GREMLIN Database
CYDA - Cytochrome bd ubiquinol oxidase subunit 1
UniProt: P94364 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 468 (436)
Sequences: 2868 (1510)
Seq/√Len: 72.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
167_D170_A6.3461.00
273_D280_S5.2421.00
393_T403_S5.0741.00
232_G342_I4.5071.00
198_G371_I4.3921.00
294_Y299_G4.2451.00
273_D276_N3.9861.00
258_E305_K3.9801.00
310_E320_Y3.9751.00
291_Y297_F3.9011.00
127_L131_L3.7771.00
270_A279_S3.7081.00
263_P287_Y3.4411.00
236_H240_E3.0061.00
186_F234_S2.9141.00
339_V343_L2.9061.00
240_E295_Q2.8551.00
236_H295_Q2.7741.00
221_M348_G2.7391.00
43_K122_K2.6711.00
320_Y399_T2.6371.00
411_G415_F2.5711.00
262_D300_S2.5701.00
194_F224_G2.5531.00
277_E305_K2.5291.00
361_K365_R2.5241.00
277_E321_I2.5221.00
414_L418_I2.4981.00
351_L363_Y2.4471.00
33_A130_W2.3561.00
337_A341_M2.3181.00
383_I387_I2.2581.00
287_Y297_F2.2471.00
267_T328_F2.2281.00
267_T284_K2.2091.00
248_M307_L2.1551.00
4_L404_V2.1421.00
259_D306_T2.1151.00
40_L126_A2.0971.00
362_W365_R2.0971.00
34_L38_L2.0101.00
37_T126_A2.0011.00
120_L128_C2.0001.00
265_A284_K1.9811.00
326_T387_I1.9581.00
337_A373_F1.9421.00
16_L379_S1.9361.00
257_W279_S1.9311.00
191_T378_N1.9251.00
19_F184_V1.9101.00
218_K352_N1.9101.00
228_G342_I1.8951.00
260_S264_A1.8661.00
157_T160_N1.8621.00
333_I380_A1.8581.00
7_A413_L1.8431.00
279_S282_E1.8311.00
37_T130_W1.8161.00
399_T402_Q1.8051.00
309_A321_I1.7831.00
186_F230_G1.7721.00
343_L347_G1.7581.00
348_G363_Y1.7571.00
436_I440_K1.7551.00
274_T325_K1.7481.00
390_Q400_T1.7211.00
347_G351_L1.6961.00
45_E49_K1.6821.00
13_S421_G1.6801.00
232_G339_V1.6731.00
17_F428_G1.6651.00
112_L120_L1.6641.00
82_D85_R1.6611.00
340_V370_L1.6350.99
9_I417_I1.6230.99
3_E7_A1.6170.99
344_A370_L1.6150.99
157_T164_E1.6070.99
190_A228_G1.6050.99
16_L383_I1.6010.99
87_V91_F1.5850.99
121_P124_I1.5770.99
46_L215_Q1.5640.99
2_S5_V1.5620.99
323_P387_I1.5550.99
200_S216_S1.5430.99
117_W125_H1.5360.99
50_M216_S1.5350.99
205_L361_K1.5320.99
344_A366_I1.5280.99
302_K306_T1.5250.99
296_K299_G1.5140.99
351_L360_S1.5070.99
32_V51_A1.4670.99
291_Y295_Q1.4450.99
32_V129_I1.4320.99
57_L195_F1.4310.99
165_M171_L1.4190.99
259_D300_S1.4150.99
57_L435_F1.4080.98
422_V426_I1.4050.98
35_M50_M1.4040.98
197_A221_M1.3990.98
336_G340_V1.3960.98
169_G172_I1.3950.98
156_F397_L1.3850.98
152_E176_Q1.3830.98
52_K117_W1.3670.98
270_A282_E1.3620.98
86_F163_A1.3550.98
253_S384_M1.3410.98
5_V9_I1.3400.98
105_M135_G1.3390.98
36_E126_A1.3380.98
365_R369_A1.3330.98
425_M429_A1.3230.98
271_T329_W1.3170.98
39_Y48_L1.3080.98
228_G345_A1.3030.97
25_S61_N1.3030.97
203_K208_K1.2810.97
24_M195_F1.2790.97
54_W216_S1.2750.97
38_L41_V1.2730.97
59_L114_I1.2670.97
140_S185_I1.2620.97
370_L373_F1.2600.97
197_A217_F1.2530.97
276_N280_S1.2500.97
12_A387_I1.2500.97
205_L368_I1.2490.97
287_Y291_Y1.2440.97
145_T177_L1.2390.97
48_L52_K1.2370.97
308_Q320_Y1.2320.96
218_K222_I1.2320.96
193_A220_A1.2270.96
418_I422_V1.2170.96
91_F146_A1.2160.96
398_M403_S1.2110.96
194_F344_A1.2070.96
302_K310_E1.2040.96
287_Y298_S1.2000.96
13_S417_I1.1980.96
256_L267_T1.1970.96
3_E410_A1.1950.96
181_F185_I1.1940.96
33_A37_T1.1850.96
97_I168_F1.1670.95
112_L128_C1.1650.95
260_S265_A1.1640.95
202_F206_K1.1640.95
26_I188_A1.1610.95
144_L177_L1.1610.95
30_F133_S1.1600.95
31_M219_L1.1580.95
130_W134_F1.1550.95
24_M28_L1.1530.95
194_F341_M1.1400.94
433_F437_R1.1380.94
197_A220_A1.1380.94
263_P298_S1.1240.94
250_M301_V1.1230.94
350_W353_R1.1210.94
323_P326_T1.1210.94
228_G232_G1.1190.94
137_I185_I1.1190.94
31_M223_V1.1150.94
243_M293_A1.1130.94
182_P234_S1.1130.94
34_L219_L1.1120.94
38_L44_N1.1100.94
193_A224_G1.1000.93
336_G339_V1.0980.93
199_V439_I1.0900.93
349_L353_R1.0810.93
7_A408_V1.0780.93
419_A423_M1.0700.92
24_M375_F1.0660.92
274_T323_P1.0640.92
187_G378_N1.0600.92
250_M253_S1.0600.92
347_G362_W1.0570.92
333_I376_L1.0570.92
415_F419_A1.0570.92
376_L380_A1.0500.92
214_K218_K1.0450.91
243_M250_M1.0440.91
205_L365_R1.0320.91
30_F34_L1.0300.91
141_F145_T1.0280.91
152_E241_H1.0280.91
192_G374_P1.0280.91
217_F367_M1.0240.91
4_L401_A1.0160.90
113_W129_I1.0140.90
50_M212_F1.0110.90
176_Q245_S1.0090.90
184_V187_G1.0060.90
36_E129_I1.0010.90
416_S419_A1.0000.90
157_T166_N1.0000.90
132_V136_T0.9980.89
225_L349_L0.9960.89
194_F367_M0.9940.89
179_V241_H0.9910.89
248_M304_M0.9900.89
36_E117_W0.9880.89
308_Q321_I0.9860.89
224_G345_A0.9840.89
87_V394_V0.9810.89
267_T270_A0.9810.89
363_Y367_M0.9780.88
39_Y117_W0.9770.88
293_A301_V0.9720.88
271_T281_N0.9710.88
205_L364_L0.9690.88
126_A130_W0.9680.88
35_M219_L0.9660.88
45_E48_L0.9640.88
344_A373_F0.9580.87
51_A117_W0.9540.87
124_I127_L0.9520.87
340_V343_L0.9510.87
356_K359_N0.9480.87
343_L346_L0.9450.87
201_A364_L0.9440.87
133_S137_I0.9430.87
202_F368_I0.9370.86
197_A367_M0.9370.86
179_V237_M0.9360.86
178_W182_P0.9350.86
48_L117_W0.9240.85
123_K127_L0.9220.85
256_L301_V0.9150.85
241_H245_S0.9140.85
37_T41_V0.9130.85
323_P327_T0.9120.85
344_A367_M0.9100.85
294_Y298_S0.9100.85
351_L356_K0.9090.85
266_W292_L0.9090.85
131_L135_G0.9050.84
30_F33_A0.9040.84
6_L414_L0.9040.84
257_W305_K0.8990.84
9_I13_S0.8950.84
210_V214_K0.8940.84
259_D302_K0.8920.83
393_T398_M0.8860.83
289_L301_V0.8850.83
260_S263_P0.8820.83
160_N164_E0.8810.83
226_C230_G0.8800.83
233_L237_M0.8790.83
176_Q180_E0.8780.82
260_S300_S0.8770.82
340_V344_A0.8770.82
83_Y87_V0.8760.82
259_D303_G0.8760.82
190_A231_V0.8720.82
12_A326_T0.8690.82
346_L350_W0.8690.82
182_P186_F0.8650.81
152_E175_P0.8640.81
15_T72_Q0.8630.81
256_L302_K0.8620.81
6_L417_I0.8610.81
285_V288_A0.8600.81
225_L346_L0.8590.81
222_I352_N0.8570.81
118_D122_K0.8530.81
305_K321_I0.8460.80
134_F138_M0.8430.80
271_T280_S0.8390.79
266_W335_V0.8390.79
222_I349_L0.8390.79
51_A55_G0.8390.79
348_G367_M0.8380.79
212_F443_A0.8360.79
327_T384_M0.8340.79
250_M289_L0.8320.79
145_T385_T0.8310.79
256_L260_S0.8300.79
159_K162_R0.8290.79
185_I189_L0.8250.78
267_T279_S0.8250.78
195_F375_F0.8240.78
44_N211_P0.8230.78
411_G414_L0.8200.78
410_A413_L0.8200.78
267_T282_E0.8180.78
141_F172_I0.8180.78
53_F442_G0.8070.77
287_Y299_G0.8070.77
227_A231_V0.8040.77
436_I439_I0.8030.76
189_L227_A0.8030.76
415_F418_I0.8020.76
264_A299_G0.7970.76
122_K126_A0.7960.76
40_L123_K0.7960.76
201_A217_F0.7950.76
408_V413_L0.7940.76
230_G234_S0.7920.75
437_R441_K0.7910.75
242_L253_S0.7900.75
49_K444_E0.7890.75
290_S301_V0.7880.75
393_T400_T0.7860.75
156_F166_N0.7860.75
190_A224_G0.7850.75
257_W274_T0.7850.75
83_Y89_D0.7840.75
432_V436_I0.7840.75
89_D162_R0.7840.75
47_Y443_A0.7830.75
340_V366_I0.7830.75
410_A414_L0.7830.75
203_K442_G0.7820.75
426_I430_L0.7760.74
418_I421_G0.7760.74
179_V238_Q0.7750.74
119_R440_K0.7710.73
260_S284_K0.7680.73
228_G338_G0.7670.73
275_K278_K0.7670.73
327_T330_S0.7660.73
60_I438_E0.7640.73
75_Q80_W0.7630.73
17_F21_F0.7550.72
327_T383_I0.7530.72
341_M370_L0.7530.72
330_S384_M0.7510.71
242_L385_T0.7500.71
273_D279_S0.7500.71
148_S174_N0.7490.71
271_T325_K0.7480.71
270_A284_K0.7470.71
23_P91_F0.7470.71
40_L122_K0.7440.71
45_E122_K0.7440.71
290_S299_G0.7430.71
300_S306_T0.7430.71
270_A281_N0.7400.70
223_V227_A0.7400.70
225_L345_A0.7390.70
190_A341_M0.7380.70
347_G366_I0.7380.70
117_W129_I0.7380.70
76_F95_L0.7360.70
61_N195_F0.7350.70
420_F427_L0.7350.70
19_F378_N0.7320.70
67_V396_G0.7320.70
55_G113_W0.7320.70
196_I220_A0.7320.70
259_D301_V0.7310.69
347_G350_W0.7300.69
87_V149_F0.7300.69
269_F281_N0.7290.69
264_A303_G0.7290.69
408_V412_S0.7290.69
71_L424_Y0.7270.69
26_I137_I0.7250.69
37_T40_L0.7220.68
102_A139_S0.7220.68
188_A231_V0.7220.68
330_S380_A0.7200.68
222_I226_C0.7180.68
124_I128_C0.7180.68
404_V413_L0.7160.68
148_S180_E0.7160.68
243_M302_K0.7130.68
157_T165_M0.7120.67
93_A165_M0.7090.67
250_M293_A0.7070.67
302_K307_L0.7060.67
188_A378_N0.7050.67
60_I434_L0.7050.67
120_L124_I0.7010.66
31_M196_I0.7010.66
97_I142_W0.6990.66
47_Y50_M0.6990.66
136_T189_L0.6980.66
30_F137_I0.6980.66
90_V165_M0.6980.66
412_S415_F0.6980.66
109_F128_C0.6950.66
372_S376_L0.6940.65
307_L321_I0.6940.65
342_I346_L0.6930.65
349_L352_N0.6930.65
425_M428_G0.6920.65
289_L292_L0.6900.65
327_T387_I0.6900.65
49_K209_E0.6900.65
339_V347_G0.6880.65
207_K361_K0.6870.65
193_A227_A0.6800.64
206_K369_A0.6800.64
262_D302_K0.6790.64
176_Q241_H0.6770.64
158_I163_A0.6760.63
335_V377_A0.6760.63
258_E300_S0.6760.63
6_L413_L0.6760.63
83_Y90_V0.6750.63
109_F135_G0.6730.63
263_P299_G0.6730.63
97_I101_L0.6730.63
273_D278_K0.6730.63
90_V163_A0.6710.63
30_F130_W0.6710.63
36_E40_L0.6700.63
102_A138_M0.6690.63
279_S324_V0.6680.62
77_G92_G0.6680.62
44_N49_K0.6670.62
239_A332_R0.6660.62
326_T383_I0.6660.62
41_V44_N0.6660.62
257_W321_I0.6650.62
105_M131_L0.6650.62
248_M395_M0.6640.62
204_L210_V0.6630.62
263_P296_K0.6630.62
416_S439_I0.6550.61
112_L434_L0.6540.61
38_L47_Y0.6530.61
7_A404_V0.6520.61
255_G304_M0.6480.60
148_S177_L0.6460.60
57_L438_E0.6460.60
81_S84_S0.6430.60
363_Y366_I0.6420.59
337_A377_A0.6420.59
283_I288_A0.6410.59
30_F189_L0.6410.59
257_W282_E0.6400.59
46_L50_M0.6400.59
29_V32_V0.6390.59
72_Q75_Q0.6370.59
269_F282_E0.6360.59
155_G171_L0.6360.59
159_K164_E0.6350.59
203_K213_F0.6340.58
398_M402_Q0.6330.58
306_T309_A0.6330.58
102_A143_I0.6310.58
203_K443_A0.6310.58
49_K446_D0.6300.58
43_K355_K0.6290.58
188_A326_T0.6290.58
34_L42_K0.6270.58
36_E48_L0.6250.57
291_Y296_K0.6250.57
195_F435_F0.6220.57
21_F67_V0.6210.57
268_A285_V0.6210.57
203_K439_I0.6200.57
42_K51_A0.6190.57
274_T324_V0.6190.57
344_A363_Y0.6180.57
38_L42_K0.6180.57
409_T412_S0.6170.56
73_E146_A0.6130.56
258_E310_E0.6120.56
335_V339_V0.6120.56
49_K212_F0.6110.56
137_I189_L0.6110.56
405_S408_V0.6100.56
142_W172_I0.6090.55
72_Q78_L0.6090.55
255_G332_R0.6090.55
350_W354_R0.6080.55
287_Y296_K0.6080.55
413_L417_I0.6070.55
263_P297_F0.6060.55
194_F337_A0.6050.55
347_G360_S0.6040.55
46_L211_P0.6040.55
187_G231_V0.6030.55
265_A282_E0.6030.55
82_D398_M0.6010.54
256_L289_L0.6010.54
221_M351_L0.6000.54
337_A380_A0.6000.54
117_W442_G0.5990.54
191_T383_I0.5980.54
214_K358_E0.5980.54
274_T277_E0.5970.54
42_K47_Y0.5970.54
55_G117_W0.5970.54
52_K359_N0.5960.54
144_L184_V0.5960.54
94_P171_L0.5950.54
190_A227_A0.5940.54
209_E442_G0.5930.53
22_V91_F0.5920.53
84_S87_V0.5900.53
228_G337_A0.5890.53
221_M349_L0.5890.53
61_N73_E0.5880.53
431_L435_F0.5870.53
25_S64_V0.5870.53
325_K329_W0.5870.53
366_I370_L0.5870.53
276_N279_S0.5860.53
196_I223_V0.5840.52
113_W125_H0.5830.52
7_A58_F0.5820.52
258_E309_A0.5820.52
203_K206_K0.5820.52
368_I371_I0.5810.52
121_P127_L0.5810.52
74_F99_A0.5800.52
32_V58_F0.5790.52
427_L431_L0.5780.52
226_C348_G0.5770.52
273_D277_E0.5770.52
155_G170_A0.5770.52
421_G425_M0.5760.51
239_A292_L0.5760.51
35_M51_A0.5750.51
234_S237_M0.5730.51
29_V145_T0.5720.51
288_A339_V0.5720.51
244_E275_K0.5720.51
270_A328_F0.5720.51
38_L219_L0.5710.51
134_F169_G0.5710.51
197_A370_L0.5700.51
111_G114_I0.5700.51
30_F223_V0.5690.51
419_A424_Y0.5690.51
3_E404_V0.5680.50
328_F332_R0.5680.50
44_N47_Y0.5680.50
229_L342_I0.5680.50
255_G270_A0.5670.50
397_L401_A0.5660.50
276_N281_N0.5650.50
365_R368_I0.5650.50
404_V435_F0.5650.50
50_M54_W0.5640.50
175_P241_H0.5640.50
251_A306_T0.5640.50
127_L134_F0.5630.50
341_M373_F0.5620.50
14_T72_Q0.5620.50
422_V425_M0.5620.50
123_K126_A0.5620.50
170_A173_T0.5610.50
360_S364_L0.5610.50
258_E276_N0.5600.49
264_A297_F0.5590.49
149_F171_L0.5580.49
52_K122_K0.5580.49
238_Q241_H0.5570.49
438_E441_K0.5570.49
213_F216_S0.5560.49
93_A168_F0.5560.49
263_P300_S0.5560.49
242_L327_T0.5560.49
83_Y91_F0.5550.49
99_A289_L0.5540.49
33_A129_I0.5540.49
7_A405_S0.5520.48
17_F68_T0.5510.48
107_S378_N0.5500.48
19_F374_P0.5500.48
217_F364_L0.5500.48
76_F84_S0.5490.48
126_A129_I0.5480.48
89_D163_A0.5480.48
352_N355_K0.5470.48
141_F177_L0.5460.48
137_I141_F0.5460.48
61_N375_F0.5450.48
17_F64_V0.5450.48
225_L229_L0.5440.47
251_A289_L0.5430.47
197_A348_G0.5430.47
152_E245_S0.5430.47
31_M220_A0.5400.47
14_T75_Q0.5400.47
211_P215_Q0.5390.47
180_E236_H0.5390.47
407_N410_A0.5370.47
175_P245_S0.5350.46
49_K445_H0.5340.46
307_L310_E0.5340.46
212_F216_S0.5320.46
195_F439_I0.5310.46
28_L195_F0.5310.46
119_R437_R0.5300.46
233_L339_V0.5290.46
380_A383_I0.5290.46
414_L419_A0.5260.45
70_I108_I0.5250.45
6_L418_I0.5250.45
141_F181_F0.5240.45
209_E213_F0.5240.45
433_F436_I0.5240.45
335_V338_G0.5240.45
83_Y150_M0.5240.45
243_M299_G0.5240.45
439_I442_G0.5220.45
3_E414_L0.5220.45
49_K56_H0.5210.45
361_K364_L0.5200.45
158_I310_E0.5200.45
209_E443_A0.5200.45
14_T420_F0.5180.44
74_F77_G0.5180.44
180_E385_T0.5170.44
207_K210_V0.5170.44
10_Q77_G0.5170.44
277_E308_Q0.5150.44
279_S284_K0.5150.44
56_H441_K0.5150.44
209_E445_H0.5140.44
386_E389_R0.5130.44
59_L110_I0.5120.44
2_S9_I0.5120.44
226_C237_M0.5120.44
226_C359_N0.5110.43
5_V323_P0.5110.43
26_I30_F0.5110.43
122_K361_K0.5100.43
24_M35_M0.5100.43
17_F425_M0.5100.43
228_G341_M0.5100.43
39_Y71_L0.5090.43
444_E447_N0.5090.43
200_S213_F0.5080.43
372_S443_A0.5080.43
144_L181_F0.5080.43
62_F96_A0.5080.43
60_I431_L0.5070.43
83_Y86_F0.5060.43
123_K226_C0.5050.43
107_S438_E0.5050.43
272_I329_W0.5040.43
180_E238_Q0.5030.42
113_W374_P0.5030.42
59_L113_W0.5020.42
347_G363_Y0.5020.42
25_S435_F0.5020.42
393_T399_T0.5010.42
277_E309_A0.5010.42
240_E293_A0.5000.42
286_P331_F0.5000.42
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  
3mk7A 1 0.406 43.7 0.978 Contact Map
4xp4A 1 0.4231 28.8 0.98 Contact Map
2a65A 2 0.3889 22.5 0.981 Contact Map
4us3A 1 0.3077 21.6 0.981 Contact Map
3s8fA 1 0.4722 21.6 0.981 Contact Map
3w4tA 1 0.7735 18 0.982 Contact Map
2yevA 1 0.7521 17.7 0.982 Contact Map
3wfdB 1 0.3803 14.5 0.983 Contact Map
2ks1B 1 0.094 9.1 0.984 Contact Map
2f95B 2 0.1111 8.7 0.984 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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