DUF3328 - PFAM28P - GREMLIN Contacts

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

DUF3328 - Domain of unknown function (DUF3328)

PFAM:	PF11807	Sequences: SRPRRRRRRWRRLLLLLLLLLLLSLLLLLLALLLSSSSSSCDCLKSLSSYSPALDAIEYETVTFNLGSFDPPSIYRGPPSPEVDAAWDDLLDYGAIRIPEEEAAKLGLPPSSHVKIPDEDGGGYVAGLEVFHQLHCLNLLRKALYPDYYYYPGLGDGPPEELRLHLDHCLDYLRQSLMCHADVTLETFVWVEGDPGPFPDFNTVHTCRDFDAIREWAEEH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	220 (211)
Sequences:	1126 (1014)
Seq/√Len:	69.8
META:	0.032

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
60_E	209_D	5.128	1.00
132_H	135_H	3.960	1.00
99_P	102_E	3.569	1.00
135_H	165_H	3.469	1.00
165_H	168_H	3.313	1.00
171_D	174_R	3.211	1.00
138_N	141_R	3.124	1.00
171_D	175_Q	3.102	1.00
130_V	181_A	3.074	1.00
137_L	177_L	3.016	1.00
209_D	212_A	2.938	1.00
135_H	168_H	2.696	1.00
58_E	212_A	2.492	1.00
84_D	141_R	2.448	1.00
138_N	142_K	2.351	1.00
131_F	210_F	2.224	1.00
144_L	170_L	2.182	1.00
132_H	168_H	1.975	1.00
84_D	148_Y	1.926	1.00
74_I	86_A	1.915	1.00
17_L	24_S	1.904	1.00
17_L	21_L	1.839	1.00
96_I	100_E	1.786	1.00
173_L	177_L	1.762	1.00
77_G	167_D	1.747	1.00
64_F	205_H	1.742	1.00
131_F	214_R	1.676	1.00
178_M	210_F	1.670	1.00
38_S	41_C	1.653	0.99
132_H	165_H	1.628	0.99
92_D	96_I	1.620	0.99
215_E	219_E	1.618	0.99
144_L	163_R	1.614	0.99
172_Y	186_E	1.592	0.99
165_H	169_C	1.589	0.99
197_P	200_D	1.584	0.99
58_E	209_D	1.552	0.99
80_S	83_V	1.550	0.99
53_A	56_A	1.546	0.99
174_R	178_M	1.536	0.99
134_L	174_R	1.514	0.99
210_F	214_R	1.500	0.99
21_L	24_S	1.463	0.99
183_V	208_R	1.460	0.99
60_E	64_F	1.459	0.99
84_D	149_Y	1.456	0.99
98_I	126_A	1.433	0.98
211_D	215_E	1.423	0.98
143_A	146_P	1.393	0.98
19_L	23_L	1.392	0.98
132_H	136_C	1.383	0.98
108_L	200_D	1.375	0.98
28_L	31_A	1.375	0.98
79_P	83_V	1.363	0.98
183_V	210_F	1.324	0.97
84_D	138_N	1.309	0.97
19_L	24_S	1.288	0.97
137_L	170_L	1.275	0.97
45_K	48_S	1.267	0.97
15_L	19_L	1.258	0.96
16_L	22_L	1.235	0.96
40_S	43_C	1.227	0.96
129_E	186_E	1.216	0.96
130_V	210_F	1.215	0.96
83_V	86_A	1.206	0.95
133_Q	177_L	1.196	0.95
129_E	133_Q	1.195	0.95
183_V	213_I	1.194	0.95
22_L	32_L	1.193	0.95
137_L	141_R	1.184	0.95
18_L	22_L	1.183	0.95
59_Y	65_N	1.183	0.95
75_Y	88_D	1.181	0.95
85_A	89_D	1.180	0.95
190_W	197_P	1.177	0.95
97_R	123_G	1.173	0.95
20_L	24_S	1.168	0.95
15_L	18_L	1.157	0.94
36_S	40_S	1.155	0.94
29_L	38_S	1.151	0.94
81_P	148_Y	1.150	0.94
100_E	104_A	1.138	0.94
139_L	166_L	1.119	0.93
25_L	29_L	1.115	0.93
16_L	19_L	1.106	0.93
118_D	121_G	1.105	0.93
51_S	183_V	1.097	0.93
140_L	166_L	1.077	0.92
181_A	208_R	1.073	0.92
180_H	208_R	1.072	0.92
24_S	28_L	1.067	0.92
52_P	55_D	1.067	0.92
15_L	25_L	1.064	0.91
138_N	210_F	1.051	0.91
129_E	172_Y	1.045	0.91
103_A	110_P	1.023	0.90
74_I	77_G	1.023	0.90
14_L	19_L	1.016	0.89
49_S	59_Y	1.012	0.89
20_L	35_S	1.011	0.89
48_S	54_L	1.010	0.89
104_A	109_P	1.010	0.89
103_A	108_L	1.004	0.89
133_Q	172_Y	1.003	0.89
19_L	22_L	0.994	0.88
140_L	144_L	0.989	0.88
49_S	52_P	0.978	0.88
130_V	177_L	0.971	0.87
130_V	183_V	0.957	0.86
22_L	34_L	0.956	0.86
18_L	25_L	0.954	0.86
128_L	217_A	0.953	0.86
96_I	128_L	0.941	0.85
24_S	27_L	0.941	0.85
21_L	39_S	0.939	0.85
77_G	83_V	0.934	0.85
215_E	218_E	0.926	0.85
103_A	124_Y	0.914	0.84
146_P	149_Y	0.914	0.84
131_F	217_A	0.912	0.84
117_P	120_D	0.905	0.83
144_L	147_D	0.901	0.83
33_L	36_S	0.900	0.83
32_L	35_S	0.900	0.83
75_Y	174_R	0.897	0.83
129_E	176_S	0.897	0.83
176_S	180_H	0.892	0.82
186_E	201_F	0.891	0.82
181_A	210_F	0.887	0.82
19_L	26_L	0.884	0.82
27_L	31_A	0.878	0.81
96_I	126_A	0.873	0.81
140_L	170_L	0.870	0.81
133_Q	176_S	0.869	0.81
186_E	202_N	0.869	0.81
20_L	25_L	0.866	0.80
26_L	30_L	0.866	0.80
184_T	205_H	0.865	0.80
13_L	34_L	0.862	0.80
98_I	102_E	0.859	0.80
59_Y	64_F	0.852	0.79
44_L	48_S	0.850	0.79
83_V	149_Y	0.844	0.79
116_I	121_G	0.843	0.79
126_A	185_L	0.840	0.78
29_L	35_S	0.840	0.78
38_S	42_D	0.837	0.78
181_A	213_I	0.828	0.77
182_D	217_A	0.827	0.77
46_S	49_S	0.823	0.77
47_L	52_P	0.822	0.77
114_V	121_G	0.818	0.76
129_E	175_Q	0.807	0.75
14_L	21_L	0.804	0.75
119_E	122_G	0.803	0.75
92_D	100_E	0.801	0.75
15_L	21_L	0.799	0.75
69_F	75_Y	0.795	0.74
36_S	39_S	0.795	0.74
26_L	43_C	0.792	0.74
127_G	186_E	0.789	0.74
145_Y	167_D	0.786	0.73
103_A	107_G	0.785	0.73
80_S	84_D	0.784	0.73
89_D	218_E	0.783	0.73
175_Q	190_W	0.783	0.73
19_L	25_L	0.782	0.73
140_L	147_D	0.781	0.73
95_A	99_P	0.779	0.73
75_Y	86_A	0.779	0.73
128_L	185_L	0.778	0.73
49_S	64_F	0.778	0.73
17_L	25_L	0.778	0.73
176_S	181_A	0.774	0.72
145_Y	149_Y	0.770	0.72
16_L	37_S	0.768	0.72
211_D	214_R	0.764	0.71
51_S	55_D	0.760	0.71
140_L	160_E	0.754	0.70
129_E	184_T	0.753	0.70
26_L	32_L	0.749	0.70
17_L	34_L	0.747	0.70
103_A	187_T	0.745	0.69
22_L	25_L	0.742	0.69
143_A	166_L	0.737	0.69
17_L	20_L	0.734	0.68
114_V	119_E	0.734	0.68
18_L	40_S	0.733	0.68
79_P	149_Y	0.728	0.68
115_K	118_D	0.722	0.67
100_E	124_Y	0.721	0.67
213_I	217_A	0.715	0.66
98_I	103_A	0.714	0.66
45_K	51_S	0.710	0.66
8_R	12_R	0.706	0.65
8_R	22_L	0.702	0.65
20_L	23_L	0.700	0.65
19_L	42_D	0.699	0.65
178_M	203_T	0.698	0.64
46_S	50_Y	0.697	0.64
18_L	24_S	0.695	0.64
49_S	53_A	0.692	0.64
99_P	123_G	0.692	0.64
14_L	18_L	0.688	0.63
178_M	218_E	0.688	0.63
8_R	20_L	0.685	0.63
178_M	183_V	0.685	0.63
129_E	205_H	0.685	0.63
28_L	41_C	0.683	0.63
9_R	12_R	0.680	0.62
16_L	35_S	0.677	0.62
39_S	43_C	0.676	0.62
138_N	148_Y	0.673	0.62
114_V	117_P	0.671	0.61
10_W	13_L	0.668	0.61
126_A	187_T	0.668	0.61
172_Y	185_L	0.665	0.61
98_I	106_L	0.663	0.60
26_L	39_S	0.661	0.60
33_L	41_C	0.660	0.60
50_Y	55_D	0.659	0.60
20_L	36_S	0.654	0.59
61_T	204_V	0.653	0.59
19_L	30_L	0.653	0.59
50_Y	53_A	0.652	0.59
23_L	26_L	0.652	0.59
208_R	213_I	0.652	0.59
15_L	38_S	0.652	0.59
29_L	34_L	0.650	0.59
179_C	207_C	0.646	0.58
95_A	98_I	0.643	0.58
54_L	61_T	0.643	0.58
21_L	37_S	0.643	0.58
167_D	174_R	0.633	0.57
108_L	177_L	0.631	0.57
29_L	32_L	0.631	0.57
27_L	39_S	0.630	0.57
157_G	161_E	0.630	0.57
101_E	104_A	0.629	0.56
128_L	131_F	0.626	0.56
109_P	126_A	0.625	0.56
129_E	173_L	0.621	0.55
32_L	39_S	0.619	0.55
59_Y	216_W	0.618	0.55
131_F	138_N	0.614	0.55
77_G	80_S	0.613	0.55
21_L	28_L	0.609	0.54
154_L	157_G	0.608	0.54
139_L	146_P	0.605	0.54
81_P	85_A	0.602	0.53
138_N	208_R	0.602	0.53
129_E	203_T	0.598	0.53
15_L	32_L	0.597	0.53
14_L	17_L	0.596	0.52
26_L	29_L	0.592	0.52
8_R	11_R	0.588	0.52
51_S	57_I	0.586	0.51
37_S	40_S	0.586	0.51
14_L	39_S	0.585	0.51
23_L	219_E	0.584	0.51
116_I	119_E	0.582	0.51
16_L	30_L	0.581	0.51
107_G	184_T	0.579	0.50
136_C	169_C	0.578	0.50
23_L	30_L	0.575	0.50
95_A	201_F	0.573	0.50
94_G	204_V	0.572	0.50
117_P	121_G	0.566	0.49
153_G	159_P	0.566	0.49
129_E	201_F	0.566	0.49
13_L	18_L	0.565	0.49
19_L	34_L	0.562	0.48
24_S	30_L	0.562	0.48
19_L	33_L	0.560	0.48
54_L	59_Y	0.554	0.47
51_S	54_L	0.552	0.47
190_W	196_G	0.552	0.47
137_L	140_L	0.551	0.47
26_L	37_S	0.551	0.47
75_Y	167_D	0.549	0.47
133_Q	201_F	0.547	0.47
127_G	130_V	0.545	0.46
151_Y	154_L	0.539	0.46
17_L	42_D	0.538	0.45
39_S	42_D	0.538	0.45
11_R	20_L	0.537	0.45
129_E	210_F	0.536	0.45
174_R	205_H	0.534	0.45
185_L	206_T	0.534	0.45
16_L	23_L	0.533	0.45
214_R	218_E	0.532	0.45
37_S	41_C	0.531	0.45
13_L	25_L	0.530	0.45
19_L	32_L	0.530	0.45
12_R	16_L	0.528	0.44
151_Y	159_P	0.527	0.44
196_G	200_D	0.527	0.44
10_W	14_L	0.526	0.44
153_G	158_P	0.524	0.44
26_L	34_L	0.524	0.44
49_S	55_D	0.524	0.44
169_C	179_C	0.522	0.44
126_A	190_W	0.517	0.43
54_L	57_I	0.516	0.43
98_I	107_G	0.509	0.42
48_S	51_S	0.509	0.42
156_D	185_L	0.509	0.42
148_Y	187_T	0.508	0.42
31_A	34_L	0.507	0.42
28_L	32_L	0.507	0.42
171_D	178_M	0.506	0.42
98_I	185_L	0.506	0.42
68_S	175_Q	0.505	0.42
14_L	20_L	0.505	0.42
34_L	40_S	0.503	0.41
176_S	205_H	0.500	0.41

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
4xtrG	1	0.1	31.9	0.935	Contact Map
3j2vC	4	0.4045	20.2	0.941	Contact Map
2xf7A	3	0.1909	15.9	0.944	Contact Map
3v6zE	1	0.4318	15.9	0.944	Contact Map
3kxsF	2	0.4045	14.9	0.945	Contact Map
3hd7A	1	0.1636	11.4	0.947	Contact Map
4um9B	2	0	5.9	0.954	Contact Map
2kngA	1	0.1136	5.8	0.954	Contact Map
2m8rA	1	0.1682	5.1	0.955	Contact Map
2kncA	1	0.2318	3.4	0.959	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 0.0078 seconds.