HYCG - ECOLI - GREMLIN Contacts

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HYCG - Formate hydrogenlyase subunit 7

UniProt:	P16433	Sequences: MSNLLGPRDANGIPVPMTVDESIASMKASLLKKIKRSAYVYRVDCGGCNGCEIEIFATLSPLFDAERFGIKVVPSPRHADILLFTGAVTRAMRSPALRAWQSAPDPKICISYGACGNSGGIFHDLYCVWGGTDKIVPVDVYIPGCPPTPAATLYGFAMALGLLEQKIHARGPGELDEQPAEILHGDMVQPLRVKVDREARRLAGYRYGRQIADDYLTQLGQGEEQVARWLEAENDPRLNEIVSHLNHVVEEARIR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10480
Length:	255 (204)
Sequences:	220 (87)
Seq/√Len:	6.1

ECOLI - HYCG HYFI NUOB
HALSA - Q9HRM0
SULSO - Q7LXP2 Q97ZA8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
21_E	29_S	3.891	0.93
22_S	68_F	3.427	0.87
49_N	128_V	3.231	0.84
132_T	138_V	3.069	0.80
31_L	140_V	2.763	0.72
21_E	126_Y	2.612	0.68
36_R	75_S	2.579	0.67
49_N	126_Y	2.462	0.63
95_P	148_T	2.344	0.59
84_F	132_T	2.284	0.57
59_L	118_S	2.234	0.55
37_S	71_K	2.229	0.55
26_M	83_L	2.220	0.54
88_V	136_V	2.159	0.52
88_V	141_Y	2.065	0.49
53_I	122_F	2.041	0.48
126_Y	165_Q	2.024	0.47
154_Y	158_M	1.995	0.46
16_P	22_S	1.863	0.42
45_C	56_F	1.840	0.41
15_V	22_S	1.801	0.40
126_Y	187_M	1.794	0.39
32_K	68_F	1.788	0.39
204_G	207_Y	1.775	0.39
153_L	170_R	1.770	0.39
18_T	22_S	1.766	0.38
94_S	136_V	1.744	0.38
22_S	32_K	1.690	0.36
15_V	19_V	1.674	0.35
53_I	79_A	1.670	0.35
182_I	207_Y	1.653	0.35
14_P	22_S	1.630	0.34
29_S	126_Y	1.620	0.34
156_F	200_R	1.617	0.33
44_D	56_F	1.613	0.33
23_I	140_V	1.610	0.33
116_G	135_I	1.605	0.33
28_A	174_E	1.548	0.31
20_D	177_E	1.539	0.31
28_A	173_G	1.529	0.31
95_P	98_R	1.527	0.31
22_S	181_E	1.502	0.30
71_K	142_I	1.495	0.30
98_R	107_K	1.488	0.30
111_S	179_P	1.485	0.29
19_V	178_Q	1.442	0.28
41_Y	93_R	1.439	0.28
41_Y	94_S	1.433	0.28
63_F	114_A	1.392	0.27
109_C	118_S	1.390	0.27
23_I	27_K	1.384	0.27
16_P	19_V	1.384	0.27
37_S	142_I	1.374	0.26
103_A	150_A	1.364	0.26
82_L	152_T	1.356	0.26
100_W	109_C	1.355	0.26
114_A	124_D	1.346	0.25
21_E	49_N	1.338	0.25
15_V	199_A	1.329	0.25
174_E	191_L	1.315	0.25
28_A	31_L	1.297	0.24
14_P	28_A	1.290	0.24
65_A	70_I	1.285	0.24
49_N	153_L	1.282	0.24
21_E	128_V	1.272	0.24
15_V	68_F	1.270	0.23
62_L	164_E	1.269	0.23
49_N	165_Q	1.258	0.23
63_F	124_D	1.257	0.23
36_R	98_R	1.255	0.23
95_P	165_Q	1.248	0.23
66_E	71_K	1.246	0.23
31_L	68_F	1.222	0.22
79_A	131_G	1.218	0.22
193_V	200_R	1.215	0.22
99_A	108_I	1.210	0.22
42_R	112_Y	1.198	0.22
189_Q	210_Q	1.181	0.21
18_T	201_R	1.178	0.21
183_L	186_D	1.167	0.21
150_A	159_A	1.167	0.21
106_P	141_Y	1.156	0.21
75_S	197_R	1.156	0.21
19_V	189_Q	1.150	0.21
15_V	187_M	1.149	0.20
58_T	153_L	1.143	0.20
14_P	18_T	1.132	0.20
128_V	165_Q	1.131	0.20
97_L	101_Q	1.130	0.20
19_V	32_K	1.118	0.20
199_A	204_G	1.112	0.20
39_Y	163_L	1.090	0.19
41_Y	66_E	1.088	0.19
204_G	208_G	1.086	0.19
51_C	113_G	1.082	0.19
57_A	68_F	1.081	0.19
96_A	136_V	1.057	0.18
52_E	56_F	1.055	0.18
15_V	186_D	1.053	0.18
41_Y	126_Y	1.053	0.18
77_R	147_P	1.051	0.18
114_A	134_K	1.049	0.18
21_E	187_M	1.045	0.18
16_P	68_F	1.043	0.18
95_P	142_I	1.019	0.18
150_A	158_M	1.018	0.18
171_G	210_Q	1.015	0.18
84_F	96_A	1.015	0.18
92_M	98_R	1.012	0.17
76_P	80_D	1.004	0.17
101_Q	114_A	0.997	0.17
76_P	131_G	0.971	0.17
197_R	208_G	0.964	0.17
19_V	57_A	0.963	0.16
44_D	66_E	0.960	0.16
164_E	191_L	0.959	0.16
122_F	142_I	0.959	0.16
194_K	214_D	0.954	0.16
60_S	66_E	0.950	0.16
14_P	177_E	0.939	0.16
56_F	59_L	0.939	0.16
80_D	100_W	0.925	0.16
61_P	155_G	0.910	0.15
41_Y	91_A	0.907	0.15
15_V	181_E	0.905	0.15
34_I	78_H	0.900	0.15
21_E	24_A	0.895	0.15
20_D	180_A	0.893	0.15
21_E	191_L	0.892	0.15
28_A	215_Y	0.892	0.15
51_C	137_P	0.892	0.15
44_D	49_N	0.886	0.15
68_F	95_P	0.884	0.15
66_E	70_I	0.883	0.15
207_Y	210_Q	0.883	0.15
33_K	109_C	0.881	0.15
174_E	177_E	0.874	0.15
27_K	204_G	0.873	0.15
96_A	132_T	0.871	0.15
170_R	184_H	0.860	0.15
48_C	52_E	0.858	0.15
22_S	57_A	0.856	0.14
80_D	139_D	0.851	0.14
88_V	126_Y	0.848	0.14
14_P	19_V	0.845	0.14
58_T	66_E	0.840	0.14
188_V	197_R	0.838	0.14
55_I	152_T	0.838	0.14
16_P	199_A	0.836	0.14
66_E	73_V	0.836	0.14
41_Y	138_V	0.834	0.14
39_Y	103_A	0.833	0.14
26_M	179_P	0.833	0.14
22_S	148_T	0.833	0.14
51_C	146_P	0.829	0.14
72_V	118_S	0.827	0.14
15_V	24_A	0.824	0.14
113_G	137_P	0.823	0.14
173_G	179_P	0.821	0.14
173_G	204_G	0.819	0.14
97_L	116_G	0.819	0.14
27_K	163_L	0.819	0.14
186_D	214_D	0.817	0.14
209_R	213_D	0.811	0.14
111_S	188_V	0.808	0.14
175_L	179_P	0.807	0.14
19_V	188_V	0.804	0.14
36_R	92_M	0.802	0.14
14_P	138_V	0.800	0.14
111_S	135_I	0.794	0.13
98_R	165_Q	0.794	0.13
126_Y	167_I	0.789	0.13
80_D	133_D	0.788	0.13
29_S	88_V	0.784	0.13
53_I	152_T	0.774	0.13
200_R	204_G	0.773	0.13
31_L	209_R	0.766	0.13
14_P	17_M	0.761	0.13
113_G	146_P	0.761	0.13
41_Y	142_I	0.757	0.13
196_D	199_A	0.755	0.13
170_R	176_D	0.755	0.13
192_R	199_A	0.754	0.13
88_V	92_M	0.753	0.13
68_F	181_E	0.752	0.13
76_P	79_A	0.752	0.13
125_L	159_A	0.746	0.13
18_T	168_H	0.744	0.13
14_P	21_E	0.741	0.13
47_G	112_Y	0.738	0.13
16_P	32_K	0.736	0.12
194_K	217_T	0.733	0.12
73_V	161_G	0.727	0.12
28_A	168_H	0.724	0.12
65_A	81_I	0.723	0.12
184_H	206_R	0.722	0.12
95_P	116_G	0.722	0.12
85_T	112_Y	0.720	0.12
15_V	183_L	0.714	0.12
153_L	165_Q	0.714	0.12
22_S	192_R	0.707	0.12
107_K	114_A	0.705	0.12
22_S	28_A	0.705	0.12
110_I	151_A	0.701	0.12
111_S	117_N	0.701	0.12
206_R	210_Q	0.696	0.12
39_Y	92_M	0.695	0.12
19_V	24_A	0.695	0.12
26_M	35_K	0.689	0.12
42_R	150_A	0.685	0.12
47_G	92_M	0.681	0.12
18_T	35_K	0.680	0.12
16_P	27_K	0.679	0.12
48_C	99_A	0.679	0.12
55_I	105_D	0.677	0.12
51_C	131_G	0.673	0.12
22_S	168_H	0.673	0.12
20_D	156_F	0.671	0.12
170_R	173_G	0.666	0.11
148_T	165_Q	0.664	0.11
37_S	60_S	0.664	0.11
15_V	18_T	0.662	0.11
114_A	122_F	0.661	0.11
199_A	202_L	0.659	0.11
14_P	183_L	0.657	0.11
50_G	102_S	0.654	0.11
124_D	136_V	0.654	0.11
15_V	57_A	0.651	0.11
39_Y	56_F	0.645	0.11
192_R	211_I	0.644	0.11
201_R	211_I	0.643	0.11
26_M	38_A	0.641	0.11
48_C	117_N	0.637	0.11
49_N	95_P	0.634	0.11
38_A	148_T	0.629	0.11
111_S	180_A	0.628	0.11
45_C	116_G	0.625	0.11
84_F	148_T	0.624	0.11
29_S	117_N	0.621	0.11
60_S	70_I	0.620	0.11
18_T	109_C	0.614	0.11
96_A	138_V	0.613	0.11
35_K	50_G	0.613	0.11
29_S	182_I	0.609	0.11
126_Y	169_A	0.609	0.11
15_V	32_K	0.608	0.11
113_G	131_G	0.604	0.11
210_Q	215_Y	0.601	0.11
183_L	189_Q	0.594	0.10
101_Q	215_Y	0.593	0.10
77_R	146_P	0.592	0.10
50_G	78_H	0.591	0.10
194_K	198_E	0.589	0.10
94_S	138_V	0.585	0.10
44_D	126_Y	0.582	0.10
142_I	155_G	0.581	0.10
107_K	151_A	0.580	0.10
74_P	126_Y	0.578	0.10
140_V	183_L	0.577	0.10
60_S	153_L	0.577	0.10
124_D	149_P	0.576	0.10
16_P	24_A	0.571	0.10
61_P	121_I	0.567	0.10
107_K	122_F	0.566	0.10
190_P	196_D	0.566	0.10
21_E	169_A	0.565	0.10
18_T	21_E	0.565	0.10
34_I	166_K	0.563	0.10
137_P	146_P	0.561	0.10
170_R	174_E	0.559	0.10
20_D	187_M	0.558	0.10
19_V	199_A	0.556	0.10
17_M	29_S	0.554	0.10
55_I	82_L	0.548	0.10
41_Y	95_P	0.546	0.10
50_G	91_A	0.546	0.10
186_D	203_A	0.545	0.10
55_I	108_I	0.544	0.10
84_F	135_I	0.543	0.10
199_A	208_G	0.542	0.10
176_D	179_P	0.536	0.10
45_C	160_L	0.536	0.10
45_C	80_D	0.535	0.10
116_G	138_V	0.534	0.10
14_P	169_A	0.534	0.10
23_I	31_L	0.530	0.10
23_I	189_Q	0.528	0.10
35_K	179_P	0.527	0.10
208_G	213_D	0.527	0.10
80_D	92_M	0.524	0.10
34_I	159_A	0.523	0.10
173_G	189_Q	0.519	0.09
121_I	155_G	0.519	0.09
112_Y	129_W	0.517	0.09
102_S	138_V	0.517	0.09
38_A	125_L	0.514	0.09
16_P	20_D	0.513	0.09
122_F	149_P	0.509	0.09
29_S	215_Y	0.508	0.09
15_V	201_R	0.508	0.09
20_D	25_S	0.507	0.09
21_E	165_Q	0.506	0.09
186_D	210_Q	0.504	0.09
91_A	94_S	0.501	0.09
79_A	122_F	0.501	0.09
15_V	20_D	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
3i9v6	1	0.5686	100	0.512	Contact Map
1h2aS	1	0.8039	100	0.66	Contact Map
4ue3S	2	0.7961	100	0.663	Contact Map
3ayxB	2	0.7451	100	0.67	Contact Map
2wpnA	1	0.7373	100	0.671	Contact Map
4iucS	1	0.7922	100	0.676	Contact Map
4uqlA	1	0.7922	100	0.676	Contact Map
3myrA	3	0.7961	100	0.677	Contact Map
4u9hS	1	0.749	100	0.678	Contact Map
4kn9S	1	0.7529	100	0.682	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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