YitT_membrane - PFAM28P - GREMLIN Contacts

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YitT_membrane - Uncharacterised 5xTM membrane BCR, YitT family COG1284

PFAM:	PF02588	Sequences: DYLLITLGALLAAFGLNLFLIPNGLADGGVTGIALLLSYLTGIPVGLLILLLNIPLLILGYKFLGKRFAIKTIYAVLLLSLFLDLLLPPPFPPLTDDPLLAAIFGGVLLGIGIGLVFRGGGSTGGTDILALILNKKTGISIGKVILIIDVVIILAAGFVFGWETALYSLITLFVASKVIDFVLEGFNQSKAVFIISDKPEEIADAIM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	207 (204)
Sequences:	19634 (13061)
Seq/√Len:	914.5
META:	0.722

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
6_T	74_Y	4.703	1.00
198_K	201_E	4.673	1.00
4_L	119_G	3.034	1.00
30_V	52_L	2.973	1.00
10_L	82_F	2.779	1.00
46_G	84_D	2.619	1.00
17_N	86_L	2.529	1.00
104_F	166_L	2.519	1.00
177_K	181_F	2.451	1.00
196_S	199_P	2.302	1.00
13_A	82_F	2.208	1.00
200_E	204_D	2.204	1.00
37_L	48_L	2.186	1.00
157_G	165_A	2.177	1.00
14_F	18_L	2.175	1.00
58_I	62_K	2.155	1.00
9_A	78_L	2.069	1.00
161_G	164_T	2.051	1.00
37_L	41_T	1.996	1.00
15_G	109_L	1.948	1.00
8_G	112_G	1.946	1.00
61_Y	66_K	1.942	1.00
196_S	202_I	1.929	1.00
23_N	101_A	1.879	1.00
150_V	154_L	1.800	1.00
49_I	83_L	1.796	1.00
5_I	75_A	1.763	1.00
6_T	78_L	1.754	1.00
77_L	81_L	1.751	1.00
44_P	84_D	1.734	1.00
50_L	77_L	1.724	1.00
12_A	79_L	1.716	1.00
140_S	143_K	1.704	1.00
43_I	48_L	1.700	1.00
48_L	52_L	1.695	1.00
67_R	71_K	1.630	1.00
30_V	56_L	1.621	1.00
142_G	180_D	1.621	1.00
146_L	176_S	1.583	1.00
50_L	80_S	1.573	1.00
21_I	45_V	1.570	1.00
20_L	171_T	1.545	1.00
98_P	164_T	1.542	1.00
47_L	84_D	1.537	1.00
44_P	47_L	1.496	1.00
116_V	123_T	1.490	1.00
10_L	86_L	1.486	1.00
8_G	116_V	1.483	1.00
147_I	151_V	1.463	1.00
133_L	137_T	1.461	1.00
63_F	136_K	1.460	1.00
130_A	145_I	1.448	1.00
2_Y	71_K	1.443	1.00
102_A	106_G	1.404	1.00
78_L	82_F	1.387	1.00
111_I	182_V	1.385	1.00
26_A	156_A	1.381	1.00
126_T	148_I	1.379	1.00
20_L	105_G	1.370	1.00
68_F	122_S	1.367	1.00
114_G	182_V	1.326	1.00
151_V	155_A	1.324	1.00
61_Y	69_A	1.312	1.00
74_Y	78_L	1.300	1.00
63_F	132_I	1.289	1.00
15_G	112_G	1.269	1.00
157_G	162_W	1.261	1.00
59_L	63_F	1.257	1.00
38_S	45_V	1.255	1.00
81_L	84_D	1.240	1.00
57_L	76_V	1.231	1.00
5_I	121_G	1.220	1.00
59_L	132_I	1.220	1.00
12_A	112_G	1.212	1.00
24_G	39_Y	1.212	1.00
15_G	108_L	1.194	1.00
51_L	55_P	1.192	1.00
93_P	96_D	1.169	1.00
9_A	79_L	1.162	1.00
47_L	51_L	1.151	1.00
64_L	68_F	1.147	1.00
173_F	177_K	1.131	1.00
151_V	154_L	1.130	1.00
62_K	66_K	1.115	1.00
40_L	159_V	1.114	1.00
133_L	144_V	1.112	1.00
107_V	178_V	1.112	1.00
12_A	109_L	1.111	1.00
75_A	121_G	1.096	1.00
79_L	83_L	1.074	1.00
54_I	58_I	1.070	1.00
45_V	83_L	1.066	1.00
60_G	69_A	1.051	1.00
24_G	164_T	1.050	1.00
25_L	102_A	1.037	1.00
153_I	172_L	1.033	1.00
35_L	38_S	1.020	1.00
41_T	48_L	1.019	1.00
113_I	123_T	1.017	1.00
26_A	168_S	1.017	1.00
154_L	158_F	1.013	1.00
11_L	111_I	1.004	1.00
123_T	127_D	1.000	1.00
14_F	86_L	0.998	1.00
177_K	180_D	0.979	1.00
200_E	203_A	0.972	1.00
81_L	85_L	0.970	1.00
46_G	50_L	0.958	1.00
201_E	204_D	0.955	1.00
38_S	42_G	0.953	1.00
9_A	82_F	0.950	1.00
2_Y	6_T	0.947	1.00
139_I	144_V	0.946	1.00
46_G	80_S	0.945	1.00
117_F	131_L	0.942	1.00
63_F	135_K	0.942	1.00
34_A	49_I	0.941	1.00
161_G	165_A	0.941	1.00
45_V	49_I	0.939	1.00
34_A	48_L	0.939	1.00
43_I	47_L	0.939	1.00
90_P	93_P	0.935	1.00
102_A	171_T	0.935	1.00
107_V	173_F	0.930	1.00
6_T	82_F	0.928	1.00
4_L	115_L	0.927	1.00
56_L	128_I	0.921	1.00
148_I	152_I	0.899	1.00
99_L	167_Y	0.894	1.00
147_I	150_V	0.894	1.00
4_L	118_R	0.889	1.00
97_D	167_Y	0.888	1.00
113_I	117_F	0.887	1.00
96_D	163_E	0.884	1.00
2_Y	74_Y	0.884	1.00
57_L	72_T	0.881	1.00
55_P	59_L	0.876	1.00
36_L	155_A	0.868	1.00
58_I	61_Y	0.864	1.00
60_G	128_I	0.863	1.00
109_L	175_A	0.862	1.00
92_P	95_T	0.856	1.00
110_G	114_G	0.851	1.00
139_I	143_K	0.845	1.00
114_G	118_R	0.839	1.00
9_A	75_A	0.833	1.00
143_K	147_I	0.829	1.00
116_V	121_G	0.828	1.00
38_S	48_L	0.827	1.00
105_G	171_T	0.816	1.00
144_V	147_I	0.806	1.00
126_T	149_D	0.803	1.00
56_L	129_L	0.801	1.00
33_I	37_L	0.798	1.00
142_G	179_I	0.798	1.00
68_F	131_L	0.797	1.00
64_L	131_L	0.795	1.00
16_L	21_I	0.792	1.00
145_I	149_D	0.787	1.00
99_L	170_I	0.785	1.00
16_L	31_T	0.783	1.00
134_N	138_G	0.783	1.00
66_K	69_A	0.781	1.00
21_I	35_L	0.774	1.00
132_I	136_K	0.772	1.00
49_I	80_S	0.771	1.00
126_T	152_I	0.771	1.00
178_V	181_F	0.770	1.00
201_E	205_A	0.757	1.00
131_L	141_I	0.755	1.00
70_I	74_Y	0.753	1.00
172_L	176_S	0.751	1.00
148_I	151_V	0.749	1.00
11_L	108_L	0.748	1.00
6_T	9_A	0.746	1.00
95_T	163_E	0.740	1.00
155_A	158_F	0.737	1.00
3_L	7_L	0.736	1.00
97_D	163_E	0.733	1.00
66_K	70_I	0.731	1.00
21_I	38_S	0.730	1.00
33_I	155_A	0.727	1.00
9_A	13_A	0.721	1.00
199_P	203_A	0.718	1.00
82_F	86_L	0.713	1.00
82_F	85_L	0.708	1.00
92_P	96_D	0.707	1.00
27_D	35_L	0.706	1.00
89_P	92_P	0.699	1.00
55_P	58_I	0.696	1.00
115_L	119_G	0.696	1.00
13_A	86_L	0.695	1.00
31_T	49_I	0.694	1.00
103_I	174_V	0.692	1.00
48_L	51_L	0.689	1.00
37_L	52_L	0.688	1.00
100_L	104_F	0.684	1.00
122_S	131_L	0.678	1.00
57_L	73_I	0.675	1.00
131_L	135_K	0.672	1.00
90_P	94_L	0.669	1.00
7_L	11_L	0.668	1.00
12_A	15_G	0.667	1.00
199_P	202_I	0.659	1.00
57_L	128_I	0.655	1.00
30_V	34_A	0.655	1.00
106_G	171_T	0.652	1.00
39_Y	160_F	0.650	1.00
117_F	127_D	0.647	1.00
60_G	68_F	0.645	1.00
149_D	172_L	0.643	1.00
16_L	79_L	0.642	1.00
89_P	93_P	0.637	1.00
77_L	80_S	0.636	1.00
98_P	101_A	0.634	1.00
20_L	27_D	0.634	1.00
17_N	21_I	0.633	1.00
134_N	141_I	0.633	1.00
31_T	79_L	0.628	1.00
100_L	166_L	0.627	1.00
13_A	83_L	0.624	1.00
184_E	188_Q	0.624	1.00
111_I	115_L	0.623	1.00
15_G	20_L	0.623	1.00
36_L	159_V	0.619	1.00
146_L	173_F	0.619	1.00
175_A	179_I	0.618	1.00
98_P	102_A	0.616	1.00
176_S	179_I	0.615	1.00
102_A	170_I	0.613	1.00
98_P	167_Y	0.613	1.00
150_V	169_L	0.610	1.00
49_I	79_L	0.607	1.00
9_A	116_V	0.606	1.00
102_A	174_V	0.601	1.00
91_F	94_L	0.600	1.00
19_F	104_F	0.598	1.00
33_I	152_I	0.598	1.00
202_I	206_I	0.593	1.00
117_F	145_I	0.592	1.00
72_T	122_S	0.590	1.00
72_T	128_I	0.588	1.00
79_L	82_F	0.587	1.00
36_L	152_I	0.587	1.00
157_G	161_G	0.585	1.00
145_I	179_I	0.584	1.00
30_V	126_T	0.584	1.00
134_N	144_V	0.583	1.00
36_L	156_A	0.581	1.00
130_A	144_V	0.579	1.00
98_P	163_E	0.579	1.00
142_G	176_S	0.578	1.00
76_V	80_S	0.578	1.00
179_I	183_L	0.574	1.00
154_L	169_L	0.573	1.00
131_L	134_N	0.572	1.00
71_K	121_G	0.571	1.00
89_P	94_L	0.571	1.00
35_L	39_Y	0.571	1.00
35_L	45_V	0.569	1.00
12_A	113_I	0.568	1.00
33_I	148_I	0.565	1.00
113_I	149_D	0.565	1.00
143_K	180_D	0.563	1.00
100_L	167_Y	0.561	1.00
13_A	79_L	0.561	1.00
15_G	19_F	0.561	1.00
11_L	115_L	0.561	1.00
80_S	84_D	0.558	1.00
25_L	171_T	0.556	1.00
8_G	75_A	0.554	1.00
88_P	91_F	0.554	1.00
202_I	205_A	0.553	1.00
50_L	54_I	0.553	1.00
160_F	164_T	0.549	1.00
19_F	101_A	0.549	1.00
29_G	32_G	0.548	1.00
25_L	98_P	0.543	1.00
153_I	156_A	0.543	1.00
59_L	62_K	0.540	1.00
145_I	176_S	0.538	1.00
36_L	40_L	0.537	1.00
53_N	76_V	0.534	1.00
137_T	144_V	0.531	1.00
37_L	40_L	0.530	1.00
12_A	123_T	0.528	1.00
114_G	183_L	0.527	1.00
62_K	80_S	0.527	1.00
4_L	7_L	0.526	1.00
50_L	53_N	0.525	1.00
117_F	130_A	0.524	1.00
26_A	35_L	0.522	1.00
113_I	179_I	0.521	1.00
88_P	94_L	0.520	1.00
47_L	50_L	0.518	1.00
181_F	186_F	0.516	1.00
155_A	159_V	0.513	1.00
103_I	170_I	0.509	1.00
26_A	152_I	0.506	1.00
143_K	146_L	0.506	1.00
75_A	123_T	0.503	1.00
64_L	135_K	0.502	1.00
69_A	73_I	0.501	1.00
24_G	38_S	0.501	1.00
44_P	48_L	0.501	1.00
136_K	144_V	0.500	1.00

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	0.8889	3.5	0.951	Contact Map
1yo3A	2	0.087	2.4	0.955	Contact Map
4q46A	1	0.3816	2	0.957	Contact Map
2cfqA	1	0.8599	2	0.957	Contact Map
3j1zP	8	0.9227	1.5	0.96	Contact Map
4ikvA	1	0.8889	1.4	0.961	Contact Map
4f0zC	1	0.087	1.3	0.961	Contact Map
4oh3A	2	0.9179	1.3	0.961	Contact Map
4he8K	1	0.4348	1.3	0.961	Contact Map
3b5dA	2	0.4638	1.3	0.961	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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