	0.863	0.86
22_V	54_I	0.860	0.86
65_M	76_L	0.852	0.85
34_D	37_E	0.845	0.85
1_M	4_A	0.843	0.84
114_V	127_E	0.831	0.84
168_D	171_K	0.828	0.83
60_N	78_I	0.824	0.83
81_N	84_I	0.820	0.83
60_N	64_M	0.818	0.83
41_I	51_K	0.815	0.82
50_Q	53_E	0.813	0.82
63_D	66_R	0.809	0.82
76_L	79_N	0.806	0.82
4_A	7_K	0.805	0.82
153_E	156_I	0.801	0.81
159_I	163_L	0.800	0.81
68_E	78_I	0.800	0.81
42_S	51_K	0.793	0.81
26_I	62_I	0.782	0.80
147_E	150_P	0.782	0.80
80_K	129_E	0.779	0.80
97_P	175_E	0.776	0.79
138_V	153_E	0.769	0.79
79_N	132_F	0.768	0.79
31_F	70_V	0.767	0.78
108_K	161_K	0.765	0.78
3_I	18_Y	0.761	0.78
60_N	63_D	0.759	0.78
81_N	88_D	0.755	0.77
85_E	170_Y	0.747	0.77
8_R	82_V	0.744	0.76
86_L	132_F	0.742	0.76
103_N	107_Y	0.740	0.76
163_L	167_S	0.739	0.76
70_V	73_K	0.739	0.76
28_A	136_Y	0.738	0.76
83_I	128_I	0.738	0.76
78_I	81_N	0.729	0.75
158_Q	162_F	0.726	0.75
104_A	108_K	0.720	0.74
127_E	131_C	0.715	0.73
151_E	154_E	0.714	0.73
164_A	168_D	0.710	0.73
113_I	128_I	0.697	0.72
2_L	46_L	0.697	0.72
157_K	161_K	0.695	0.71
109_A	156_I	0.693	0.71
154_E	157_K	0.687	0.70
31_F	36_I	0.684	0.70
16_L	83_I	0.670	0.69
165_L	169_Y	0.668	0.68
85_E	88_D	0.666	0.68
142_R	153_E	0.665	0.68
110_L	117_R	0.661	0.68
16_L	86_L	0.661	0.68
107_Y	110_L	0.660	0.67
56_D	66_R	0.659	0.67
115_E	155_A	0.656	0.67
26_I	33_I	0.655	0.67
115_E	119_K	0.653	0.67
98_K	103_N	0.640	0.65
77_Q	80_K	0.636	0.65
173_D	178_L	0.631	0.64
120_S	124_D	0.631	0.64
83_I	126_N	0.629	0.64
127_E	130_T	0.620	0.63
24_D	28_A	0.620	0.63
137_G	140_L	0.619	0.62
25_L	29_Y	0.613	0.62
85_E	174_K	0.611	0.61
133_N	137_G	0.609	0.61
128_I	132_F	0.609	0.61
49_E	53_E	0.608	0.61
157_K	160_S	0.606	0.61
107_Y	114_V	0.603	0.60
21_Q	25_L	0.599	0.60
106_Y	126_N	0.599	0.60
32_D	66_R	0.596	0.60
84_I	87_N	0.595	0.59
24_D	143_L	0.595	0.59
22_V	94_L	0.593	0.59
38_K	42_S	0.592	0.59
52_E	56_D	0.591	0.59
32_D	71_E	0.590	0.59
105_L	162_F	0.586	0.58
40_I	46_L	0.584	0.58
113_I	162_F	0.581	0.58
94_L	103_N	0.580	0.57
70_V	82_V	0.576	0.57
87_N	106_Y	0.575	0.57
64_M	76_L	0.571	0.56
82_V	89_L	0.571	0.56
89_L	174_K	0.569	0.56
36_I	51_K	0.568	0.56
10_E	171_K	0.566	0.56
43_R	132_F	0.566	0.56
20_W	130_T	0.561	0.55
114_V	130_T	0.559	0.55
96_S	99_D	0.556	0.54
135_L	156_I	0.556	0.54
31_F	66_R	0.555	0.54
92_R	173_D	0.554	0.54
17_L	133_N	0.552	0.54
61_L	140_L	0.551	0.54
64_M	77_Q	0.550	0.54
163_L	171_K	0.549	0.53
10_E	31_F	0.549	0.53
70_V	81_N	0.549	0.53
36_I	40_I	0.548	0.53
158_Q	161_K	0.547	0.53
11_N	58_Y	0.546	0.53
138_V	148_I	0.545	0.53
117_R	131_C	0.543	0.53
165_L	168_D	0.541	0.52
134_A	138_V	0.539	0.52
36_I	139_L	0.538	0.52
115_E	135_L	0.536	0.52
33_I	55_R	0.536	0.52
101_F	108_K	0.536	0.52
110_L	127_E	0.531	0.51
122_G	125_E	0.531	0.51
7_K	16_L	0.528	0.51
128_I	162_F	0.528	0.51
119_K	152_T	0.524	0.50
101_F	105_L	0.522	0.50
69_G	81_N	0.522	0.50
100_P	103_N	0.522	0.50
16_L	20_W	0.521	0.50
155_A	158_Q	0.519	0.49
13_A	98_K	0.515	0.49
20_W	23_E	0.514	0.49
29_Y	134_A	0.513	0.49
45_D	54_I	0.512	0.49
120_S	123_K	0.512	0.49
89_L	93_L	0.511	0.48
71_E	123_K	0.508	0.48
92_R	176_G	0.508	0.48
147_E	153_E	0.506	0.48
2_L	53_E	0.502	0.47
92_R	96_S	0.500	0.47

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
3ce2A	1	0.8492	39.8	0.948	Contact Map
2j69A	1	0.5642	18.1	0.956	Contact Map
2au5A	1	0.6034	7	0.964	Contact Map
1fioA	1	0.5922	5.6	0.965	Contact Map
2ilkA	2	0.7486	5.3	0.965	Contact Map
3ghgA	2	0.8603	5.2	0.966	Contact Map
4i1aA	2	0.6034	5.2	0.966	Contact Map
2qr4A	2	0.7263	5.1	0.966	Contact Map
3o60A	2	0.8883	4.7	0.966	Contact Map
1deqA	1	0.838	4.2	0.967	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 0.0069 seconds.