OPENSEQ.org - CYOD - ECOLI GREMLIN

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CYOD - Cytochrome o ubiquinol oxidase protein CyoD

UniProt:	P0ABJ6	Sequence MSHSTDHSGASHGSVKTYMTGFILSIILTVIPFWMVMTGAASPAVILGTILAMAVVQVLVHLVCFLHMNTKSDEGWNMTAFVFTVLIIAILVVGSIWIMWNLNYNMMMH	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG10181
Length:	109 (109)
Sequences:	346
Seq/Len:	3.17

CYOD
Paralog alert: 0.05 [within 20: 0.00] - ratio of genomes with paralogs

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
15_V	19_M	2.891	1.00
71_K	75_G	2.224	1.00
87_I	91_L	1.892	0.99
90_I	94_G	1.765	0.99
83_F	87_I	1.741	0.99
23_I	27_I	1.738	0.99
94_G	101_N	1.648	0.98
58_V	61_H	1.621	0.98
60_V	106_M	1.574	0.97
32_P	50_I	1.544	0.97
94_G	99_M	1.531	0.97
13_G	17_T	1.531	0.97
51_L	92_V	1.52	0.96
101_N	105_N	1.496	0.96
90_I	93_V	1.477	0.96
72_S	80_A	1.462	0.95
31_I	49_T	1.416	0.94
62_L	98_I	1.41	0.94
85_V	89_A	1.406	0.94
19_M	23_I	1.384	0.93
23_I	30_V	1.355	0.92
103_N	108_M	1.295	0.90
17_T	64_C	1.281	0.89
87_I	92_V	1.273	0.89
41_A	46_I	1.26	0.88
94_G	102_L	1.26	0.88
43_P	50_I	1.251	0.87
30_V	34_W	1.241	0.87
13_G	25_S	1.231	0.86
10_A	50_I	1.231	0.86
68_M	84_T	1.229	0.86
102_L	105_N	1.224	0.86
22_F	56_V	1.215	0.85
25_S	61_H	1.204	0.85
73_D	92_V	1.175	0.83
48_G	52_A	1.171	0.82
76_W	90_I	1.158	0.81
33_F	60_V	1.155	0.81
75_G	78_M	1.154	0.81
51_L	95_S	1.153	0.81
20_T	23_I	1.151	0.81
16_K	95_S	1.117	0.78
78_M	86_L	1.108	0.77
55_V	92_V	1.089	0.76
61_H	66_L	1.088	0.75
82_V	86_L	1.076	0.74
25_S	34_W	1.064	0.73
95_S	100_W	1.034	0.70
54_A	98_I	1.033	0.70
4_S	7_H	1.03	0.70
10_A	16_K	1.029	0.69
50_I	95_S	1.022	0.69
75_G	101_N	1.018	0.68
20_T	27_I	1.01	0.67
2_S	5_T	1.006	0.67
34_W	74_E	1.003	0.67
90_I	101_N	1.001	0.66

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:

PDB	Chains	Cov	P(%)	HHΔ		Acc
2bg9A	2	0.9266	6.8	0.936	Contact Map	0.266
2bg9E	1	0.9358	5.1	0.94	Contact Map	0.124
2bg9C	1	0.9266	5	0.94	Contact Map	0.164
2bg9B	1	0.9358	2.9	0.946	Contact Map	0.236
3ne5A	1	0.4404	2.3	0.95	Contact Map	0.157
3j1zP	2	0.9174	1.8	0.952	Contact Map	0.158
2ksrA	1	0.8991	1.4	0.955	Contact Map	0.104
4g1uA	2	0.8349	1.4	0.955	Contact Map	0.15
4dx5A	3	0.3303	1.3	0.956	Contact Map	0.183
3w9iA	6	0.3303	1.3	0.956	Contact Map	0.228

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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