OPENSEQ.org - HYBD - ECOLI GREMLIN

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HYBD - Hydrogenase 2 maturation protease

UniProt:	P37182	Sequence MRILVLGVGNILLTDEAIGVRIVEALEQRYILPDYVEILDGGTAGMELLGDMANRDHLIIADAIVSKKNAPGTMMILRDEEVPALFTNKISPHQLGLADVLSALRFTGEFPKKLTLVGVIPESLEPHIGLTPTVEAMIEPALEQVLAALRESGVEAIPREAIHD	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG11802
Length:	164 (158)
Sequences:	819
Seq/Len:	5.18

HYBD
Paralog alert: 0.59 [within 20: 0.02] - ratio of genomes with paralogs
Cluster includes: HYAD HYBD HYCI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Scaled Score	Prob
122_E	133_T	5.375	1.00
23_V	38_I	3.689	1.00
65_V	120_I	2.72	1.00
61_A	145_V	2.559	1.00
18_I	119_V	2.367	1.00
21_R	24_E	2.135	1.00
57_H	113_K	2.123	1.00
134_V	137_M	2.069	1.00
22_I	61_A	2.019	1.00
121_P	124_L	1.994	1.00
132_P	136_A	1.936	1.00
76_I	117_V	1.864	1.00
67_K	120_I	1.823	1.00
64_I	118_G	1.786	1.00
7_G	23_V	1.766	1.00
59_I	152_S	1.672	0.99
53_A	109_E	1.668	0.99
14_T	123_S	1.628	0.99
61_A	141_A	1.6	0.99
60_I	114_L	1.551	0.99
68_K	73_T	1.546	0.99
2_R	56_D	1.533	0.99
75_M	120_I	1.513	0.99
76_I	148_A	1.483	0.98
4_L	55_R	1.482	0.98
11_I	20_V	1.468	0.98
117_V	141_A	1.46	0.98
25_A	29_R	1.458	0.98
66_S	120_I	1.45	0.98
32_L	146_L	1.445	0.98
66_S	75_M	1.368	0.97
119_V	141_A	1.367	0.97
3_I	154_V	1.35	0.97
59_I	117_V	1.34	0.97
74_M	141_A	1.333	0.96
11_I	16_E	1.315	0.96
59_I	145_V	1.28	0.95
31_I	157_I	1.279	0.95
21_R	129_G	1.263	0.95
132_P	135_E	1.232	0.94
25_A	28_Q	1.231	0.94
37_E	55_R	1.216	0.93
57_H	152_S	1.195	0.92
119_V	134_V	1.172	0.91
22_I	138_I	1.172	0.91
14_T	131_T	1.172	0.91
3_I	36_V	1.17	0.91
18_I	141_A	1.154	0.91
59_I	148_A	1.153	0.91
117_V	145_V	1.124	0.89
33_P	36_V	1.124	0.89
66_S	121_P	1.114	0.89
4_L	39_L	1.108	0.88
70_A	73_T	1.107	0.88
137_M	140_P	1.098	0.88
25_A	142_L	1.087	0.87
45_G	96_G	1.086	0.87
136_A	140_P	1.086	0.87
150_R	155_E	1.082	0.87
123_S	131_T	1.079	0.86
17_A	21_R	1.074	0.86
144_Q	147_A	1.072	0.86
56_D	112_K	1.069	0.86
146_L	156_A	1.059	0.85
7_G	19_G	1.05	0.84
18_I	22_I	1.047	0.84
118_G	121_P	1.046	0.84
10_N	17_A	1.044	0.84
3_I	57_H	1.042	0.84
64_I	75_M	1.041	0.84
139_E	143_E	1.037	0.83
61_A	134_V	1.029	0.83
148_A	152_S	1.026	0.82
92_P	95_L	1.026	0.82
156_A	159_R	1.021	0.82
96_G	99_D	1.021	0.82
20_V	40_D	1.019	0.82
17_A	130_L	1.004	0.80

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling

HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:

Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 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	P(%)	HHΔ		Acc
1cfzA	6	0.9878	100	0.085	Contact Map	0.725
2e85A	2	0.9329	100	0.189	Contact Map	0.66
3pu6A	1	0.9146	100	0.215	Contact Map	0.582
1c8bA	2	0.9024	97.2	0.822	Contact Map	0.599
3fvwA	2	0.9451	61.2	0.907	Contact Map	0.433
1t0iA	2	0.9207	54.5	0.911	Contact Map	0.437
1rttA	1	0.9512	50.7	0.913	Contact Map	0.38
3b1fA	1	0.9024	46.7	0.915	Contact Map	0.309
4egsA	2	0.6646	46.5	0.915	Contact Map	0.45
3u7rA	2	0.9451	44.5	0.916	Contact Map	0.459

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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