GREMLIN Database
DHNA - NADH dehydrogenase
UniProt: P00393 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10649
Length: 434 (340)
Sequences: 16530 (11700)
Seq/√Len: 634.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
41_R83_S4.3501.00
174_A267_A4.1661.00
7_K35_K3.7871.00
299_E303_Q3.7871.00
92_K309_D3.5941.00
93_T112_K3.3931.00
172_N210_N3.3271.00
212_T244_L3.2421.00
210_N242_R3.0161.00
233_H237_T2.7371.00
216_A248_M2.5991.00
95_T112_K2.5971.00
89_R307_D2.5901.00
251_S258_H2.5721.00
20_M119_V2.5441.00
88_D91_A2.5101.00
132_P251_S2.4971.00
289_E297_V2.4541.00
39_V113_I2.4241.00
244_L263_E2.4131.00
7_K37_T2.3971.00
127_N277_K2.3881.00
253_D258_H2.2881.00
93_T114_A2.2301.00
117_T309_D2.1951.00
212_T242_R2.1751.00
16_G313_I2.1691.00
9_V94_I2.1481.00
35_K78_Q2.1381.00
37_T80_Q2.0801.00
6_K37_T2.0791.00
172_N212_T2.0681.00
9_V113_I2.0651.00
174_A214_V2.0521.00
89_R310_I2.0321.00
10_I21_A2.0221.00
218_E246_Q2.0191.00
258_H264_Y2.0071.00
86_D95_T1.9801.00
125_T277_K1.9771.00
5_L116_D1.9741.00
95_T110_E1.9521.00
97_A110_E1.8901.00
7_K116_D1.8861.00
115_Y118_L1.8691.00
248_M260_K1.8651.00
88_D93_T1.8601.00
247_T261_D1.8561.00
83_S97_A1.8471.00
8_I24_L1.8221.00
341_A345_I1.8111.00
119_V345_I1.8041.00
219_R229_S1.7991.00
291_N295_Q1.7761.00
117_T311_Y1.7341.00
85_I97_A1.7291.00
174_A257_L1.7251.00
122_L316_C1.7231.00
5_L114_A1.6891.00
6_K117_T1.6871.00
125_T279_P1.6871.00
250_T260_K1.6621.00
9_V39_V1.6621.00
85_I95_T1.6411.00
172_N268_D1.6321.00
8_I34_A1.6281.00
244_L247_T1.6161.00
291_N318_S1.6151.00
226_P373_T1.6061.00
11_V84_V1.5911.00
289_E306_R1.5871.00
247_T263_E1.5561.00
6_K78_Q1.5511.00
11_V120_M1.5511.00
296_L312_A1.5191.00
233_H245_T1.5141.00
80_Q111_R1.5091.00
226_P230_A1.5061.00
340_C344_N1.4841.00
11_V122_L1.4761.00
214_V265_I1.4681.00
139_I153_E1.4671.00
9_V37_T1.4531.00
311_Y344_N1.4311.00
370_N375_G1.4241.00
235_E238_K1.4211.00
178_G220_I1.4131.00
190_H241_V1.4131.00
267_A270_M1.4061.00
183_V213_L1.3921.00
303_Q308_P1.3911.00
234_N237_T1.3881.00
250_T258_H1.3751.00
347_A352_K1.3701.00
313_I341_A1.3601.00
143_N146_Q1.3581.00
253_D264_Y1.3511.00
307_D310_I1.3511.00
172_N266_E1.3441.00
39_V96_I1.3281.00
125_T280_D1.3271.00
169_G209_L1.3211.00
96_I113_I1.3101.00
37_T113_I1.2951.00
252_A270_M1.2891.00
23_Q343_N1.2871.00
82_G96_I1.2811.00
375_G382_T1.2751.00
338_A342_M1.2741.00
215_E245_T1.2611.00
178_G215_E1.2571.00
219_R226_P1.2511.00
370_N378_M1.2491.00
234_N238_K1.2451.00
7_K114_A1.2441.00
96_I111_R1.2351.00
291_N297_V1.2121.00
118_L310_I1.2101.00
171_V268_D1.2071.00
9_V115_Y1.1981.00
8_I119_V1.1971.00
142_D146_Q1.1901.00
125_T281_F1.1731.00
69_L73_R1.1701.00
259_T265_I1.1691.00
256_G264_Y1.1651.00
173_I189_L1.1631.00
91_A112_K1.1471.00
88_D92_K1.1461.00
244_L265_I1.1431.00
373_T377_L1.1391.00
5_L35_K1.1361.00
138_C252_A1.1361.00
302_L317_A1.1351.00
146_Q149_R1.1331.00
119_V313_I1.1321.00
191_N239_L1.1191.00
120_M316_C1.1171.00
235_E239_L1.1111.00
80_Q113_I1.1101.00
253_D256_G1.1011.00
298_V312_A1.1001.00
372_S376_S1.0961.00
115_Y309_D1.0821.00
86_D285_I1.0801.00
301_T344_N1.0781.00
16_G334_A1.0781.00
233_H243_V1.0701.00
298_V317_A1.0701.00
82_G109_P1.0691.00
220_I245_T1.0651.00
117_T345_I1.0651.00
190_H210_N1.0631.00
82_G97_A1.0591.00
137_N254_E1.0471.00
280_D284_D1.0381.00
327_V333_A1.0331.00
176_V270_M1.0331.00
386_M389_E1.0311.00
173_I269_L1.0301.00
10_I17_G1.0251.00
88_D95_T1.0241.00
39_V84_V1.0201.00
64_D67_S1.0181.00
96_I109_P1.0141.00
37_T78_Q1.0111.00
230_A233_H1.0081.00
303_Q309_D1.0031.00
40_D79_F0.9981.00
25_G77_F0.9981.00
312_A316_C0.9951.00
23_Q342_M0.9891.00
13_G40_D0.9871.00
121_A313_I0.9861.00
372_S382_T0.9791.00
342_M346_L0.9751.00
24_L342_M0.9741.00
212_T265_I0.9731.00
68_Y71_H0.9711.00
150_F269_L0.9711.00
214_V244_L0.9701.00
68_Y72_A0.9631.00
61_E65_A0.9571.00
142_D150_F0.9541.00
39_V80_Q0.9541.00
215_E222_P0.9491.00
219_R233_H0.9461.00
65_A68_Y0.9461.00
231_A234_N0.9451.00
6_K35_K0.9451.00
186_S211_V0.9391.00
302_L341_A0.9381.00
231_A235_E0.9371.00
145_H148_R0.9361.00
173_I209_L0.9331.00
67_S70_A0.9331.00
304_T312_A0.9241.00
247_T260_K0.9211.00
20_M338_A0.9101.00
20_M342_M0.9101.00
43_H81_L0.9101.00
13_G38_L0.9091.00
214_V247_T0.9081.00
10_I20_M0.9081.00
247_T259_T0.9001.00
20_M341_A0.8951.00
312_A317_A0.8911.00
20_M313_I0.8881.00
281_F285_I0.8881.00
19_E338_A0.8861.00
17_G121_A0.8821.00
341_A344_N0.8801.00
16_G121_A0.8761.00
38_L72_A0.8691.00
190_H239_L0.8651.00
255_G266_E0.8641.00
21_A77_F0.8611.00
311_Y348_Q0.8551.00
171_V210_N0.8541.00
387_M391_R0.8501.00
280_D283_K0.8491.00
259_T263_E0.8491.00
131_T134_V0.8481.00
389_E392_I0.8441.00
122_L281_F0.8421.00
97_A109_P0.8411.00
217_G222_P0.8361.00
213_L243_V0.8351.00
117_T348_Q0.8291.00
67_S72_A0.8251.00
297_V306_R0.8241.00
70_A74_N0.8211.00
392_I395_F0.8211.00
90_E307_D0.8141.00
86_D118_L0.8121.00
17_G21_A0.8121.00
303_Q307_D0.8111.00
303_Q344_N0.8101.00
89_R92_K0.8051.00
87_I112_K0.8021.00
45_H79_F0.8001.00
374_V377_L0.7991.00
119_V341_A0.7971.00
31_K34_A0.7941.00
242_R263_E0.7941.00
117_T349_M0.7931.00
218_E226_P0.7931.00
301_T349_M0.7921.00
290_T297_V0.7891.00
96_I110_E0.7871.00
170_K209_L0.7851.00
133_G251_S0.7851.00
67_S71_H0.7841.00
128_D134_V0.7811.00
388_I392_I0.7761.00
87_I95_T0.7691.00
176_V272_W0.7691.00
300_P356_N0.7691.00
300_P351_G0.7681.00
24_L34_A0.7661.00
176_V249_V0.7651.00
230_A234_N0.7651.00
392_I396_V0.7641.00
22_T75_H0.7641.00
186_S213_L0.7631.00
175_I182_G0.7621.00
151_H155_L0.7601.00
152_Q155_L0.7591.00
89_R287_G0.7511.00
42_N145_H0.7511.00
376_S382_T0.7481.00
72_A77_F0.7481.00
371_F374_V0.7471.00
393_A396_V0.7461.00
374_V378_M0.7441.00
225_P376_S0.7391.00
304_T307_D0.7361.00
390_G393_A0.7361.00
7_K113_I0.7361.00
172_N267_A0.7341.00
386_M390_G0.7341.00
132_P135_K0.7311.00
219_R373_T0.7301.00
302_L340_C0.7281.00
86_D284_D0.7231.00
6_K80_Q0.7191.00
379_G382_T0.7191.00
43_H82_G0.7151.00
44_S65_A0.7141.00
61_E64_D0.7141.00
343_N348_Q0.7141.00
220_I229_S0.7121.00
303_Q348_Q0.7111.00
174_A265_I0.7111.00
386_M392_I0.7101.00
140_F146_Q0.7081.00
391_R394_R0.7081.00
288_L296_L0.7051.00
85_I110_E0.7031.00
148_R151_H0.7021.00
182_G215_E0.6991.00
89_R309_D0.6981.00
61_E68_Y0.6971.00
141_L147_A0.6971.00
50_L53_E0.6941.00
290_T296_L0.6931.00
34_A116_D0.6921.00
172_N209_L0.6921.00
186_S241_V0.6901.00
384_G388_I0.6891.00
24_L36_I0.6871.00
25_G76_G0.6871.00
214_V259_T0.6831.00
387_M393_A0.6821.00
219_R230_A0.6811.00
359_Y363_G0.6811.00
303_Q311_Y0.6781.00
226_P229_S0.6781.00
221_L232_A0.6771.00
127_N130_N0.6771.00
237_T242_R0.6761.00
170_K268_D0.6741.00
387_M390_G0.6721.00
313_I338_A0.6701.00
149_R153_E0.6701.00
376_S381_L0.6681.00
64_D71_H0.6671.00
7_K34_A0.6651.00
23_Q339_T0.6641.00
391_R396_V0.6611.00
134_V272_W0.6591.00
89_R285_I0.6591.00
144_P148_R0.6591.00
60_D63_V0.6581.00
176_V274_A0.6571.00
146_Q150_F0.6571.00
89_R115_Y0.6561.00
18_L38_L0.6531.00
296_L316_C0.6521.00
389_E393_A0.6511.00
65_A69_L0.6501.00
128_D135_K0.6501.00
24_L345_I0.6481.00
295_Q329_P0.6461.00
127_N274_A0.6451.00
386_M393_A0.6451.00
64_D68_Y0.6441.00
232_A365_L0.6441.00
144_P147_A0.6441.00
185_L271_V0.6421.00
142_D147_A0.6411.00
259_T262_G0.6401.00
218_E245_T0.6391.00
334_A338_A0.6391.00
124_S276_I0.6381.00
42_N52_H0.6381.00
11_V94_I0.6361.00
183_V361_D0.6361.00
224_L367_S0.6351.00
236_L241_V0.6341.00
61_E67_S0.6331.00
175_I186_S0.6321.00
36_I77_F0.6311.00
46_L51_L0.6311.00
39_V94_I0.6291.00
20_M24_L0.6241.00
183_V236_L0.6221.00
15_A335_H0.6201.00
66_L70_A0.6171.00
151_H192_A0.6151.00
288_L307_D0.6151.00
348_Q354_L0.6151.00
389_E395_F0.6141.00
290_T294_N0.6121.00
357_Y367_S0.6121.00
385_S389_E0.6111.00
35_K116_D0.6111.00
8_I36_I0.6111.00
126_S129_F0.6101.00
388_I393_A0.6091.00
148_R152_Q0.6091.00
339_T343_N0.6071.00
128_D272_W0.6071.00
84_V94_I0.6011.00
25_G36_I0.6011.00
141_L150_F0.6001.00
174_A212_T0.5991.00
282_L285_I0.5981.00
370_N374_V0.5971.00
62_G66_L0.5961.00
387_M394_R0.5961.00
185_L188_E0.5951.00
150_F271_V0.5951.00
343_N347_A0.5951.00
71_H75_H0.5931.00
143_N147_A0.5921.00
388_I391_R0.5911.00
168_N208_A0.5901.00
249_V257_L0.5891.00
292_R297_V0.5881.00
86_D94_I0.5881.00
19_E335_H0.5881.00
216_A222_P0.5881.00
78_Q111_R0.5871.00
296_L304_T0.5861.00
229_S233_H0.5851.00
130_N134_V0.5841.00
311_Y354_L0.5821.00
220_I233_H0.5811.00
383_R387_M0.5811.00
62_G65_A0.5801.00
34_A345_I0.5781.00
8_I345_I0.5781.00
175_I271_V0.5781.00
154_M173_I0.5781.00
66_L71_H0.5771.00
134_V252_A0.5761.00
288_L304_T0.5761.00
385_S388_I0.5741.00
129_F272_W0.5731.00
155_L192_A0.5731.00
34_A117_T0.5711.00
82_G85_I0.5701.00
13_G17_G0.5701.00
391_R395_F0.5671.00
278_A295_Q0.5661.00
34_A346_L0.5661.00
66_L69_L0.5661.00
385_S390_G0.5651.00
137_N140_F0.5651.00
54_V148_R0.5641.00
56_T188_E0.5631.00
147_A189_L0.5631.00
295_Q318_S0.5611.00
6_K9_V0.5601.00
63_V67_S0.5591.00
13_G68_Y0.5591.00
236_L243_V0.5571.00
302_L344_N0.5531.00
183_V221_L0.5521.00
124_S329_P0.5521.00
147_A150_F0.5511.00
61_E148_R0.5471.00
179_G182_G0.5461.00
224_L357_Y0.5461.00
347_A350_N0.5451.00
298_V302_L0.5441.00
92_K307_D0.5441.00
92_K114_A0.5441.00
390_G394_R0.5421.00
135_K138_C0.5421.00
317_A337_M0.5411.00
142_D269_L0.5400.99
287_G290_T0.5390.99
138_C270_M0.5390.99
13_G45_H0.5390.99
344_N347_A0.5380.99
90_E287_G0.5380.99
228_I231_A0.5380.99
168_N171_V0.5370.99
346_L350_N0.5360.99
387_M392_I0.5360.99
224_L365_L0.5360.99
297_V318_S0.5350.99
19_E22_T0.5350.99
145_H149_R0.5340.99
69_L81_L0.5340.99
215_E218_E0.5310.99
348_Q351_G0.5280.99
289_E304_T0.5280.99
9_V118_L0.5260.99
311_Y345_I0.5260.99
153_E269_L0.5250.99
86_D120_M0.5250.99
388_I394_R0.5220.99
347_A351_G0.5220.99
169_G268_D0.5210.99
383_R388_I0.5200.99
55_A185_L0.5200.99
142_D145_H0.5200.99
180_A359_Y0.5190.99
19_E339_T0.5190.99
21_A38_L0.5170.99
386_M391_R0.5170.99
182_G273_A0.5170.99
384_G387_M0.5160.99
354_L359_Y0.5160.99
140_F269_L0.5150.99
84_V87_I0.5150.99
21_A36_I0.5140.99
281_F284_D0.5140.99
219_R222_P0.5120.99
187_A239_L0.5120.99
187_A191_N0.5110.99
220_I243_V0.5100.99
6_K34_A0.5090.99
385_S393_A0.5080.99
57_G185_L0.5080.99
118_L309_D0.5080.99
153_E170_K0.5070.99
359_Y362_H0.5070.99
250_T262_G0.5050.99
17_G38_L0.5050.99
15_A331_A0.5030.99
8_I117_T0.5030.99
141_L144_P0.5030.99
361_D364_S0.5020.99
285_I290_T0.5020.99
344_N348_Q0.5000.99
136_E254_E0.5000.99
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 0.9562 100 0.279 Contact Map
4nwzA 2 0.9009 100 0.366 Contact Map
3sx6A 2 0.8986 100 0.409 Contact Map
3h8lA 2 0.7488 100 0.411 Contact Map
3hywA 4 0.9101 100 0.42 Contact Map
3kljA 1 0.8433 100 0.442 Contact Map
3icsA 2 0.9124 100 0.443 Contact Map
1xhcA 1 0.7857 100 0.444 Contact Map
3l8kA 3 0.8571 100 0.447 Contact Map
4fx9A 2 0.894 100 0.447 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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