GREMLIN Database
CYOA - Cytochrome bo(3) ubiquinol oxidase subunit 2
UniProt: P0ABJ1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10178
Length: 315 (254)
Sequences: 2132 (1465)
Seq/√Len: 91.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
228_R232_D5.4811.00
165_V185_A4.0571.00
226_P230_A4.0191.00
200_P226_P3.9091.00
129_I153_I3.7751.00
159_T228_R3.7391.00
145_Q231_F3.5791.00
155_F197_A3.4821.00
45_L49_G3.4091.00
173_S182_Q3.3671.00
154_A225_T3.3651.00
155_F222_A3.0851.00
157_A224_A3.0041.00
147_I235_V2.8461.00
200_P224_A2.6811.00
130_E164_K2.6141.00
197_A224_A2.5711.00
180_G195_L2.4121.00
202_T221_K2.3951.00
133_S185_A2.2731.00
230_A233_Q2.2331.00
172_N207_S2.1671.00
35_Q198_N2.1221.00
200_P230_A2.1221.00
98_L102_F2.1221.00
126_P159_T2.1071.00
134_M139_F2.1071.00
128_T162_Y2.0791.00
207_S211_S2.0561.00
204_D221_K2.0551.00
173_S208_A2.0181.00
130_E141_I1.9961.00
157_A200_P1.9791.00
172_N211_S1.9141.00
47_A103_L1.9121.00
226_P229_A1.9051.00
109_K113_A1.8881.00
162_Y192_R1.8821.00
127_I231_F1.8211.00
60_L64_G1.7981.00
157_A228_R1.7981.00
163_F195_L1.7801.00
35_Q196_I1.7791.00
134_M168_N1.7551.00
22_L25_C1.7461.00
225_T230_A1.7071.00
63_V67_W1.7011.00
182_Q209_S1.6701.00
132_V141_I1.6261.00
263_V267_S1.6001.00
254_L258_S1.5971.00
176_I222_A1.5821.00
200_P203_Y1.5751.00
161_V197_A1.5351.00
87_K92_V1.5241.00
38_L198_N1.5121.00
33_K199_E1.4641.00
202_T223_I1.4541.00
206_I219_K1.4531.00
253_K256_A1.4480.99
261_N264_E1.4250.99
59_I63_V1.4160.99
152_E223_I1.4110.99
128_T144_E1.4060.99
233_Q237_K1.3790.99
207_S218_M1.3720.99
41_R45_L1.3610.99
17_A21_L1.3390.99
154_A223_I1.3350.99
128_T164_K1.3300.99
205_G220_F1.3260.99
203_Y224_A1.3140.99
42_S46_T1.3110.99
211_S215_F1.3020.99
184_Y209_S1.2830.99
64_G68_K1.2780.99
255_A259_E1.2740.99
115_E183_I1.2720.99
39_E42_S1.2630.99
129_I145_Q1.2590.99
165_V183_I1.2590.99
164_K190_Q1.2500.99
32_P37_G1.2470.98
39_E113_A1.2290.98
251_F254_L1.2280.98
204_D219_K1.2110.98
258_S262_Q1.1990.98
263_V266_F1.1990.98
135_D170_V1.1820.98
140_F153_I1.1780.98
38_L42_S1.1610.98
236_A239_K1.1600.98
258_S263_V1.1500.97
35_Q39_E1.1470.97
151_N238_A1.1350.97
246_S249_A1.1310.97
110_T113_A1.1310.97
255_A258_S1.1290.97
207_S215_F1.1260.97
158_N228_R1.1220.97
145_Q235_V1.1140.97
158_N198_N1.1090.97
89_E93_W1.1010.97
85_S89_E1.0850.96
127_I159_T1.0820.96
217_G260_Y1.0770.96
155_F224_A1.0420.95
105_V109_K1.0420.95
12_W16_F1.0380.95
73_N76_A1.0340.95
175_F208_A1.0270.95
49_G53_I1.0050.94
33_K178_R1.0010.94
126_P160_P0.9990.94
163_F193_L0.9980.94
254_L257_P0.9920.94
46_T106_L0.9920.94
28_A178_R0.9880.94
34_G179_L0.9760.93
238_A265_Y0.9750.93
130_E166_T0.9710.93
179_L197_A0.9600.93
20_V23_S0.9580.93
251_F255_A0.9530.93
237_K241_S0.9480.92
32_P111_T0.9420.92
183_I193_L0.9390.92
38_L41_R0.9390.92
143_P147_I0.9310.92
23_S27_S0.9270.92
250_A253_K0.9240.91
65_F69_Y0.9220.91
238_A241_S0.9090.91
18_G22_L0.9060.91
258_S266_F0.9030.91
19_T23_S0.8950.90
231_F235_V0.8910.90
117_S191_T0.8880.90
108_W112_H0.8830.90
20_V25_C0.8800.89
258_S261_N0.8760.89
131_V140_F0.8750.89
259_E263_V0.8750.89
49_G52_L0.8730.89
232_D236_A0.8720.89
45_L48_F0.8690.89
146_G239_K0.8580.88
155_F161_V0.8580.88
64_G69_Y0.8480.88
124_E158_N0.8400.87
267_S271_P0.8390.87
36_I40_Q0.8350.87
170_V211_S0.8310.86
266_F269_V0.8300.86
74_K77_K0.8260.86
208_A215_F0.8240.86
171_M187_A0.8070.85
13_L16_F0.8060.85
171_M186_M0.8060.85
140_F220_F0.8050.85
135_D169_S0.8020.84
14_S18_G0.8010.84
46_T50_L0.8000.84
211_S218_M0.8000.84
170_V209_S0.7960.84
172_N215_F0.7930.84
179_L224_A0.7900.84
139_F148_A0.7880.83
246_S250_A0.7840.83
182_Q208_A0.7840.83
155_F179_L0.7790.83
102_F105_V0.7760.82
175_F206_I0.7750.82
259_E262_Q0.7710.82
245_M251_F0.7700.82
162_Y194_H0.7680.82
223_I226_P0.7670.82
263_V271_P0.7640.81
39_E110_T0.7630.81
267_S270_K0.7630.81
233_Q236_A0.7620.81
49_G98_L0.7610.81
53_I57_P0.7600.81
70_R74_K0.7500.80
155_F195_L0.7470.80
252_E259_E0.7420.80
44_I110_T0.7370.79
155_F158_N0.7340.79
93_W96_P0.7330.79
35_Q197_A0.7280.78
89_E96_P0.7270.78
258_S267_S0.7270.78
209_S215_F0.7260.78
71_A76_A0.7220.78
32_P108_W0.7220.78
16_F19_T0.7190.77
160_P196_I0.7190.77
186_M189_M0.7190.77
117_S192_R0.7140.77
235_V239_K0.7110.77
169_S172_N0.7050.76
152_E210_Y0.7040.76
259_E264_E0.7030.76
21_L24_G0.7000.76
131_V173_S0.6980.75
94_T169_S0.6940.75
157_A197_A0.6900.74
134_M186_M0.6900.74
40_Q114_L0.6850.74
255_A260_Y0.6830.74
165_V193_L0.6830.74
11_G14_S0.6820.74
22_L26_N0.6820.74
229_A233_Q0.6810.74
236_A240_Q0.6790.73
243_N246_S0.6780.73
94_T98_L0.6770.73
53_I95_V0.6740.73
240_Q244_T0.6720.73
31_D41_R0.6710.72
169_S207_S0.6700.72
40_Q180_G0.6680.72
210_Y213_P0.6680.72
169_S187_A0.6660.72
258_S269_V0.6660.72
198_N224_A0.6650.72
69_Y89_E0.6640.72
140_F174_F0.6630.72
101_I105_V0.6610.71
80_P140_F0.6610.71
173_S209_S0.6580.71
13_L18_G0.6570.71
161_V222_A0.6570.71
117_S194_H0.6530.70
72_S76_A0.6520.70
35_Q180_G0.6520.70
22_L129_I0.6500.70
30_L34_G0.6500.70
167_S185_A0.6490.70
266_F270_K0.6470.70
141_I167_S0.6440.69
124_E228_R0.6420.69
16_F23_S0.6410.69
172_N209_S0.6410.69
229_A249_A0.6410.69
71_A74_K0.6400.69
176_I182_Q0.6390.69
262_Q266_F0.6360.68
133_S209_S0.6360.68
180_G205_G0.6350.68
169_S182_Q0.6350.68
262_Q267_S0.6340.68
88_V93_W0.6300.68
164_K192_R0.6300.68
215_F218_M0.6280.67
79_S83_S0.6280.67
19_T24_G0.6280.67
134_M137_K0.6270.67
132_V166_T0.6260.67
255_A270_K0.6260.67
33_K155_F0.6240.67
50_L103_L0.6210.67
217_G259_E0.6200.66
50_L53_I0.6160.66
91_V94_T0.6160.66
153_I222_A0.6130.66
229_A232_D0.6120.65
237_K265_Y0.6110.65
100_I140_F0.6020.64
42_S45_L0.6000.64
172_N218_M0.5980.64
98_L101_I0.5950.63
131_V174_F0.5940.63
175_F182_Q0.5910.63
55_V59_I0.5910.63
89_E94_T0.5900.63
131_V163_F0.5890.62
23_S26_N0.5890.62
256_A262_Q0.5870.62
37_G40_Q0.5840.62
182_Q207_S0.5830.62
63_V66_A0.5820.62
197_A222_A0.5820.62
16_F20_V0.5800.61
136_W210_Y0.5790.61
137_K150_V0.5770.61
249_A252_E0.5760.61
253_K267_S0.5730.60
20_V102_F0.5730.60
57_P99_I0.5720.60
30_L178_R0.5720.60
31_D37_G0.5710.60
51_M214_G0.5700.60
233_Q249_A0.5690.60
33_K197_A0.5690.60
137_K214_G0.5680.60
34_G181_S0.5650.59
37_G180_G0.5630.59
79_S84_H0.5630.59
52_L56_I0.5630.59
159_T232_D0.5620.59
154_A170_V0.5590.58
167_S187_A0.5580.58
39_E198_N0.5580.58
37_G181_S0.5580.58
88_V91_V0.5580.58
54_V95_V0.5570.58
172_N182_Q0.5570.58
25_C34_G0.5560.58
117_S190_Q0.5550.58
107_T209_S0.5530.58
133_S211_S0.5530.58
50_L102_F0.5520.58
129_I155_F0.5520.58
100_I174_F0.5520.58
178_R210_Y0.5510.57
254_L266_F0.5470.57
136_W201_G0.5460.57
122_H196_I0.5440.56
37_G111_T0.5430.56
35_Q224_A0.5420.56
251_F257_P0.5420.56
129_I163_F0.5390.56
132_V139_F0.5380.56
246_S252_E0.5370.55
25_C52_L0.5350.55
54_V83_S0.5340.55
86_N92_V0.5340.55
65_F68_K0.5340.55
151_N186_M0.5320.55
139_F231_F0.5320.55
260_Y263_V0.5320.55
102_F107_T0.5310.55
50_L185_A0.5310.55
264_E267_S0.5310.55
133_S264_E0.5300.55
100_I115_E0.5290.54
92_V95_V0.5280.54
29_L40_Q0.5280.54
258_S270_K0.5280.54
229_A253_K0.5260.54
138_W185_A0.5260.54
183_I194_H0.5260.54
70_R73_N0.5240.54
241_S244_T0.5240.54
58_A107_T0.5230.54
122_H160_P0.5210.53
54_V107_T0.5190.53
24_G27_S0.5180.53
200_P229_A0.5180.53
99_I185_A0.5170.53
153_I163_F0.5170.53
123_D128_T0.5160.53
265_Y268_N0.5160.53
174_F220_F0.5160.53
65_F80_P0.5140.52
266_F271_P0.5140.52
263_V269_V0.5130.52
137_K254_L0.5130.52
145_Q239_K0.5110.52
154_A157_A0.5110.52
122_H125_K0.5110.52
146_G232_D0.5100.52
84_H89_E0.5090.52
37_G178_R0.5090.52
89_E140_F0.5080.51
184_Y215_F0.5080.51
202_T233_Q0.5080.51
104_A107_T0.5070.51
21_L124_E0.5070.51
35_Q144_E0.5060.51
175_F181_S0.5060.51
133_S172_N0.5050.51
125_K128_T0.5050.51
128_T145_Q0.5050.51
18_G21_L0.5040.51
54_V231_F0.5030.51
87_K91_V0.5010.51
37_G88_V0.5010.51
253_K257_P0.5000.50
171_M185_A0.5000.50
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

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  
1fftB 1 0.8127 100 0.201 Contact Map
2yevB 1 0.8889 100 0.346 Contact Map
3hb3B 1 0.6825 100 0.359 Contact Map
2gsmB 1 0.6889 100 0.393 Contact Map
1v54B 1 0.6476 100 0.43 Contact Map
1cyxA 1 0.4984 100 0.458 Contact Map
4txvB 1 0.4032 100 0.542 Contact Map
3s8fB 1 0.4571 100 0.635 Contact Map
2cuaA 1 0.4032 100 0.727 Contact Map
3sbqA 2 0.6286 99.9 0.751 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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