SfLAP - PFAM28P - GREMLIN Contacts

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SfLAP - Sap, sulfolipid-1-addressing protein

PFAM:	PF11139	Sequences: LLPLALAAALSPTPLAAVILLLLSPRPRRNGLAFLLGWLLGLLAVGLVVVLVLGGAGASSSSSPSTWVAVLDLVLGVLLLLLAVRLWRRRPRPGEPAKPPKWMARLDRASPGGAFGLGALLGLVNPKPLLLYLAALAAIAAAGLSTAEQVLALLVFVLIALLPVLVPLLLYLVAPERAEALLERLRDWLERHNRAVMAVLLLVLGVLLLGKGIS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	214 (213)
Sequences:	8751 (6824)
Seq/√Len:	467.5
META:	0.869

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
26_R	29_R	3.555	1.00
70_V	74_V	2.714	1.00
73_L	212_G	2.503	1.00
179_E	183_E	2.501	1.00
46_G	153_L	2.460	1.00
181_L	184_R	2.450	1.00
188_W	192_H	2.414	1.00
85_R	89_R	2.399	1.00
192_H	195_A	2.384	1.00
83_A	202_L	2.243	1.00
177_R	181_L	2.238	1.00
183_E	187_D	2.128	1.00
73_L	209_L	2.109	1.00
67_W	71_L	2.073	1.00
5_A	159_I	2.063	1.00
76_G	205_G	2.062	1.00
116_G	120_L	2.026	1.00
76_G	209_L	1.988	1.00
66_T	70_V	1.986	1.00
170_L	178_A	1.981	1.00
47_L	51_L	1.967	1.00
35_L	165_L	1.908	1.00
132_Y	136_L	1.906	1.00
169_L	173_V	1.885	1.00
187_D	191_R	1.880	1.00
207_L	211_K	1.874	1.00
180_A	184_R	1.854	1.00
7_A	131_L	1.789	1.00
38_W	161_L	1.739	1.00
118_G	122_G	1.706	1.00
39_L	161_L	1.703	1.00
84_V	88_R	1.702	1.00
175_P	178_A	1.691	1.00
110_S	113_G	1.674	1.00
181_L	185_L	1.668	1.00
33_A	37_G	1.661	1.00
101_K	105_R	1.611	1.00
144_L	152_A	1.510	1.00
142_A	149_Q	1.509	1.00
83_A	198_A	1.507	1.00
146_T	150_V	1.500	1.00
46_G	132_Y	1.495	1.00
81_L	85_R	1.493	1.00
28_R	172_L	1.482	1.00
174_A	177_R	1.481	1.00
145_S	148_E	1.479	1.00
37_G	115_F	1.479	1.00
109_A	113_G	1.475	1.00
144_L	148_E	1.474	1.00
46_G	136_L	1.462	1.00
11_S	14_P	1.458	1.00
186_R	190_E	1.450	1.00
80_L	84_V	1.445	1.00
24_S	30_N	1.441	1.00
104_A	107_D	1.426	1.00
177_R	180_A	1.422	1.00
166_V	170_L	1.420	1.00
47_L	153_L	1.405	1.00
9_A	162_L	1.404	1.00
80_L	205_G	1.374	1.00
176_E	179_E	1.361	1.00
117_L	120_L	1.359	1.00
50_V	149_Q	1.347	1.00
109_A	114_A	1.329	1.00
195_A	199_V	1.321	1.00
153_L	157_V	1.312	1.00
199_V	203_V	1.305	1.00
77_V	81_L	1.304	1.00
105_R	108_R	1.290	1.00
102_W	107_D	1.287	1.00
175_P	179_E	1.287	1.00
31_G	168_L	1.283	1.00
117_L	121_L	1.283	1.00
113_G	116_G	1.260	1.00
41_G	122_G	1.239	1.00
144_L	149_Q	1.223	1.00
115_F	119_A	1.217	1.00
87_W	90_R	1.217	1.00
18_V	22_L	1.201	1.00
119_A	123_L	1.199	1.00
185_L	189_L	1.194	1.00
112_G	116_G	1.189	1.00
165_L	169_L	1.184	1.00
32_L	172_L	1.174	1.00
148_E	151_L	1.165	1.00
134_A	138_A	1.148	1.00
35_L	168_L	1.147	1.00
49_V	133_L	1.140	1.00
170_L	181_L	1.124	1.00
83_A	87_W	1.116	1.00
102_W	105_R	1.105	1.00
100_P	103_M	1.099	1.00
29_R	32_L	1.094	1.00
49_V	136_L	1.087	1.00
42_L	157_V	1.084	1.00
8_A	156_F	1.081	1.00
135_A	156_F	1.080	1.00
71_L	75_L	1.072	1.00
30_N	114_A	1.066	1.00
38_W	42_L	1.065	1.00
43_L	47_L	1.064	1.00
98_K	101_K	1.058	1.00
178_A	181_L	1.051	1.00
139_I	152_A	1.048	1.00
4_L	135_A	1.041	1.00
2_L	155_V	1.036	1.00
92_R	95_E	1.034	1.00
152_A	155_V	1.033	1.00
48_V	52_V	1.020	1.00
194_R	198_A	1.019	1.00
87_W	198_A	1.009	1.00
8_A	11_S	1.008	1.00
21_L	24_S	1.006	1.00
73_L	76_G	1.006	1.00
3_P	7_A	0.995	1.00
187_D	190_E	0.993	1.00
38_W	122_G	0.991	1.00
43_L	157_V	0.991	1.00
95_E	98_K	0.988	1.00
73_L	77_V	0.983	1.00
170_L	174_A	0.979	1.00
26_R	30_N	0.973	1.00
27_P	30_N	0.967	1.00
86_L	198_A	0.964	1.00
142_A	152_A	0.959	1.00
50_V	153_L	0.957	1.00
45_V	49_V	0.951	1.00
122_G	125_N	0.950	1.00
76_G	80_L	0.947	1.00
82_L	201_L	0.946	1.00
64_P	68_V	0.944	1.00
40_L	44_A	0.942	1.00
164_V	167_P	0.936	1.00
105_R	113_G	0.927	1.00
41_G	45_V	0.926	1.00
206_V	210_G	0.926	1.00
200_L	204_L	0.918	1.00
145_S	149_Q	0.916	1.00
174_A	181_L	0.909	1.00
136_L	140_A	0.903	1.00
102_W	106_L	0.902	1.00
161_L	165_L	0.900	1.00
110_S	118_G	0.896	1.00
65_S	68_V	0.889	1.00
14_P	17_A	0.888	1.00
99_P	105_R	0.882	1.00
120_L	123_L	0.878	1.00
6_L	10_L	0.878	1.00
52_V	56_A	0.876	1.00
147_A	151_L	0.874	1.00
83_A	205_G	0.869	1.00
115_F	118_G	0.867	1.00
103_M	106_L	0.867	1.00
29_R	33_A	0.863	1.00
156_F	160_A	0.855	1.00
33_A	111_P	0.852	1.00
151_L	155_V	0.849	1.00
13_T	16_A	0.848	1.00
132_Y	156_F	0.847	1.00
43_L	46_G	0.846	1.00
64_P	69_A	0.839	1.00
98_K	102_W	0.839	1.00
72_D	211_K	0.838	1.00
101_K	104_A	0.838	1.00
130_L	133_L	0.833	1.00
91_P	94_G	0.833	1.00
79_L	83_A	0.832	1.00
28_R	32_L	0.831	1.00
198_A	202_L	0.826	1.00
91_P	95_E	0.826	1.00
198_A	201_L	0.826	1.00
32_L	168_L	0.824	1.00
80_L	83_A	0.824	1.00
47_L	150_V	0.815	1.00
39_L	157_V	0.815	1.00
2_L	5_A	0.813	1.00
111_P	114_A	0.812	1.00
42_L	161_L	0.812	1.00
129_L	133_L	0.806	1.00
97_A	103_M	0.803	1.00
50_V	139_I	0.802	1.00
166_V	169_L	0.800	1.00
69_A	72_D	0.787	1.00
201_L	204_L	0.786	1.00
139_I	153_L	0.784	1.00
96_P	99_P	0.784	1.00
72_D	137_A	0.779	1.00
8_A	160_A	0.778	1.00
114_A	118_G	0.778	1.00
119_A	125_N	0.777	1.00
39_L	158_L	0.774	1.00
43_L	154_L	0.767	1.00
184_R	187_D	0.765	1.00
6_L	9_A	0.763	1.00
25_P	29_R	0.759	1.00
128_P	131_L	0.759	1.00
28_R	31_G	0.758	1.00
107_D	110_S	0.757	1.00
98_K	104_A	0.756	1.00
155_V	159_I	0.752	1.00
42_L	132_Y	0.751	1.00
67_W	70_V	0.742	1.00
112_G	115_F	0.740	1.00
84_V	87_W	0.737	1.00
21_L	30_N	0.736	1.00
51_L	146_T	0.733	1.00
59_S	63_S	0.729	1.00
111_P	115_F	0.729	1.00
13_T	17_A	0.728	1.00
202_L	210_G	0.724	1.00
129_L	136_L	0.721	1.00
77_V	209_L	0.720	1.00
157_V	160_A	0.720	1.00
139_I	149_Q	0.718	1.00
49_V	52_V	0.713	1.00
118_G	121_L	0.712	1.00
35_L	164_V	0.703	1.00
45_V	126_P	0.703	1.00
28_R	175_P	0.702	1.00
203_V	206_V	0.701	1.00
163_P	167_P	0.701	1.00
119_A	122_G	0.696	1.00
99_P	102_W	0.694	1.00
109_A	112_G	0.690	1.00
35_L	39_L	0.689	1.00
165_L	168_L	0.688	1.00
19_I	22_L	0.688	1.00
85_R	88_R	0.688	1.00
132_Y	157_V	0.684	1.00
82_L	86_L	0.682	1.00
83_A	86_L	0.679	1.00
207_L	210_G	0.668	1.00
40_L	115_F	0.667	1.00
209_L	213_I	0.664	1.00
4_L	134_A	0.662	1.00
79_L	201_L	0.657	1.00
19_I	23_L	0.655	1.00
131_L	134_A	0.655	1.00
68_V	137_A	0.652	1.00
132_Y	135_A	0.652	1.00
46_G	53_L	0.649	1.00
188_W	191_R	0.646	1.00
158_L	165_L	0.643	1.00
17_A	20_L	0.642	1.00
137_A	141_A	0.639	1.00
135_A	139_I	0.637	1.00
94_G	102_W	0.636	1.00
162_L	166_V	0.636	1.00
108_R	113_G	0.630	0.99
69_A	212_G	0.625	0.99
5_A	9_A	0.624	0.99
41_G	119_A	0.624	0.99
189_L	192_H	0.623	0.99
94_G	103_M	0.619	0.99
18_V	164_V	0.616	0.99
19_I	185_L	0.615	0.99
50_V	136_L	0.613	0.99
197_M	201_L	0.612	0.99
184_R	188_W	0.611	0.99
114_A	122_G	0.606	0.99
114_A	125_N	0.604	0.99
171_Y	175_P	0.604	0.99
27_P	171_Y	0.599	0.99
103_M	107_D	0.597	0.99
42_L	46_G	0.596	0.99
8_A	42_L	0.594	0.99
8_A	132_Y	0.593	0.99
9_A	12_P	0.592	0.99
94_G	97_A	0.590	0.99
75_L	134_A	0.587	0.99
136_L	153_L	0.586	0.99
202_L	205_G	0.580	0.99
14_P	38_W	0.577	0.99
7_A	204_L	0.577	0.99
74_V	78_L	0.577	0.99
68_V	72_D	0.571	0.99
147_A	150_V	0.569	0.99
8_A	131_L	0.566	0.99
45_V	123_L	0.566	0.99
44_A	47_L	0.564	0.99
118_G	125_N	0.562	0.99
3_P	6_L	0.562	0.99
44_A	51_L	0.561	0.99
121_L	125_N	0.560	0.99
46_G	49_V	0.556	0.99
148_E	152_A	0.553	0.99
109_A	116_G	0.552	0.99
170_L	177_R	0.543	0.98
146_T	149_Q	0.542	0.98
94_G	98_K	0.540	0.98
99_P	104_A	0.540	0.98
189_L	196_V	0.536	0.98
25_P	28_R	0.534	0.98
20_L	23_L	0.534	0.98
100_P	104_A	0.531	0.98
51_L	55_G	0.531	0.98
114_A	121_L	0.530	0.98
84_V	89_R	0.529	0.98
157_V	161_L	0.524	0.98
98_K	105_R	0.523	0.98
31_G	35_L	0.523	0.98
106_L	109_A	0.523	0.98
76_G	212_G	0.522	0.98
91_P	97_A	0.519	0.98
35_L	166_V	0.517	0.98
193_N	196_V	0.516	0.98
87_W	202_L	0.516	0.98
193_N	197_M	0.516	0.98
183_E	186_R	0.514	0.98
81_L	84_V	0.513	0.98
113_G	118_G	0.511	0.98
37_G	41_G	0.511	0.98
189_L	193_N	0.510	0.98
90_R	93_P	0.508	0.98
14_P	18_V	0.506	0.98
132_Y	153_L	0.503	0.98
23_L	186_R	0.502	0.97
154_L	158_L	0.502	0.97
21_L	31_G	0.501	0.97
86_L	197_M	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
3wdoA	1	0.8692	28.6	0.912	Contact Map
3giaA	1	0.4252	23.8	0.915	Contact Map
4m64A	1	0.8925	21.8	0.916	Contact Map
3j1zP	8	0.4813	19.8	0.918	Contact Map
3ne5A	3	0.8738	19.1	0.919	Contact Map
2wswA	3	0.3598	16.4	0.921	Contact Map
2gfpA	2	0.8692	12.9	0.925	Contact Map
3w9iA	3	0.8972	12.6	0.925	Contact Map
4c7rA	3	0.3037	12.5	0.925	Contact Map
4pxzA	1	0.9299	12.1	0.925	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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