GREMLIN Database
YDBM - Putative acyl-CoA dehydrogenase YdbM
UniProt: P96608 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 381 (360)
Sequences: 33714 (19303)
Seq/√Len: 1017.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
149_K217_M4.1331.00
153_N215_E3.8421.00
289_E330_S3.4351.00
23_E44_K3.2181.00
145_K220_E2.9311.00
193_S214_N2.8801.00
113_K118_G2.8741.00
30_E34_Q2.8471.00
104_D108_F2.7981.00
181_G223_L2.7721.00
18_G75_R2.7661.00
65_S68_D2.7021.00
146_K217_M2.5501.00
282_R334_K2.4311.00
259_Q263_E2.3651.00
113_K119_A2.2841.00
251_Q294_R2.2631.00
155_R212_V2.2631.00
146_K149_K2.1561.00
302_Q306_D2.1071.00
172_A183_F2.0941.00
272_P275_N2.0451.00
104_D107_V2.0421.00
346_R351_Q1.9771.00
261_A338_I1.9371.00
103_W106_D1.9281.00
351_Q355_R1.9221.00
74_E294_R1.9141.00
19_R22_D1.9011.00
168_F187_K1.8671.00
56_P99_E1.8521.00
228_Q231_R1.8441.00
150_W183_F1.8011.00
254_R290_L1.7961.00
155_R210_D1.7901.00
10_Q68_D1.7881.00
326_N367_D1.7771.00
44_K47_D1.7721.00
43_Q47_D1.7491.00
78_R255_D1.7331.00
122_N168_F1.7131.00
251_Q255_D1.7081.00
150_W220_E1.7041.00
75_R78_R1.6771.00
162_S209_H1.6721.00
265_S272_P1.6651.00
151_A217_M1.6631.00
278_A281_Q1.6501.00
219_D222_K1.6191.00
303_L316_E1.5981.00
261_A279_V1.5971.00
144_V153_N1.5931.00
256_Y349_P1.5891.00
127_E156_K1.5851.00
151_A215_E1.5701.00
286_M331_V1.5701.00
109_A221_N1.5561.00
109_A113_K1.5541.00
186_H222_K1.5471.00
189_D216_V1.5431.00
148_G220_E1.5371.00
193_S212_V1.5341.00
57_A63_G1.5261.00
271_G275_N1.5171.00
299_H303_L1.5151.00
292_N323_I1.5141.00
12_Q15_E1.5041.00
153_N214_N1.5041.00
253_A332_V1.5001.00
126_T158_F1.4941.00
10_Q65_S1.4911.00
11_R14_M1.4881.00
113_K116_Q1.4821.00
15_E19_R1.4721.00
220_E223_L1.4671.00
195_E210_D1.4631.00
108_F112_A1.4591.00
268_S276_V1.4581.00
59_H107_V1.4531.00
163_Q209_H1.4491.00
342_K348_N1.4451.00
293_A324_V1.4411.00
80_D83_T1.4311.00
21_A79_G1.4291.00
195_E212_V1.4291.00
279_V338_I1.4241.00
145_K149_K1.4201.00
256_Y259_Q1.4181.00
258_V262_S1.4081.00
12_Q16_K1.3961.00
252_A256_Y1.3911.00
152_V183_F1.3791.00
78_R251_Q1.3771.00
330_S334_K1.3761.00
291_L299_H1.3751.00
10_Q71_L1.3751.00
186_H189_D1.3671.00
329_L361_L1.3661.00
105_E109_A1.3611.00
286_M334_K1.3541.00
322_H367_D1.3521.00
74_E298_F1.3431.00
333_D358_R1.3411.00
143_A183_F1.3401.00
67_Y302_Q1.3391.00
199_D346_R1.3341.00
14_M75_R1.3261.00
218_L222_K1.3181.00
74_E251_Q1.3071.00
17_I50_Y1.3031.00
39_A43_Q1.3031.00
145_K150_W1.2991.00
53_L72_F1.2981.00
148_G217_M1.2871.00
66_V305_D1.2831.00
33_E199_D1.2781.00
105_E221_N1.2691.00
106_D110_F1.2591.00
149_K220_E1.2581.00
250_A290_L1.2581.00
189_D222_K1.2551.00
257_A335_A1.2521.00
174_I181_G1.2511.00
285_E371_I1.2431.00
101_N235_P1.2331.00
187_K192_L1.2321.00
124_A159_T1.2291.00
112_A116_Q1.2261.00
31_D205_A1.2221.00
192_L216_V1.2141.00
107_V111_V1.2111.00
43_Q46_R1.2091.00
250_A331_V1.2091.00
11_R15_E1.2051.00
146_K151_A1.2051.00
238_W364_P1.1991.00
333_D361_L1.1961.00
230_P234_K1.1921.00
254_R258_V1.1911.00
191_G216_V1.1881.00
70_L301_A1.1851.00
129_K140_G1.1851.00
290_L331_V1.1841.00
299_H302_Q1.1831.00
77_A84_A1.1781.00
14_M71_L1.1731.00
114_E121_I1.1701.00
328_A357_V1.1701.00
252_A353_Y1.1651.00
64_I68_D1.1641.00
65_S305_D1.1641.00
244_A297_L1.1641.00
287_E291_L1.1621.00
282_R368_D1.1611.00
144_V151_A1.1551.00
271_G276_V1.1531.00
171_T182_V1.1471.00
236_N314_T1.1461.00
55_L115_V1.1451.00
44_K48_A1.1441.00
256_Y339_V1.1341.00
109_A222_K1.1341.00
119_A166_D1.1341.00
335_A350_L1.1321.00
16_K48_A1.1311.00
303_L308_V1.1311.00
358_R361_L1.1211.00
70_L244_A1.1171.00
110_F167_Y1.1161.00
329_L333_D1.1151.00
29_A33_E1.1131.00
102_S106_D1.1081.00
187_K194_I1.1051.00
27_T31_D1.0951.00
293_A327_A1.0951.00
43_Q118_G1.0911.00
289_E334_K1.0901.00
17_I21_A1.0791.00
318_G370_V1.0791.00
124_A168_F1.0781.00
150_W174_I1.0751.00
170_V185_I1.0711.00
152_V170_V1.0701.00
142_H153_N1.0671.00
288_L319_A1.0651.00
141_T152_V1.0651.00
247_L290_L1.0611.00
217_M220_E1.0531.00
46_R51_T1.0491.00
171_T180_T1.0461.00
361_L367_D1.0431.00
58_S108_F1.0391.00
94_I121_I1.0361.00
105_E108_F1.0351.00
192_L211_L1.0291.00
16_K50_Y1.0241.00
27_T30_E1.0231.00
289_E327_A1.0221.00
121_I167_Y1.0131.00
170_V213_L1.0131.00
144_V215_E1.0091.00
106_D184_L1.0071.00
329_L354_Y0.9901.00
175_E179_T0.9851.00
40_E43_Q0.9761.00
168_F192_L0.9761.00
322_H371_I0.9751.00
295_H299_H0.9751.00
20_I44_K0.9751.00
253_A353_Y0.9741.00
261_A273_I0.9701.00
262_S274_K0.9671.00
326_N330_S0.9651.00
332_V357_V0.9631.00
150_W223_L0.9631.00
94_I169_L0.9611.00
247_L297_L0.9561.00
258_V283_T0.9541.00
326_N361_L0.9531.00
124_A213_L0.9481.00
109_A186_H0.9471.00
327_A330_S0.9441.00
246_Y360_G0.9441.00
147_D217_M0.9411.00
82_P205_A0.9381.00
106_D222_K0.9381.00
152_V172_A0.9381.00
183_F223_L0.9361.00
143_A172_A0.9361.00
367_D371_I0.9291.00
17_I72_F0.9281.00
203_M359_A0.9231.00
285_E289_E0.9231.00
158_F342_K0.9211.00
325_T367_D0.9211.00
32_D355_R0.9201.00
168_F211_L0.9131.00
39_A166_D0.9051.00
55_L95_G0.9041.00
201_M354_Y0.9011.00
300_I320_A0.8991.00
144_V175_E0.8991.00
167_Y186_H0.8931.00
20_I48_A0.8901.00
56_P59_H0.8891.00
157_T210_D0.8881.00
58_S104_D0.8871.00
152_V218_L0.8861.00
359_A363_N0.8851.00
162_S194_I0.8851.00
287_E319_A0.8831.00
67_Y305_D0.8821.00
261_A274_K0.8801.00
103_W107_V0.8771.00
326_N371_I0.8741.00
132_S369_A0.8711.00
33_E346_R0.8711.00
255_D259_Q0.8691.00
336_M354_Y0.8571.00
202_A356_D0.8571.00
181_G227_L0.8521.00
158_F345_E0.8511.00
259_Q262_S0.8481.00
122_N165_L0.8471.00
360_G363_N0.8451.00
122_N187_K0.8441.00
329_L358_R0.8431.00
27_T40_E0.8411.00
201_M351_Q0.8411.00
190_P217_M0.8401.00
289_E323_I0.8401.00
21_A76_L0.8391.00
166_D188_D0.8351.00
249_V328_A0.8351.00
173_W180_T0.8331.00
257_A338_I0.8291.00
101_N232_G0.8251.00
167_Y184_L0.8241.00
281_Q372_H0.8231.00
280_Q372_H0.8191.00
16_K19_R0.8181.00
119_A167_Y0.8171.00
183_F218_L0.8161.00
327_A331_V0.8141.00
30_E33_E0.8141.00
281_Q285_E0.8141.00
336_M350_L0.8131.00
20_I45_L0.8131.00
173_W176_D0.8121.00
257_A339_V0.8101.00
282_R338_I0.8081.00
332_V353_Y0.8071.00
100_G235_P0.8071.00
261_A283_T0.8061.00
194_I211_L0.8011.00
67_Y298_F0.8001.00
249_V357_V0.7991.00
291_L294_R0.7971.00
45_L50_Y0.7971.00
249_V353_Y0.7961.00
67_Y71_L0.7931.00
213_L216_V0.7931.00
54_T69_M0.7931.00
250_A327_A0.7911.00
333_D354_Y0.7901.00
124_A170_V0.7891.00
59_H104_D0.7861.00
14_M18_G0.7801.00
291_L295_H0.7801.00
10_Q67_Y0.7791.00
332_V354_Y0.7761.00
242_I364_P0.7761.00
40_E44_K0.7721.00
149_K219_D0.7721.00
247_L293_A0.7721.00
143_A150_W0.7711.00
243_P320_A0.7671.00
41_K83_T0.7661.00
285_E334_K0.7661.00
257_A261_A0.7661.00
143_A174_I0.7651.00
169_L182_V0.7631.00
141_T144_V0.7621.00
71_L75_R0.7621.00
256_Y353_Y0.7601.00
139_P171_T0.7571.00
254_R287_E0.7551.00
288_L323_I0.7551.00
354_Y358_R0.7551.00
286_M335_A0.7531.00
149_K221_N0.7521.00
323_I327_A0.7501.00
141_T156_K0.7481.00
203_M363_N0.7451.00
58_S107_V0.7411.00
273_I276_V0.7391.00
166_D187_K0.7361.00
296_F320_A0.7351.00
110_F184_L0.7341.00
124_A211_L0.7311.00
253_A335_A0.7271.00
25_Q28_A0.7271.00
174_I179_T0.7271.00
223_L226_L0.7261.00
251_Q287_E0.7251.00
372_H376_A0.7241.00
181_G225_E0.7241.00
260_F342_K0.7241.00
330_S333_D0.7221.00
285_E330_S0.7211.00
296_F319_A0.7211.00
337_R358_R0.7211.00
277_P281_Q0.7191.00
78_R252_A0.7191.00
20_I23_E0.7181.00
29_A352_R0.7171.00
352_R356_D0.7151.00
71_L298_F0.7151.00
175_E227_L0.7151.00
152_V185_I0.7141.00
189_D192_L0.7141.00
110_F222_K0.7141.00
276_V280_Q0.7111.00
53_L64_I0.7111.00
163_Q207_G0.7081.00
127_E141_T0.7031.00
332_V350_L0.7031.00
292_N296_F0.7001.00
21_A24_F0.7001.00
204_R346_R0.6981.00
288_L322_H0.6971.00
139_P180_T0.6961.00
95_G114_E0.6951.00
188_D192_L0.6931.00
370_V373_K0.6911.00
58_S61_G0.6911.00
148_G221_N0.6881.00
58_S63_G0.6851.00
301_A305_D0.6821.00
243_P297_L0.6791.00
336_M343_S0.6781.00
14_M74_E0.6751.00
169_L224_V0.6741.00
56_P61_G0.6741.00
41_K44_K0.6731.00
123_R233_A0.6691.00
24_F41_K0.6681.00
228_Q232_G0.6681.00
125_A134_T0.6671.00
102_S107_V0.6661.00
173_W179_T0.6651.00
39_A120_V0.6641.00
297_L324_V0.6641.00
55_L59_H0.6631.00
114_E167_Y0.6631.00
328_A332_V0.6591.00
339_V350_L0.6571.00
139_P173_W0.6561.00
236_N317_L0.6561.00
246_Y325_T0.6541.00
294_R298_F0.6531.00
313_L316_E0.6531.00
243_P324_V0.6521.00
366_M369_A0.6521.00
159_T211_L0.6441.00
280_Q375_A0.6421.00
145_K151_A0.6401.00
155_R195_E0.6371.00
289_E292_N0.6361.00
85_L203_M0.6341.00
240_L301_A0.6311.00
269_L276_V0.6251.00
22_D26_Q0.6221.00
13_W72_F0.6211.00
139_P143_A0.6191.00
110_F119_A0.6191.00
244_A248_G0.6171.00
146_K220_E0.6161.00
252_A349_P0.6161.00
202_A344_L0.6151.00
282_R285_E0.6131.00
141_T213_L0.6131.00
9_Q12_Q0.6121.00
312_H316_E0.6121.00
279_V283_T0.6101.00
257_A286_M0.6061.00
29_A349_P0.6051.00
18_G78_R0.6051.00
250_A293_A0.6041.00
296_F323_I0.6031.00
162_S211_L0.6011.00
13_W68_D0.5981.00
319_A374_L0.5971.00
183_F220_E0.5961.00
95_G111_V0.5961.00
106_D109_A0.5941.00
250_A253_A0.5941.00
39_A164_A0.5921.00
299_H316_E0.5911.00
322_H374_L0.5911.00
199_D204_R0.5901.00
69_M241_H0.5901.00
282_R337_R0.5881.00
341_A344_L0.5871.00
28_A352_R0.5861.00
200_M208_S0.5861.00
192_L213_L0.5841.00
164_A207_G0.5821.00
252_A255_D0.5811.00
329_L357_V0.5801.00
170_V216_V0.5791.00
147_D151_A0.5781.00
293_A323_I0.5781.00
173_W177_K0.5761.00
296_F300_I0.5741.00
9_Q68_D0.5741.00
94_I97_L0.5721.00
185_I213_L0.5721.00
174_I183_F0.5721.00
24_F27_T0.5721.00
289_E326_N0.5701.00
23_E27_T0.5681.00
94_I114_E0.5681.00
304_Y313_L0.5661.00
36_R39_A0.5621.00
325_T360_G0.5611.00
293_A320_A0.5611.00
349_P352_R0.5591.00
268_S273_I0.5581.00
13_W17_I0.5571.00
160_T208_S0.5561.00
358_R362_H0.5551.00
99_E107_V0.5551.00
81_A249_V0.5551.00
45_L83_T0.5541.00
142_H176_D0.5541.00
59_H112_A0.5521.00
349_P353_Y0.5521.00
260_F348_N0.5511.00
226_L232_G0.5511.00
183_F222_K0.5511.00
264_Y341_A0.5511.00
35_G204_R0.5511.00
66_V304_Y0.5501.00
229_G232_G0.5501.00
264_Y269_L0.5491.00
98_G102_S0.5481.00
201_M355_R0.5471.00
291_L296_F0.5451.00
185_I216_V0.5451.00
251_Q290_L0.5441.00
125_A171_T0.5441.00
23_E26_Q0.5421.00
141_T145_K0.5411.00
285_E288_L0.5411.00
128_A155_R0.5401.00
35_G199_D0.5381.00
288_L292_N0.5361.00
18_G79_G0.5361.00
130_T140_G0.5351.00
279_V282_R0.5341.00
16_K62_G0.5331.00
32_D204_R0.5331.00
96_E100_G0.5331.00
97_L101_N0.5321.00
286_M338_I0.5321.00
369_A372_H0.5311.00
35_G346_R0.5291.00
71_L74_E0.5281.00
109_A112_A0.5271.00
227_L231_R0.5261.00
145_K183_F0.5261.00
141_T154_G0.5261.00
142_H175_E0.5261.00
145_K148_G0.5241.00
52_A115_V0.5241.00
322_H326_N0.5231.00
52_A62_G0.5221.00
293_A331_V0.5221.00
80_D205_A0.5191.00
285_E326_N0.5171.00
247_L251_Q0.5161.00
86_S161_M0.5161.00
197_T210_D0.5161.00
204_R356_D0.5141.00
70_L298_F0.5141.00
370_V374_L0.5141.00
260_F263_E0.5131.00
141_T170_V0.5131.00
24_F83_T0.5061.00
188_D194_I0.5061.00
110_F113_K0.5061.00
90_H114_E0.5061.00
184_L224_V0.5041.00
50_Y72_F0.5041.00
123_R171_T0.5031.00
69_M92_S0.5021.00
194_I209_H0.5021.00
240_L297_L0.5001.00
273_I279_V0.5001.00
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  
3pfdA 4 0.9528 100 0.097 Contact Map
4w9uA 4 0.9554 100 0.098 Contact Map
2d29A 4 0.9816 100 0.1 Contact Map
3ii9A 4 0.979 100 0.101 Contact Map
4l1fA 4 0.979 100 0.101 Contact Map
1bucA 4 0.9764 100 0.104 Contact Map
2ebaA 4 0.9659 100 0.104 Contact Map
2jifA 4 0.979 100 0.107 Contact Map
3nf4A 4 0.9711 100 0.108 Contact Map
1ivhA 4 0.9816 100 0.108 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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