RCLC - ECOLI - GREMLIN Contacts

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RCLC - Inner membrane protein RclC

UniProt:	P75685	Sequences: MEKYLHLLSRGDKIGLTLIRLSIAIVFMWIGLLKFVPYEADSITPFVANSPLMSFFYEHPEDYKQYLTHEGEYKPEARAWQTANNTYGFSNGLGVVEVIIALLVLANPVNRWLGLLGGLMAFTTPLVTLSFLITTPEAWVPALGDAHHGFPYLSGAGRLVLKDTLMLAGAVMIMADSAREILKQRSNESSSTLKTEY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13579
Length:	197 (182)
Sequences:	132 (81)
Seq/√Len:	6.0

ECOLI - RCLC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
69_H	72_E	3.419	0.86
22_S	168_A	3.289	0.84
75_P	79_A	2.880	0.75
24_A	105_L	2.796	0.72
55_F	93_L	2.687	0.69
44_T	57_Y	2.649	0.68
68_T	77_A	2.588	0.66
24_A	28_M	2.493	0.63
142_A	148_H	2.444	0.61
118_G	173_I	2.432	0.61
26_V	165_L	2.285	0.56
52_L	126_L	2.069	0.48
89_F	93_L	2.017	0.46
56_F	89_F	1.988	0.45
139_W	161_L	1.907	0.43
26_V	68_T	1.881	0.42
4_Y	102_L	1.858	0.41
60_P	66_Y	1.855	0.41
26_V	41_D	1.850	0.41
42_S	124_T	1.793	0.39
96_V	161_L	1.775	0.38
97_E	124_T	1.744	0.37
81_Q	111_R	1.723	0.36
73_Y	78_R	1.649	0.34
10_R	175_A	1.649	0.34
104_V	111_R	1.621	0.33
19_I	169_G	1.605	0.33
96_V	166_M	1.595	0.32
107_N	174_M	1.582	0.32
26_V	77_A	1.565	0.31
138_A	155_G	1.535	0.30
18_L	164_T	1.509	0.30
61_E	65_Q	1.496	0.29
45_P	48_A	1.495	0.29
58_E	85_N	1.484	0.29
72_E	139_W	1.471	0.29
179_R	183_K	1.466	0.28
65_Q	126_L	1.449	0.28
53_M	56_F	1.434	0.28
106_A	111_R	1.408	0.27
118_G	174_M	1.398	0.27
56_F	93_L	1.384	0.26
104_V	177_S	1.374	0.26
147_H	152_Y	1.362	0.26
88_G	95_V	1.351	0.25
14_I	17_T	1.350	0.25
48_A	61_E	1.345	0.25
48_A	60_P	1.343	0.25
27_F	121_A	1.337	0.25
56_F	92_G	1.334	0.25
85_N	88_G	1.305	0.24
42_S	97_E	1.303	0.24
9_S	66_Y	1.292	0.24
26_V	166_M	1.288	0.24
72_E	79_A	1.258	0.23
27_F	125_P	1.255	0.23
125_P	165_L	1.253	0.23
19_I	22_S	1.245	0.23
46_F	49_N	1.231	0.22
75_P	130_S	1.215	0.22
61_E	66_Y	1.213	0.22
53_M	89_F	1.202	0.21
89_F	92_G	1.199	0.21
28_M	105_L	1.186	0.21
74_K	119_L	1.181	0.21
27_F	35_F	1.179	0.21
109_V	121_A	1.178	0.21
83_A	99_I	1.175	0.21
177_S	180_E	1.174	0.21
23_I	27_F	1.173	0.21
92_G	122_F	1.172	0.21
69_H	79_A	1.166	0.21
76_E	79_A	1.163	0.21
25_I	56_F	1.162	0.21
35_F	133_I	1.161	0.20
15_G	27_F	1.159	0.20
78_R	123_T	1.146	0.20
27_F	85_N	1.142	0.20
133_I	152_Y	1.136	0.20
91_N	133_I	1.126	0.20
19_I	65_Q	1.124	0.20
48_A	64_K	1.124	0.20
26_V	74_K	1.118	0.20
23_I	104_V	1.113	0.19
104_V	169_G	1.109	0.19
99_I	103_L	1.105	0.19
74_K	77_A	1.105	0.19
81_Q	124_T	1.103	0.19
110_N	167_L	1.095	0.19
138_A	161_L	1.093	0.19
4_Y	184_Q	1.092	0.19
37_P	41_D	1.085	0.19
5_L	113_L	1.078	0.19
66_Y	73_Y	1.078	0.19
142_A	147_H	1.060	0.18
99_I	102_L	1.059	0.18
127_V	166_M	1.048	0.18
85_N	125_P	1.035	0.18
52_L	133_I	1.031	0.18
48_A	59_H	1.024	0.18
35_F	95_V	1.015	0.17
19_I	173_I	1.011	0.17
118_G	171_V	1.010	0.17
113_L	142_A	1.008	0.17
138_A	179_R	1.007	0.17
4_Y	99_I	1.006	0.17
68_T	81_Q	1.005	0.17
104_V	183_K	1.002	0.17
11_G	99_I	0.997	0.17
97_E	125_P	0.988	0.17
68_T	74_K	0.988	0.17
19_I	172_M	0.988	0.17
170_A	174_M	0.977	0.17
49_N	160_V	0.975	0.17
114_G	181_I	0.975	0.17
105_L	114_G	0.975	0.17
89_F	96_V	0.972	0.16
97_E	101_A	0.970	0.16
58_E	61_E	0.963	0.16
25_I	103_L	0.952	0.16
119_L	174_M	0.950	0.16
8_L	118_G	0.948	0.16
10_R	179_R	0.945	0.16
37_P	78_R	0.945	0.16
148_H	173_I	0.944	0.16
12_D	16_L	0.942	0.16
138_A	156_A	0.934	0.16
61_E	64_K	0.930	0.16
41_D	74_K	0.927	0.16
126_L	142_A	0.909	0.15
73_Y	139_W	0.902	0.15
139_W	145_D	0.902	0.15
105_L	168_A	0.899	0.15
62_D	172_M	0.898	0.15
19_I	168_A	0.883	0.15
55_F	89_F	0.874	0.15
35_F	166_M	0.872	0.15
32_L	101_A	0.860	0.14
13_K	148_H	0.851	0.14
64_K	79_A	0.845	0.14
62_D	76_E	0.842	0.14
106_A	124_T	0.841	0.14
138_A	145_D	0.834	0.14
20_R	28_M	0.826	0.14
41_D	68_T	0.822	0.14
42_S	125_P	0.816	0.14
62_D	116_L	0.811	0.14
68_T	165_L	0.800	0.13
83_A	147_H	0.795	0.13
93_L	96_V	0.793	0.13
77_A	111_R	0.789	0.13
67_L	107_N	0.783	0.13
4_Y	179_R	0.781	0.13
71_G	149_G	0.771	0.13
27_F	165_L	0.771	0.13
106_A	110_N	0.765	0.13
77_A	81_Q	0.763	0.13
106_A	113_L	0.752	0.13
21_L	126_L	0.750	0.13
167_L	177_S	0.746	0.13
99_I	130_S	0.734	0.12
23_I	168_A	0.729	0.12
52_L	99_I	0.728	0.12
100_I	104_V	0.722	0.12
56_F	164_T	0.722	0.12
44_T	61_E	0.720	0.12
37_P	73_Y	0.720	0.12
105_L	123_T	0.718	0.12
66_Y	76_E	0.714	0.12
46_F	160_V	0.711	0.12
25_I	104_V	0.711	0.12
182_L	185_R	0.710	0.12
76_E	108_P	0.708	0.12
14_I	18_L	0.706	0.12
133_I	166_M	0.700	0.12
44_T	68_T	0.698	0.12
105_L	181_I	0.696	0.12
22_S	25_I	0.693	0.12
90_S	121_A	0.690	0.12
59_H	62_D	0.688	0.12
44_T	175_A	0.685	0.12
110_N	148_H	0.681	0.12
6_H	10_R	0.681	0.12
59_H	126_L	0.679	0.12
67_L	97_E	0.678	0.12
102_L	106_A	0.669	0.11
83_A	109_V	0.667	0.11
35_F	91_N	0.664	0.11
103_L	161_L	0.664	0.11
25_I	126_L	0.663	0.11
59_H	76_E	0.662	0.11
53_M	93_L	0.662	0.11
138_A	146_A	0.661	0.11
32_L	125_P	0.661	0.11
9_S	12_D	0.659	0.11
22_S	169_G	0.658	0.11
21_L	182_L	0.657	0.11
133_I	181_I	0.654	0.11
98_V	106_A	0.653	0.11
108_P	174_M	0.651	0.11
110_N	161_L	0.650	0.11
64_K	147_H	0.650	0.11
12_D	107_N	0.646	0.11
143_L	148_H	0.645	0.11
100_I	114_G	0.645	0.11
88_G	175_A	0.642	0.11
125_P	166_M	0.638	0.11
24_A	164_T	0.636	0.11
72_E	109_V	0.632	0.11
35_F	78_R	0.631	0.11
68_T	111_R	0.630	0.11
35_F	93_L	0.630	0.11
5_L	114_G	0.630	0.11
69_H	161_L	0.628	0.11
15_G	21_L	0.628	0.11
48_A	179_R	0.625	0.11
95_V	175_A	0.625	0.11
119_L	138_A	0.622	0.11
16_L	172_M	0.619	0.11
47_V	53_M	0.617	0.11
32_L	124_T	0.614	0.11
55_F	92_G	0.610	0.11
5_L	168_A	0.607	0.11
116_L	169_G	0.606	0.11
83_A	106_A	0.600	0.10
145_D	174_M	0.599	0.10
169_G	172_M	0.599	0.10
73_Y	146_A	0.597	0.10
44_T	62_D	0.591	0.10
46_F	156_A	0.591	0.10
74_K	141_P	0.589	0.10
11_G	116_L	0.584	0.10
11_G	111_R	0.576	0.10
145_D	152_Y	0.574	0.10
13_K	161_L	0.574	0.10
52_L	119_L	0.573	0.10
92_G	179_R	0.573	0.10
100_I	123_T	0.573	0.10
42_S	69_H	0.567	0.10
133_I	146_A	0.566	0.10
25_I	110_N	0.562	0.10
123_T	171_V	0.561	0.10
4_Y	106_A	0.559	0.10
32_L	106_A	0.557	0.10
125_P	171_V	0.557	0.10
89_F	134_T	0.556	0.10
45_P	156_A	0.554	0.10
60_P	126_L	0.554	0.10
59_H	64_K	0.550	0.10
73_Y	145_D	0.549	0.10
130_S	182_L	0.549	0.10
152_Y	166_M	0.548	0.10
5_L	115_L	0.546	0.10
61_E	122_F	0.543	0.10
96_V	125_P	0.538	0.10
75_P	99_I	0.530	0.10
42_S	81_Q	0.523	0.09
85_N	123_T	0.521	0.09
37_P	82_T	0.520	0.09
48_A	126_L	0.518	0.09
23_I	169_G	0.517	0.09
89_F	100_I	0.515	0.09
155_G	160_V	0.514	0.09
67_L	124_T	0.513	0.09
7_L	14_I	0.512	0.09
85_N	166_M	0.510	0.09
28_M	147_H	0.509	0.09
24_A	168_A	0.508	0.09
37_P	146_A	0.507	0.09
54_S	58_E	0.504	0.09
75_P	148_H	0.504	0.09
19_I	183_K	0.504	0.09
82_T	147_H	0.500	0.09

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
3tx3A	2	0.599	31.6	0.968	Contact Map
1zauA	1	0.3147	6.4	0.977	Contact Map
3jslA	2	0.3046	6.3	0.977	Contact Map
2xn6B	1	0.1523	5.8	0.977	Contact Map
2rivB	1	0.1421	4.8	0.978	Contact Map
4glwA	2	0.3096	4.2	0.979	Contact Map
1as4B	1	0.1472	4.1	0.979	Contact Map
2mxeA	1	0.198	3.8	0.979	Contact Map
4y3uB	1	0.1472	3.7	0.979	Contact Map
4kytB	2	0.1421	3.5	0.979	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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