DUF2238 - PFAM28P - GREMLIN Contacts

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

DUF2238 - Predicted membrane protein (DUF2238)

PFAM:	PF09997	Sequences: LIGLPLLVATYRRFPLTPLSYTLIFLHALLLMVGGHYTYAEVPLGFWLQDLFGLSRNHYDRLGHFAQGFVPAIPAREILLRKAPLRGWLFFLVVCVCLAISALYELIEWWAALALGPEAADAFLGTQGDVWDTQKDMALA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	140 (138)
Sequences:	8954 (5297)
Seq/√Len:	450.9
META:	0.916

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
95_C	99_A	2.906	1.00
30_L	66_A	2.642	1.00
46_F	49_Q	2.571	1.00
111_A	115_L	2.492	1.00
67_Q	100_I	2.274	1.00
91_F	95_C	2.155	1.00
54_L	58_H	2.037	1.00
90_F	94_V	2.036	1.00
45_G	48_L	2.034	1.00
33_V	42_V	2.033	1.00
98_L	102_A	2.023	1.00
102_A	106_L	1.962	1.00
20_S	73_I	1.952	1.00
110_W	114_A	1.920	1.00
61_R	135_K	1.841	1.00
48_L	62_L	1.798	1.00
58_H	61_R	1.781	1.00
72_A	93_V	1.772	1.00
29_L	33_V	1.743	1.00
18_P	22_T	1.688	1.00
89_L	93_V	1.661	1.00
5_P	9_A	1.636	1.00
135_K	138_A	1.632	1.00
92_L	96_V	1.613	1.00
103_L	110_W	1.567	1.00
66_A	70_V	1.559	1.00
17_T	77_E	1.529	1.00
80_L	89_L	1.519	1.00
115_L	118_E	1.482	1.00
46_F	50_D	1.479	1.00
75_A	96_V	1.439	1.00
28_A	32_M	1.432	1.00
106_L	110_W	1.388	1.00
129_D	135_K	1.386	1.00
115_L	119_A	1.378	1.00
32_M	35_G	1.361	1.00
118_E	121_D	1.360	1.00
8_V	11_Y	1.355	1.00
41_E	122_A	1.352	1.00
3_G	74_P	1.344	1.00
109_W	113_L	1.328	1.00
90_F	93_V	1.327	1.00
20_S	74_P	1.321	1.00
104_Y	123_F	1.291	1.00
11_Y	21_Y	1.257	1.00
49_Q	54_L	1.255	1.00
135_K	139_L	1.252	1.00
16_L	24_I	1.232	1.00
76_R	80_L	1.227	1.00
110_W	113_L	1.225	1.00
41_E	46_F	1.222	1.00
103_L	106_L	1.217	1.00
47_W	51_L	1.211	1.00
93_V	97_C	1.207	1.00
30_L	63_G	1.200	1.00
121_D	126_T	1.198	1.00
23_L	70_V	1.192	1.00
96_V	100_I	1.177	1.00
34_G	59_Y	1.175	1.00
61_R	129_D	1.174	1.00
121_D	130_V	1.170	1.00
10_T	14_F	1.156	1.00
25_F	32_M	1.156	1.00
42_V	45_G	1.136	1.00
29_L	32_M	1.133	1.00
119_A	122_A	1.131	1.00
10_T	21_Y	1.129	1.00
86_R	90_F	1.066	1.00
22_T	26_L	1.063	1.00
93_V	99_A	1.062	1.00
115_L	121_D	1.062	1.00
72_A	97_C	1.055	1.00
38_T	41_E	1.051	1.00
99_A	102_A	1.050	1.00
55_S	58_H	1.040	1.00
48_L	54_L	1.035	1.00
112_A	120_A	1.027	1.00
86_R	89_L	1.027	1.00
109_W	138_A	1.016	1.00
26_L	66_A	1.010	1.00
11_Y	15_P	1.005	1.00
94_V	98_L	1.002	1.00
15_P	18_P	0.992	1.00
12_R	15_P	0.976	1.00
80_L	83_A	0.968	1.00
9_A	13_R	0.967	1.00
44_L	48_L	0.959	1.00
87_G	90_F	0.947	1.00
45_G	62_L	0.940	1.00
96_V	99_A	0.938	1.00
48_L	52_F	0.933	1.00
106_L	138_A	0.932	1.00
102_A	137_M	0.929	1.00
24_I	28_A	0.924	1.00
16_L	20_S	0.913	1.00
110_W	138_A	0.910	1.00
33_V	44_L	0.908	1.00
116_G	119_A	0.907	1.00
7_L	10_T	0.899	1.00
92_L	95_C	0.891	1.00
5_P	8_V	0.890	1.00
67_Q	101_S	0.882	1.00
79_L	96_V	0.879	1.00
75_A	93_V	0.868	1.00
22_T	25_F	0.854	1.00
131_W	134_Q	0.852	1.00
79_L	85_L	0.846	1.00
9_A	12_R	0.846	1.00
7_L	21_Y	0.845	1.00
27_H	31_L	0.840	1.00
45_G	58_H	0.837	1.00
23_L	73_I	0.834	1.00
48_L	51_L	0.814	1.00
4_L	8_V	0.810	1.00
63_G	67_Q	0.801	1.00
79_L	92_L	0.796	1.00
61_R	139_L	0.794	1.00
98_L	103_L	0.787	1.00
10_T	13_R	0.776	1.00
83_A	87_G	0.775	1.00
47_W	50_D	0.774	1.00
107_I	111_A	0.772	1.00
84_P	88_W	0.767	1.00
24_I	74_P	0.767	1.00
51_L	54_L	0.761	1.00
19_L	23_L	0.761	1.00
20_S	77_E	0.759	1.00
14_F	82_K	0.756	1.00
20_S	27_H	0.754	1.00
33_V	37_Y	0.750	1.00
6_L	10_T	0.749	1.00
45_G	51_L	0.748	1.00
24_I	71_P	0.742	1.00
72_A	76_R	0.737	1.00
83_A	88_W	0.735	1.00
94_V	106_L	0.734	1.00
84_P	89_L	0.731	1.00
10_T	16_L	0.725	1.00
113_L	135_K	0.723	1.00
109_W	135_K	0.715	1.00
65_F	139_L	0.715	1.00
44_L	62_L	0.713	1.00
126_T	133_T	0.712	1.00
45_G	50_D	0.710	1.00
58_H	139_L	0.709	1.00
79_L	83_A	0.689	1.00
2_I	5_P	0.688	1.00
78_I	82_K	0.685	1.00
20_S	23_L	0.683	1.00
66_A	69_F	0.680	1.00
79_L	89_L	0.676	1.00
46_F	62_L	0.671	1.00
33_V	36_H	0.656	1.00
106_L	134_Q	0.656	1.00
88_W	91_F	0.630	0.99
75_A	97_C	0.627	0.99
107_I	123_F	0.625	0.99
118_E	122_A	0.622	0.99
25_F	28_A	0.617	0.99
83_A	86_R	0.612	0.99
126_T	130_V	0.612	0.99
51_L	55_S	0.595	0.99
125_G	133_T	0.593	0.99
95_C	103_L	0.593	0.99
44_L	51_L	0.588	0.99
36_H	41_E	0.585	0.99
63_G	66_A	0.584	0.99
85_L	89_L	0.584	0.99
7_L	24_I	0.583	0.99
112_A	116_G	0.583	0.99
16_L	21_Y	0.578	0.99
25_F	29_L	0.576	0.99
91_F	100_I	0.574	0.99
46_F	51_L	0.571	0.99
100_I	103_L	0.571	0.99
22_T	29_L	0.570	0.99
49_Q	55_S	0.568	0.99
79_L	84_P	0.563	0.99
75_A	95_C	0.555	0.99
11_Y	14_F	0.554	0.99
53_G	56_R	0.554	0.99
52_F	56_R	0.552	0.98
17_T	20_S	0.551	0.98
70_V	74_P	0.547	0.98
122_A	125_G	0.541	0.98
101_S	137_M	0.541	0.98
58_H	62_L	0.540	0.98
68_G	71_P	0.539	0.98
44_L	49_Q	0.539	0.98
126_T	134_Q	0.537	0.98
104_Y	125_G	0.533	0.98
45_G	49_Q	0.532	0.98
14_F	81_R	0.532	0.98
91_F	96_V	0.531	0.98
28_A	31_L	0.526	0.98
120_A	124_L	0.524	0.98
88_W	93_V	0.523	0.98
122_A	126_T	0.517	0.98
112_A	126_T	0.513	0.98
52_F	58_H	0.513	0.98
11_Y	18_P	0.512	0.98
67_Q	71_P	0.510	0.97
70_V	73_I	0.505	0.97
98_L	137_M	0.503	0.97
19_L	73_I	0.502	0.97
37_Y	43_P	0.502	0.97
71_P	74_P	0.500	0.97

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
2ls2A	1	0.1786	3.8	0.945	Contact Map
4njnA	4	0.45	2.3	0.951	Contact Map
2nr9A	2	0.5143	2.1	0.952	Contact Map
3tj6B	1	0.0929	1.8	0.953	Contact Map
4pd6A	3	0.5357	1.6	0.955	Contact Map
2cvcA	1	0.0643	1.5	0.955	Contact Map
2o9gA	3	0.6	1.4	0.956	Contact Map
2a40C	1	0.0714	1.4	0.957	Contact Map
3ze3A	4	0.5857	1.3	0.957	Contact Map
3p5nA	2	0.5286	1.1	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 0.006 seconds.