GREMLIN Database
Q97UP4 - NADH dehydrogenase
UniProt: Q97UP4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 343 (289)
Sequences: 40064 (28428)
Seq/√Len: 1672.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
124_I209_G4.2561.00
27_R58_E3.9001.00
122_T153_R3.3901.00
2_R21_N3.1671.00
155_I187_I3.0751.00
68_K75_E2.9801.00
67_K249_D2.8751.00
153_R185_E2.8381.00
15_A82_I2.6421.00
176_E180_A2.5891.00
90_D219_K2.5051.00
239_N243_S2.4621.00
196_R201_I2.3961.00
124_I157_I2.3501.00
25_I76_I2.3351.00
230_S237_N2.3241.00
159_R191_S2.2921.00
64_F247_Y2.2711.00
122_T210_D2.2671.00
2_R79_D2.1951.00
95_K194_E2.1921.00
194_E201_I2.1841.00
80_K249_D2.1821.00
4_V25_I2.1561.00
155_I185_E2.1471.00
187_I206_E2.1321.00
78_Y81_L2.1251.00
70_I75_E2.1141.00
88_S221_S2.1071.00
122_T155_I2.0851.00
190_A204_K1.9801.00
63_K66_E1.9731.00
230_S246_D1.9521.00
202_T205_G1.9161.00
191_S203_S1.9081.00
11_A253_A1.8861.00
161_A189_D1.8821.00
240_E286_K1.8781.00
57_A73_K1.8351.00
80_K251_Y1.8261.00
88_S219_K1.8111.00
193_E201_I1.7851.00
251_Y278_N1.7811.00
68_K77_S1.7801.00
85_L256_C1.7741.00
61_N70_I1.7641.00
223_F226_N1.7311.00
157_I207_F1.6971.00
4_V76_I1.6921.00
67_K71_T1.6821.00
193_E203_S1.6771.00
4_V69_I1.6571.00
82_I253_A1.6521.00
4_V78_Y1.6251.00
243_S248_K1.5841.00
187_I190_A1.5731.00
2_R23_I1.5661.00
122_T208_S1.5011.00
123_L139_T1.4931.00
236_I252_G1.4881.00
124_I200_V1.4811.00
21_N54_D1.4591.00
4_V23_I1.4301.00
3_V20_P1.4241.00
58_E72_N1.4141.00
8_G26_D1.4141.00
169_P173_L1.4061.00
162_R172_S1.4031.00
57_A72_N1.3971.00
106_S109_D1.3941.00
71_T76_I1.3821.00
128_G158_N1.3821.00
36_K39_H1.3801.00
88_S222_N1.3631.00
140_I184_V1.3631.00
158_N188_L1.3551.00
29_E56_V1.3511.00
176_E188_L1.3471.00
238_V257_A1.3331.00
71_T74_G1.3301.00
108_E111_I1.3301.00
140_I153_R1.3271.00
11_A268_S1.3211.00
195_I212_I1.3191.00
100_H197_G1.3031.00
190_A206_E1.3021.00
60_V70_I1.2921.00
61_N226_N1.2901.00
202_T207_F1.2841.00
123_L211_H1.2741.00
272_G276_I1.2741.00
3_V82_I1.2711.00
178_I182_L1.2681.00
178_I181_E1.2581.00
6_V59_V1.2531.00
6_V85_L1.2511.00
5_I12_G1.2511.00
274_H278_N1.2201.00
133_V156_L1.2201.00
121_R210_D1.2161.00
173_L176_E1.2071.00
64_F250_V1.2051.00
242_L257_A1.2041.00
241_D278_N1.2021.00
37_I40_T1.2021.00
60_V72_N1.1921.00
63_K68_K1.1841.00
187_I207_F1.1651.00
123_L152_E1.1601.00
190_A203_S1.1531.00
23_I55_I1.1491.00
87_Y218_I1.1441.00
241_D286_K1.1421.00
103_K106_S1.1331.00
49_V52_K1.1291.00
23_I76_I1.1231.00
162_R169_P1.1221.00
23_I54_D1.1191.00
253_A275_A1.1141.00
232_K237_N1.1081.00
155_I209_G1.0961.00
105_E108_E1.0921.00
122_T152_E1.0911.00
105_E109_D1.0911.00
84_S253_A1.0861.00
104_L107_F1.0831.00
57_A71_T1.0791.00
174_K178_I1.0781.00
177_N180_A1.0751.00
93_K97_A1.0721.00
57_A61_N1.0711.00
177_N181_E1.0661.00
109_D112_K1.0621.00
277_L285_E1.0621.00
2_R77_S1.0621.00
243_S249_D1.0611.00
242_L275_A1.0481.00
133_V298_I1.0481.00
102_M106_S1.0461.00
247_Y250_V1.0441.00
83_I256_C1.0441.00
209_G212_I1.0431.00
63_K70_I1.0371.00
104_L108_E1.0341.00
15_A253_A1.0311.00
110_A113_M1.0281.00
241_D284_D1.0261.00
163_I188_L1.0251.00
238_V252_G1.0231.00
82_I275_A1.0231.00
190_A202_T1.0191.00
275_A278_N1.0141.00
6_V83_I1.0081.00
162_R176_E1.0071.00
148_R182_L0.9981.00
126_I212_I0.9941.00
15_A272_G0.9831.00
15_A275_A0.9641.00
25_I59_V0.9571.00
66_E75_E0.9541.00
196_R199_T0.9521.00
140_I182_L0.9501.00
126_I216_G0.9441.00
155_I207_F0.9421.00
107_F111_I0.9391.00
101_V104_L0.9381.00
51_R54_D0.9351.00
236_I256_C0.9351.00
89_Q92_S0.9331.00
106_S110_A0.9291.00
167_M294_D0.9261.00
242_L274_H0.9251.00
243_S251_Y0.9241.00
174_K177_N0.9221.00
252_G256_C0.9161.00
5_I15_A0.9121.00
136_V156_L0.9121.00
237_N246_D0.9091.00
126_I214_Y0.9071.00
57_A60_V0.9061.00
294_D303_M0.9051.00
267_I271_S0.9041.00
252_G257_A0.9041.00
244_S252_G0.9011.00
223_F227_L0.8921.00
8_G24_L0.8901.00
15_A276_I0.8881.00
107_F110_A0.8871.00
81_L250_V0.8841.00
173_L177_N0.8831.00
231_L237_N0.8831.00
120_A152_E0.8831.00
198_K208_S0.8781.00
20_P79_D0.8751.00
3_V80_K0.8701.00
124_I207_F0.8691.00
176_E186_V0.8641.00
99_E102_M0.8631.00
125_V136_V0.8621.00
36_K40_T0.8561.00
59_V62_I0.8491.00
157_I187_I0.8481.00
243_S278_N0.8471.00
41_L48_L0.8461.00
251_Y275_A0.8411.00
119_K152_E0.8411.00
244_S247_Y0.8381.00
243_S247_Y0.8321.00
268_S272_G0.8301.00
12_G84_S0.8301.00
14_A269_M0.8291.00
25_I71_T0.8281.00
158_N165_P0.8251.00
238_V242_L0.8241.00
121_R152_E0.8221.00
111_I114_H0.8201.00
105_E110_A0.8171.00
172_S176_E0.8151.00
82_I280_I0.8141.00
80_K280_I0.8111.00
202_T206_E0.8011.00
227_L231_L0.7991.00
102_M105_E0.7961.00
102_M211_H0.7911.00
110_A114_H0.7881.00
167_M303_M0.7841.00
102_M107_F0.7811.00
157_I202_T0.7751.00
56_V59_V0.7731.00
102_M110_A0.7721.00
90_D93_K0.7721.00
91_L103_K0.7701.00
128_G163_I0.7681.00
270_Q273_V0.7671.00
162_R173_L0.7621.00
59_V69_I0.7601.00
114_H120_A0.7561.00
126_I192_V0.7551.00
101_V195_I0.7531.00
14_A272_G0.7521.00
278_N285_E0.7521.00
235_K263_S0.7461.00
222_N225_T0.7431.00
66_E77_S0.7421.00
277_L283_R0.7411.00
160_G165_P0.7401.00
63_K67_K0.7391.00
108_E112_K0.7391.00
137_G148_R0.7391.00
135_V138_S0.7381.00
273_V277_L0.7331.00
25_I78_Y0.7271.00
91_L97_A0.7271.00
257_A271_S0.7241.00
125_V213_F0.7231.00
107_F113_M0.7211.00
122_T209_G0.7171.00
180_A185_E0.7131.00
132_G158_N0.7121.00
101_V105_E0.7121.00
61_N64_F0.7111.00
18_K277_L0.7091.00
169_P172_S0.7081.00
11_A84_S0.7051.00
25_I57_A0.7031.00
232_K235_K0.7001.00
61_N81_L0.6991.00
274_H287_F0.6991.00
253_A272_G0.6991.00
97_A214_Y0.6971.00
104_L110_A0.6961.00
17_S20_P0.6941.00
28_S38_V0.6941.00
113_M211_H0.6931.00
96_G194_E0.6901.00
64_F67_K0.6861.00
111_I115_N0.6861.00
131_L215_A0.6841.00
92_S214_Y0.6841.00
2_R76_I0.6831.00
4_V67_K0.6821.00
228_K231_L0.6821.00
10_F14_A0.6821.00
62_I81_L0.6811.00
133_V179_L0.6781.00
125_V132_G0.6741.00
157_I190_A0.6741.00
4_V81_L0.6741.00
109_D113_M0.6701.00
136_V154_V0.6691.00
158_N161_A0.6661.00
21_N79_D0.6641.00
276_I280_I0.6621.00
280_I283_R0.6601.00
2_R20_P0.6601.00
11_A82_I0.6591.00
49_V54_D0.6591.00
32_L35_P0.6581.00
59_V63_K0.6581.00
127_G132_G0.6561.00
94_I97_A0.6531.00
78_Y249_D0.6521.00
225_T231_L0.6511.00
261_Y267_I0.6481.00
101_V106_S0.6471.00
170_Q173_L0.6471.00
5_I22_A0.6471.00
91_L214_Y0.6471.00
222_N226_N0.6441.00
59_V64_F0.6431.00
161_A169_P0.6421.00
301_N305_V0.6421.00
175_A178_I0.6401.00
105_E111_I0.6401.00
135_V213_F0.6391.00
287_F290_M0.6361.00
244_S250_V0.6341.00
179_L186_V0.6331.00
105_E113_M0.6321.00
95_K98_N0.6301.00
227_L247_Y0.6281.00
124_I155_I0.6271.00
70_I73_K0.6271.00
103_K109_D0.6271.00
97_A101_V0.6221.00
136_V184_V0.6211.00
85_L223_F0.6201.00
148_R299_D0.6191.00
107_F114_H0.6181.00
102_M108_E0.6161.00
49_V53_P0.6151.00
132_G215_A0.6141.00
201_I204_K0.6131.00
27_R221_S0.6131.00
99_E106_S0.6121.00
100_H103_K0.6071.00
99_E197_G0.6071.00
220_G235_K0.6061.00
156_L186_V0.6041.00
65_N68_K0.6041.00
242_L278_N0.6041.00
258_S261_Y0.6031.00
14_A273_V0.6011.00
192_V200_V0.5971.00
302_F305_V0.5971.00
171_I174_K0.5961.00
185_E206_E0.5961.00
185_E188_L0.5931.00
274_H286_K0.5931.00
266_E270_Q0.5921.00
5_I84_S0.5891.00
269_M273_V0.5871.00
40_T111_I0.5871.00
23_I78_Y0.5841.00
276_I281_E0.5841.00
10_F265_A0.5831.00
61_N67_K0.5821.00
270_Q274_H0.5801.00
91_L98_N0.5791.00
92_S97_A0.5781.00
55_I59_V0.5771.00
8_G31_F0.5761.00
175_A301_N0.5741.00
118_E121_R0.5721.00
224_L227_L0.5701.00
264_N267_I0.5701.00
90_D216_G0.5681.00
103_K108_E0.5671.00
297_D300_N0.5661.00
64_F249_D0.5661.00
163_I172_S0.5621.00
208_S211_H0.5621.00
168_P305_V0.5601.00
229_L244_S0.5581.00
229_L236_I0.5571.00
294_D299_D0.5561.00
187_I202_T0.5561.00
133_V186_V0.5561.00
112_K115_N0.5551.00
5_I24_L0.5541.00
124_I212_I0.5531.00
123_L154_V0.5531.00
16_K20_P0.5511.00
55_I76_I0.5511.00
140_I183_G0.5501.00
59_V71_T0.5491.00
67_K247_Y0.5491.00
137_G182_L0.5461.00
65_N247_Y0.5451.00
120_A210_D0.5441.00
163_I186_V0.5431.00
150_G154_V0.5421.00
229_L247_Y0.5411.00
270_Q287_F0.5411.00
162_R165_P0.5391.00
66_E71_T0.5391.00
195_I200_V0.5381.00
123_L213_F0.5381.00
56_V62_I0.5371.00
135_V139_T0.5361.00
278_N284_D0.5361.00
255_V268_S0.5321.00
10_F33_M0.5321.00
180_A186_V0.5321.00
229_L246_D0.5311.00
68_K71_T0.5291.00
138_S149_K0.5291.00
101_V107_F0.5281.00
175_A298_I0.5271.00
175_A179_L0.5261.00
50_Y53_P0.5251.00
104_L109_D0.5251.00
200_V204_K0.5241.00
163_I176_E0.5241.00
158_N186_V0.5231.00
62_I75_E0.5221.00
289_P292_L0.5181.00
231_L236_I0.5181.00
170_Q174_K0.5181.00
271_S275_A0.5171.00
107_F112_K0.5171.00
303_M306_F0.5161.00
89_Q103_K0.5151.00
100_H104_L0.5141.00
106_S111_I0.5141.00
228_K247_Y0.5141.00
231_L235_K0.5101.00
292_L295_I0.5101.00
101_V108_E0.5091.00
62_I223_F0.5091.00
158_N163_I0.5081.00
20_P80_K0.5041.00
101_V109_D0.5031.00
60_V63_K0.5001.00
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  
4g6hA 2 0.9971 100 0.318 Contact Map
4nwzA 2 0.9796 100 0.377 Contact Map
3h8lA 2 0.8776 100 0.383 Contact Map
3sx6A 2 1 100 0.403 Contact Map
3hywA 4 0.9942 100 0.405 Contact Map
1ojtA 2 0.9475 100 0.406 Contact Map
3cgbA 2 0.9679 100 0.408 Contact Map
1lvlA 2 0.9388 100 0.409 Contact Map
1xhcA 1 0.9155 100 0.41 Contact Map
2cduA 2 0.9708 100 0.41 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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