GREMLIN Database
Q980H3 - NADH dehydrogenase subunit D (NuoD)
UniProt: Q980H3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 410 (361)
Sequences: 4145 (2431)
Seq/√Len: 127.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
199_R292_E5.0841.00
286_Q289_R4.2281.00
69_K72_E3.9871.00
270_E275_A3.4151.00
226_S229_N3.3781.00
342_E359_V3.2821.00
361_D367_Y3.2571.00
163_A190_M3.1991.00
196_A292_E3.1601.00
112_E260_K3.0391.00
97_G347_V2.9881.00
203_E285_E2.9701.00
268_Y275_A2.9211.00
105_I343_A2.8701.00
268_Y282_E2.8661.00
86_P371_M2.7201.00
156_V197_Y2.7161.00
120_F294_I2.6801.00
192_I296_K2.6691.00
101_A358_V2.5371.00
225_M235_A2.4661.00
47_K55_D2.4121.00
71_S79_L2.3381.00
385_L401_L2.3311.00
124_V157_W2.2841.00
257_A261_L2.2751.00
117_L179_V2.2621.00
342_E357_Y2.2581.00
99_I174_V2.2201.00
359_V367_Y2.2111.00
282_E286_Q2.1551.00
119_S257_A2.1501.00
271_G275_A2.1051.00
272_D275_A2.0771.00
302_N306_D2.0701.00
79_L366_P2.0691.00
87_A404_F2.0531.00
109_D115_Q2.0481.00
264_E286_Q2.0341.00
216_R220_E1.9881.00
96_L122_A1.9511.00
49_N54_E1.9401.00
104_K343_A1.9291.00
71_S369_L1.9261.00
340_K361_D1.9171.00
111_P114_A1.9151.00
285_E288_M1.8501.00
259_D265_I1.8131.00
358_V369_L1.7981.00
246_Y251_K1.7801.00
46_V56_V1.7621.00
188_K192_I1.7391.00
112_E116_Y1.7271.00
55_D387_K1.7251.00
404_F407_E1.7231.00
303_I306_D1.7131.00
187_I191_T1.7081.00
113_R182_D1.7061.00
260_K297_N1.6841.00
206_K285_E1.6831.00
160_I191_T1.6571.00
248_D251_K1.6411.00
229_N384_E1.6051.00
120_F291_L1.6041.00
344_I355_A1.6011.00
229_N232_K1.5811.00
119_S261_L1.5191.00
384_E387_K1.5101.00
27_Q47_K1.5091.00
103_E118_R1.5021.00
280_R283_E1.5011.00
238_P241_R1.5001.00
110_V115_Q1.4991.00
112_E115_Q1.4911.00
192_I295_I1.4851.00
192_I292_E1.4791.00
205_W212_N1.4771.00
254_P259_D1.4731.00
301_G306_D1.4721.00
196_A199_R1.4571.00
101_A343_A1.4481.00
218_R223_G1.4421.00
193_K197_Y1.4391.00
261_L294_I1.4311.00
199_R203_E1.4171.00
189_E193_K1.4041.00
90_D93_H1.4031.00
256_G261_L1.3981.00
235_A381_V1.3961.00
93_H122_A1.3871.00
204_D207_K1.3871.00
259_D263_F1.3831.00
258_Y261_L1.3821.00
46_V394_L1.3711.00
44_I56_V1.3671.00
156_V159_T1.3561.00
356_Y371_M1.3361.00
210_F277_G1.3351.00
263_F266_P1.3201.00
93_H350_G1.3171.00
254_P258_Y1.3061.00
184_T187_I1.3051.00
216_R274_L1.2931.00
246_Y252_I1.2931.00
257_A265_I1.2861.00
138_A143_H1.2801.00
105_I360_S1.2761.00
261_L290_I1.2731.00
343_A358_V1.2711.00
116_Y299_P1.2621.00
199_R288_M1.2621.00
97_G356_Y1.2491.00
215_I218_R1.2421.00
94_M356_Y1.2391.00
254_P261_L1.2311.00
275_A279_V1.2311.00
194_A198_Q1.2301.00
100_I345_S1.2261.00
252_I258_Y1.2240.99
228_E232_K1.2180.99
167_A170_T1.2130.99
373_T407_E1.2100.99
247_Y252_I1.2070.99
257_A260_K1.2050.99
93_H125_N1.2030.99
44_I58_L1.2020.99
264_E289_R1.1990.99
254_P260_K1.1960.99
285_E289_R1.1950.99
114_A179_V1.1810.99
238_P243_S1.1810.99
329_L332_Y1.1800.99
329_L333_Y1.1760.99
389_S397_I1.1720.99
240_L245_V1.1710.99
271_G279_V1.1640.99
235_A239_N1.1580.99
272_D280_R1.1470.99
278_L282_E1.1460.99
294_I297_N1.1390.99
79_L83_V1.1350.99
218_R222_V1.1130.99
246_Y265_I1.1130.99
383_K387_K1.1070.99
224_V227_R1.1020.99
127_I284_I1.0950.99
208_I212_N1.0920.99
71_S83_V1.0880.99
190_M193_K1.0860.99
218_R221_N1.0840.99
207_K211_Y1.0750.99
220_E223_G1.0750.99
83_V95_N1.0730.99
222_V225_M1.0720.99
92_I121_A1.0700.99
302_N307_R1.0630.99
249_V254_P1.0620.99
210_F278_L1.0570.99
223_G397_I1.0540.98
275_A278_L1.0540.98
90_D407_E1.0520.98
193_K196_A1.0520.98
237_G241_R1.0510.98
259_D264_E1.0490.98
215_I219_L1.0480.98
403_Y407_E1.0440.98
119_S294_I1.0350.98
373_T376_Y1.0340.98
192_I196_A1.0340.98
275_A282_E1.0290.98
240_L243_S1.0280.98
90_D404_F1.0220.98
231_I234_G1.0210.98
251_K264_E1.0200.98
261_L265_I1.0150.98
257_A266_P1.0050.98
272_D284_I1.0050.98
121_A164_L1.0040.98
110_V114_A0.9980.98
125_N171_N0.9970.98
45_F57_D0.9960.98
121_A173_Y0.9950.98
282_E285_E0.9930.98
286_Q290_I0.9930.98
272_D283_E0.9850.98
234_G237_G0.9850.98
87_A407_E0.9740.97
87_A90_D0.9730.97
227_R245_V0.9710.97
87_A351_R0.9670.97
242_A279_V0.9660.97
195_I288_M0.9630.97
257_A263_F0.9600.97
74_R78_H0.9590.97
262_D265_I0.9550.97
263_F267_V0.9550.97
251_K265_I0.9540.97
273_G280_R0.9530.97
302_N305_S0.9460.97
115_Q256_G0.9440.97
128_A132_Y0.9440.97
265_I270_E0.9420.97
76_Y360_S0.9390.97
249_V255_Y0.9370.97
115_Q119_S0.9260.97
204_D208_I0.9250.97
72_E368_R0.9250.97
116_Y297_N0.9230.97
99_I176_P0.9180.96
225_M229_N0.9150.96
265_I268_Y0.9140.96
96_L100_I0.9140.96
301_G304_L0.9100.96
53_I394_L0.8980.96
56_V386_C0.8950.96
205_W217_A0.8940.96
263_F269_K0.8930.96
292_E296_K0.8930.96
116_Y257_A0.8860.96
271_G280_R0.8820.95
135_G150_G0.8800.95
116_Y260_K0.8790.95
272_D279_V0.8750.95
356_Y369_L0.8740.95
250_R255_Y0.8710.95
188_K298_I0.8710.95
251_K254_P0.8690.95
349_A354_L0.8680.95
195_I199_R0.8670.95
188_K295_I0.8670.95
256_G259_D0.8630.95
197_Y201_R0.8620.95
260_K263_F0.8610.95
261_L266_P0.8600.95
271_G274_L0.8590.95
262_D266_P0.8550.95
230_A240_L0.8530.95
244_G250_R0.8510.95
153_D205_W0.8500.94
359_V368_R0.8500.94
258_Y263_F0.8490.94
116_Y261_L0.8480.94
238_P242_A0.8440.94
398_Y403_Y0.8390.94
259_D262_D0.8390.94
55_D379_I0.8380.94
97_G345_S0.8370.94
255_Y259_D0.8340.94
261_L264_E0.8340.94
281_L285_E0.8330.94
346_R353_E0.8310.94
127_I131_L0.8300.94
186_E189_E0.8300.94
200_K203_E0.8300.94
86_P356_Y0.8290.94
202_L284_I0.8280.94
100_I115_Q0.8250.94
258_Y264_E0.8210.93
253_E257_A0.8160.93
206_K209_F0.8160.93
209_F212_N0.8150.93
218_R225_M0.8110.93
84_E95_N0.8030.93
221_N225_M0.8030.93
233_W236_V0.7970.92
122_A347_V0.7970.92
251_K255_Y0.7950.92
139_I144_S0.7950.92
205_W208_I0.7940.92
244_G249_V0.7910.92
277_G281_L0.7910.92
351_R402_D0.7890.92
257_A264_E0.7880.92
252_I261_L0.7860.92
255_Y260_K0.7850.92
153_D198_Q0.7850.92
304_L307_R0.7840.92
35_Q38_G0.7800.92
199_R285_E0.7770.91
272_D277_G0.7700.91
71_S366_P0.7680.91
296_K300_E0.7670.91
399_G403_Y0.7640.91
52_I390_R0.7630.91
222_V226_S0.7610.91
263_F293_Q0.7580.90
273_G284_I0.7570.90
90_D94_M0.7520.90
253_E259_D0.7510.90
133_G402_D0.7470.90
294_I298_I0.7450.90
84_E172_S0.7450.90
89_L402_D0.7430.89
274_L278_L0.7420.89
290_I294_I0.7410.89
65_R406_P0.7390.89
279_V282_E0.7380.89
119_S256_G0.7380.89
106_L338_P0.7360.89
339_P362_G0.7360.89
160_I194_A0.7350.89
77_M176_P0.7330.89
375_S378_L0.7330.89
262_D293_Q0.7310.89
351_R403_Y0.7300.89
351_R404_F0.7280.88
255_Y266_P0.7270.88
297_N300_E0.7250.88
90_D402_D0.7250.88
273_G277_G0.7240.88
263_F268_Y0.7240.88
140_F402_D0.7240.88
117_L183_I0.7230.88
266_P269_K0.7230.88
256_G260_K0.7190.88
206_K281_L0.7180.88
252_I260_K0.7170.88
225_M228_E0.7170.88
27_Q49_N0.7140.88
255_Y258_Y0.7070.87
303_I307_R0.7050.87
291_L295_I0.7040.87
227_R231_I0.7020.87
330_P333_Y0.7020.87
259_D266_P0.7020.87
67_V70_L0.7010.87
254_P257_A0.6960.86
271_G278_L0.6950.86
279_V289_R0.6940.86
247_Y256_G0.6920.86
129_S132_Y0.6890.86
254_P263_F0.6880.86
255_Y265_I0.6860.85
284_I287_S0.6860.85
239_N401_L0.6850.85
206_K210_F0.6840.85
250_R254_P0.6840.85
282_E289_R0.6830.85
137_L399_G0.6830.85
266_P282_E0.6820.85
204_D212_N0.6800.85
386_C397_I0.6790.85
38_G42_M0.6790.85
149_W152_G0.6770.85
370_R373_T0.6750.84
258_Y266_P0.6750.84
402_D407_E0.6740.84
107_G110_V0.6720.84
354_L374_P0.6720.84
275_A285_E0.6720.84
244_G248_D0.6680.84
375_S407_E0.6660.84
87_A402_D0.6650.84
237_G243_S0.6650.84
253_E256_G0.6640.83
125_N129_S0.6640.83
100_I104_K0.6640.83
137_L141_L0.6640.83
279_V285_E0.6620.83
27_Q54_E0.6610.83
105_I341_G0.6580.83
234_G238_P0.6580.83
123_E126_R0.6570.83
94_M97_G0.6560.83
129_S351_R0.6550.83
275_A286_Q0.6550.83
248_D254_P0.6550.83
256_G265_I0.6540.83
295_I298_I0.6530.82
266_P270_E0.6510.82
360_S366_P0.6500.82
224_V228_E0.6490.82
32_V395_V0.6460.82
90_D129_S0.6460.82
199_R289_R0.6440.82
185_Q188_K0.6440.82
264_E267_V0.6430.81
219_L273_G0.6420.81
337_R341_G0.6410.81
234_G241_R0.6400.81
166_G348_E0.6400.81
334_A337_R0.6390.81
275_A281_L0.6370.81
128_A157_W0.6360.81
53_I389_S0.6350.81
301_G305_S0.6330.80
80_I99_I0.6330.80
51_D218_R0.6330.80
258_Y262_D0.6330.80
129_S402_D0.6320.80
346_R355_A0.6300.80
89_L132_Y0.6280.80
247_Y253_E0.6260.80
223_G226_S0.6250.80
246_Y250_R0.6240.80
250_R258_Y0.6240.80
91_S169_V0.6220.79
55_D383_K0.6220.79
141_L396_S0.6220.79
248_D255_Y0.6210.79
190_M194_A0.6190.79
138_A146_G0.6190.79
226_S230_A0.6180.79
381_V385_L0.6180.79
221_N224_V0.6150.79
221_N226_S0.6150.79
391_Y394_L0.6150.79
244_G247_Y0.6140.78
104_K345_S0.6130.78
89_L404_F0.6130.78
301_G307_R0.6120.78
273_G396_S0.6120.78
128_A158_V0.6110.78
244_G252_I0.6100.78
213_P218_R0.6090.78
236_V241_R0.6090.78
218_R237_G0.6090.78
244_G255_Y0.6060.78
247_Y254_P0.6030.77
92_I165_T0.6010.77
64_H69_K0.5970.76
252_I259_D0.5960.76
231_I236_V0.5960.76
128_A161_L0.5950.76
254_P265_I0.5950.76
253_E258_Y0.5950.76
186_E190_M0.5930.76
300_E305_S0.5930.76
47_K57_D0.5920.76
245_V250_R0.5910.76
175_I180_R0.5900.76
130_H283_E0.5900.76
253_E261_L0.5880.75
224_V229_N0.5870.75
232_K237_G0.5860.75
156_V194_A0.5850.75
163_A187_I0.5840.75
93_H347_V0.5840.75
144_S148_M0.5820.75
245_V248_D0.5820.75
154_R158_V0.5820.75
261_L270_E0.5800.74
235_A240_L0.5790.74
228_E231_I0.5790.74
41_H404_F0.5780.74
89_L407_E0.5780.74
118_R177_G0.5770.74
378_L403_Y0.5750.74
330_P334_A0.5730.74
290_I293_Q0.5730.74
206_K212_N0.5710.73
101_A345_S0.5710.73
273_G281_L0.5700.73
184_T189_E0.5690.73
32_V53_I0.5690.73
152_G197_Y0.5690.73
264_E269_K0.5690.73
165_T170_T0.5690.73
89_L125_N0.5680.73
241_R244_G0.5670.73
121_A179_V0.5670.73
288_M292_E0.5660.73
283_E287_S0.5660.73
81_P172_S0.5650.72
92_I125_N0.5630.72
281_L289_R0.5630.72
229_N233_W0.5620.72
271_G283_E0.5620.72
134_L205_W0.5600.72
114_A118_R0.5580.72
90_D350_G0.5540.71
398_Y405_P0.5510.71
239_N243_S0.5510.71
298_I302_N0.5510.71
253_E346_R0.5510.71
197_Y200_K0.5500.70
120_F227_R0.5500.70
160_I187_I0.5490.70
234_G240_L0.5480.70
200_K204_D0.5480.70
253_E265_I0.5460.70
264_E268_Y0.5460.70
207_K210_F0.5460.70
255_Y263_F0.5460.70
195_I292_E0.5460.70
337_R340_K0.5440.70
44_I394_L0.5440.70
208_I214_S0.5440.70
41_H87_A0.5440.70
295_I299_P0.5430.70
271_G285_E0.5420.69
259_D268_Y0.5410.69
239_N242_A0.5400.69
93_H349_A0.5400.69
84_E167_A0.5390.69
273_G397_I0.5390.69
98_Y369_L0.5380.69
272_D281_L0.5380.69
32_V39_S0.5370.69
100_I256_G0.5370.69
231_I245_V0.5330.68
30_L48_L0.5320.68
32_V394_L0.5320.68
259_D269_K0.5310.68
32_V46_V0.5310.68
198_Q202_L0.5300.68
279_V286_Q0.5290.68
158_V168_R0.5280.67
230_A233_W0.5270.67
275_A280_R0.5260.67
256_G263_F0.5240.67
79_L98_Y0.5230.67
249_V253_E0.5230.67
402_D405_P0.5210.66
153_D201_R0.5200.66
213_P217_A0.5200.66
329_L335_S0.5200.66
291_L294_I0.5200.66
247_Y250_R0.5180.66
74_R79_L0.5170.66
212_N218_R0.5160.66
230_A243_S0.5160.66
196_A288_M0.5150.65
260_K264_E0.5150.65
95_N170_T0.5140.65
283_E289_R0.5140.65
366_P369_L0.5130.65
192_I195_I0.5110.65
244_G258_Y0.5080.64
232_K235_A0.5070.64
129_S350_G0.5070.64
29_E47_K0.5070.64
90_D403_Y0.5060.64
385_L397_I0.5060.64
121_A171_N0.5050.64
278_L281_L0.5040.64
45_F59_D0.5040.64
102_V358_V0.5040.64
220_E274_L0.5030.64
262_D269_K0.5010.63
225_M230_A0.5010.63
341_G360_S0.5000.63
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  
3i9v4 1 0.9098 100 0.125 Contact Map
4kn9L 2 0.9073 100 0.241 Contact Map
4uqlQ 1 0.9439 100 0.243 Contact Map
4u9hL 1 0.9317 100 0.248 Contact Map
1e3dB 1 0.9463 100 0.253 Contact Map
3ze9B 1 0.9317 100 0.258 Contact Map
1yq9H 1 0.9293 100 0.262 Contact Map
4omfA 1 0.9146 100 0.264 Contact Map
4ue3L 2 0.961 100 0.27 Contact Map
3myrB 2 0.9317 100 0.277 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.

Page generated in 0.0119 seconds.