GREMLIN Database
YVDP - Uncharacterized FAD-linked oxidoreductase YvdP
UniProt: O06997 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 447 (406)
Sequences: 18784 (14333)
Seq/√Len: 711.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
157_K193_Q3.8791.00
42_S157_K3.6661.00
53_R434_E3.6301.00
134_T194_Y3.3831.00
88_K101_Q3.2111.00
154_L197_K3.0321.00
56_K434_E3.0161.00
92_D95_N2.8921.00
87_N108_P2.7861.00
99_T193_Q2.7861.00
112_G115_R2.7711.00
99_T195_T2.7531.00
157_K167_H2.7191.00
37_V48_A2.6201.00
118_F198_V2.6151.00
158_T180_S2.5531.00
45_V192_T2.3701.00
101_Q193_Q2.3571.00
46_S165_I2.3411.00
155_A167_H2.3031.00
40_Q85_D2.2881.00
104_I109_L2.2761.00
160_D164_R2.2541.00
93_E116_D2.2371.00
49_I59_L2.2351.00
155_A195_T2.1631.00
161_A437_F2.0981.00
216_Q219_T2.0981.00
336_E339_F2.0701.00
51_W55_N2.0671.00
107_G111_K2.0441.00
96_A118_F1.9751.00
160_D166_I1.9341.00
114_A201_A1.9261.00
158_T189_G1.9111.00
392_L395_P1.9061.00
89_V104_I1.9011.00
105_P108_P1.8931.00
98_A109_L1.8681.00
43_Y46_S1.8571.00
267_K271_H1.8491.00
43_Y47_N1.8271.00
157_K165_I1.8221.00
38_F85_D1.8131.00
42_S165_I1.8081.00
42_S192_T1.8021.00
62_R65_R1.7871.00
40_Q44_D1.7851.00
391_Q395_P1.7821.00
90_F99_T1.7811.00
42_S46_S1.7631.00
233_E236_G1.7631.00
113_L198_V1.7551.00
86_M101_Q1.7381.00
45_V190_Y1.7361.00
169_D172_H1.7221.00
81_I190_Y1.7201.00
97_I195_T1.7181.00
156_L180_S1.7141.00
97_I154_L1.7031.00
46_S50_K1.6991.00
100_V130_I1.6991.00
179_A427_I1.6641.00
426_E430_K1.6621.00
83_V190_Y1.6491.00
49_I437_F1.6461.00
380_D384_A1.6441.00
135_M183_G1.6291.00
47_N50_K1.6281.00
343_N395_P1.6071.00
91_L112_G1.6031.00
41_N44_D1.6021.00
234_R237_C1.5961.00
98_A196_F1.5901.00
259_K263_I1.5901.00
233_E237_C1.5891.00
96_A200_R1.5741.00
225_Q228_A1.5601.00
108_P111_K1.5511.00
422_A425_R1.5451.00
429_A435_N1.5401.00
61_V190_Y1.5211.00
384_A388_R1.5201.00
112_G116_D1.5191.00
157_K192_T1.5191.00
229_P233_E1.5151.00
231_V234_R1.5041.00
287_D290_D1.4981.00
52_A79_I1.4841.00
391_Q415_E1.4771.00
134_T153_L1.4691.00
92_D97_I1.4661.00
135_M191_N1.4641.00
83_V86_M1.4541.00
223_A226_K1.4481.00
49_I53_R1.4451.00
408_N441_Q1.4431.00
234_R238_Y1.4361.00
50_K53_R1.4301.00
346_G350_R1.4181.00
180_S189_G1.4171.00
236_G239_L1.4131.00
37_V79_I1.4111.00
306_V309_S1.4021.00
224_W227_W1.3881.00
229_P232_D1.3811.00
422_A426_E1.3781.00
89_V112_G1.3761.00
413_G417_Y1.3701.00
159_V192_T1.3611.00
235_L238_Y1.3521.00
152_N199_H1.3511.00
45_V159_V1.3501.00
134_T196_F1.3441.00
327_K331_D1.3371.00
101_Q104_I1.3351.00
51_W57_V1.3331.00
133_I149_I1.3271.00
230_F234_R1.3251.00
161_A431_Y1.3181.00
100_V196_F1.3151.00
307_K311_A1.3151.00
425_R429_A1.3051.00
324_I327_K1.3031.00
155_A169_D1.2991.00
347_A350_R1.2901.00
423_R426_E1.2871.00
414_K419_A1.2851.00
49_I190_Y1.2791.00
153_L156_L1.2701.00
165_I192_T1.2681.00
387_E391_Q1.2671.00
413_G416_Y1.2651.00
311_A314_H1.2631.00
420_N423_R1.2521.00
306_V310_S1.2521.00
168_A173_N1.2491.00
253_G256_L1.2431.00
39_A44_D1.2421.00
49_I159_V1.2411.00
169_D173_N1.2261.00
383_L387_E1.2251.00
328_F331_D1.2241.00
222_K226_K1.2211.00
128_V133_I1.2201.00
219_T222_K1.2201.00
343_N346_G1.2171.00
290_D293_D1.2171.00
339_F343_N1.2151.00
249_C253_G1.2111.00
168_A177_L1.2051.00
50_K54_E1.1811.00
46_S159_V1.1791.00
45_V81_I1.1751.00
39_A48_A1.1731.00
381_S384_A1.1691.00
38_F82_D1.1661.00
235_L239_L1.1661.00
111_K115_R1.1601.00
303_D306_V1.1581.00
88_K104_I1.1581.00
52_A59_L1.1561.00
428_K435_N1.1551.00
44_D47_N1.1541.00
392_L396_Y1.1511.00
100_V109_L1.1511.00
263_I267_K1.1491.00
375_N378_Q1.1441.00
258_S261_E1.1401.00
270_L274_T1.1381.00
230_F236_G1.1331.00
308_F311_A1.1291.00
303_D307_K1.1241.00
261_E264_R1.1201.00
91_L98_A1.1201.00
98_A198_V1.1191.00
221_F225_Q1.1111.00
59_L81_I1.1111.00
87_N101_Q1.1111.00
231_V235_L1.1071.00
305_S309_S1.0981.00
22_I25_W1.0971.00
48_A81_I1.0951.00
343_N396_Y1.0881.00
159_V165_I1.0861.00
232_D236_G1.0831.00
153_L181_R1.0781.00
303_D310_S1.0741.00
351_V388_R1.0701.00
147_G151_D1.0681.00
230_F233_E1.0671.00
412_F416_Y1.0601.00
56_K436_V1.0601.00
222_K225_Q1.0591.00
268_P271_H1.0561.00
98_A113_L1.0541.00
53_R436_V1.0501.00
421_F425_R1.0491.00
169_D174_E1.0431.00
91_L118_F1.0421.00
326_R329_L1.0411.00
234_R239_L1.0401.00
285_Y288_A1.0381.00
350_R388_R1.0351.00
180_S191_N1.0331.00
48_A79_I1.0311.00
288_A291_F1.0311.00
329_L332_A1.0251.00
309_S312_W1.0241.00
411_N414_K1.0161.00
218_E222_K1.0161.00
303_D308_F1.0131.00
307_K310_S1.0091.00
274_T277_E1.0071.00
229_P234_R1.0041.00
21_A24_N1.0031.00
231_V236_G1.0021.00
224_W228_A0.9991.00
166_I173_N0.9971.00
63_S129_G0.9941.00
35_V79_I0.9901.00
160_D431_Y0.9881.00
249_C252_E0.9841.00
158_T166_I0.9811.00
426_E429_A0.9801.00
175_D178_W0.9751.00
134_T149_I0.9731.00
289_I293_D0.9601.00
343_N392_L0.9601.00
110_V122_F0.9591.00
230_F237_C0.9551.00
229_P237_C0.9541.00
271_H274_T0.9521.00
38_F84_S0.9521.00
108_P112_G0.9451.00
345_G349_S0.9441.00
388_R391_Q0.9431.00
42_S159_V0.9301.00
233_E350_R0.9301.00
71_N74_V0.9281.00
221_F228_A0.9261.00
248_L251_A0.9241.00
326_R330_E0.9201.00
118_F200_R0.9201.00
179_A188_F0.9201.00
62_R80_V0.9181.00
232_D238_Y0.9181.00
231_V237_C0.9171.00
107_G126_P0.9171.00
324_I331_D0.9161.00
136_G403_N0.9161.00
75_V78_G0.9111.00
283_L287_D0.9111.00
233_E239_L0.9091.00
264_R267_K0.9061.00
50_K164_R0.9031.00
376_K379_E0.9031.00
309_S313_G0.8991.00
83_V102_T0.8991.00
58_P78_G0.8991.00
131_G194_Y0.8991.00
232_D237_C0.8981.00
57_V79_I0.8971.00
183_G188_F0.8961.00
232_D235_L0.8951.00
107_G127_T0.8931.00
286_P289_I0.8921.00
42_S101_Q0.8881.00
310_S313_G0.8881.00
284_Y287_D0.8871.00
384_A387_E0.8861.00
178_W423_R0.8851.00
267_K270_L0.8851.00
304_Q308_F0.8811.00
229_P236_G0.8771.00
63_S83_V0.8751.00
412_F417_Y0.8731.00
248_L253_G0.8711.00
156_L177_L0.8691.00
241_I244_K0.8681.00
229_P238_Y0.8641.00
233_E238_Y0.8611.00
346_G349_S0.8601.00
377_S380_D0.8591.00
321_P324_I0.8551.00
59_L436_V0.8521.00
167_H195_T0.8481.00
391_Q394_Q0.8431.00
401_Y404_V0.8411.00
206_T263_I0.8391.00
156_L194_Y0.8391.00
106_V133_I0.8391.00
130_I196_F0.8391.00
401_Y406_D0.8391.00
45_V86_M0.8361.00
174_E187_N0.8351.00
352_P355_E0.8321.00
220_V224_W0.8301.00
221_F224_W0.8291.00
250_H253_G0.8251.00
327_K330_E0.8221.00
323_S327_K0.8211.00
232_D239_L0.8191.00
84_S129_G0.8191.00
324_I328_F0.8181.00
130_I194_Y0.8161.00
305_S310_S0.8151.00
167_H193_Q0.8151.00
288_A293_D0.8131.00
47_N51_W0.8121.00
191_N194_Y0.8091.00
378_Q381_S0.8091.00
92_D99_T0.8071.00
26_N29_V0.8061.00
34_L77_G0.8061.00
305_S308_F0.8051.00
170_Q174_E0.8051.00
168_A180_S0.8041.00
393_M398_A0.8031.00
310_S314_H0.8031.00
153_L194_Y0.8011.00
23_K27_P0.8011.00
262_L266_L0.8001.00
62_R82_D0.7981.00
304_Q307_K0.7941.00
325_M329_L0.7921.00
308_F312_W0.7881.00
45_V83_V0.7881.00
395_P398_A0.7871.00
152_N197_K0.7821.00
419_A422_A0.7811.00
288_A292_L0.7811.00
39_A83_V0.7801.00
289_I292_L0.7791.00
285_Y292_L0.7771.00
64_G129_G0.7761.00
231_V239_L0.7741.00
21_A25_W0.7731.00
229_P239_L0.7671.00
36_F80_V0.7671.00
104_I108_P0.7661.00
291_F294_P0.7651.00
121_P152_N0.7621.00
285_Y291_F0.7611.00
102_T194_Y0.7601.00
42_S86_M0.7601.00
326_R331_D0.7571.00
265_L268_P0.7571.00
154_L195_T0.7561.00
413_G421_F0.7561.00
67_A72_L0.7551.00
134_T191_N0.7551.00
286_P290_D0.7521.00
97_I197_K0.7511.00
417_Y420_N0.7501.00
282_T288_A0.7501.00
106_V122_F0.7491.00
117_G201_A0.7471.00
34_L78_G0.7441.00
422_A429_A0.7441.00
394_Q415_E0.7441.00
98_A112_G0.7411.00
119_M201_A0.7411.00
156_L191_N0.7401.00
162_K166_I0.7391.00
343_N347_A0.7381.00
218_E221_F0.7381.00
271_H275_P0.7361.00
39_A85_D0.7361.00
250_H255_F0.7361.00
217_L221_F0.7291.00
312_W315_D0.7291.00
229_P235_L0.7261.00
244_K247_G0.7261.00
53_R162_K0.7261.00
63_S102_T0.7251.00
347_A392_L0.7241.00
131_G135_M0.7241.00
303_D309_S0.7231.00
58_P438_R0.7231.00
175_D430_K0.7191.00
342_I346_G0.7171.00
42_S45_V0.7161.00
61_V83_V0.7151.00
109_L130_I0.7151.00
269_L273_G0.7111.00
351_V384_A0.7101.00
359_F362_H0.7081.00
231_V238_Y0.7071.00
322_I325_M0.7061.00
249_C255_F0.7061.00
148_L151_D0.7051.00
307_K314_H0.7041.00
217_L228_A0.7041.00
324_I329_L0.7041.00
304_Q309_S0.7031.00
261_E265_L0.7011.00
84_S105_P0.7001.00
161_A436_V0.6991.00
347_A351_V0.6981.00
339_F342_I0.6971.00
386_V389_V0.6971.00
171_S174_E0.6961.00
248_L254_I0.6941.00
170_Q173_N0.6941.00
308_F314_H0.6931.00
323_S326_R0.6931.00
376_K380_D0.6931.00
342_I345_G0.6921.00
260_T264_R0.6921.00
87_N104_I0.6911.00
249_C254_I0.6901.00
268_P272_A0.6901.00
340_F343_N0.6891.00
111_K114_A0.6871.00
248_L252_E0.6851.00
394_Q398_A0.6841.00
43_Y165_I0.6821.00
311_A316_F0.6801.00
305_S312_W0.6781.00
175_D427_I0.6771.00
86_M192_T0.6771.00
155_A193_Q0.6751.00
106_V109_L0.6721.00
380_D383_L0.6721.00
217_L220_V0.6711.00
303_D311_A0.6701.00
283_L286_P0.6701.00
219_T223_A0.6691.00
240_E244_K0.6691.00
428_K438_R0.6691.00
338_N342_I0.6661.00
121_P199_H0.6661.00
23_K30_D0.6641.00
215_E342_I0.6631.00
125_S128_V0.6611.00
290_D294_P0.6601.00
92_D96_A0.6561.00
305_S313_G0.6561.00
91_L116_D0.6551.00
403_N407_Q0.6541.00
393_M397_V0.6531.00
49_I161_A0.6521.00
313_G316_F0.6511.00
264_R268_P0.6501.00
217_L227_W0.6501.00
137_G148_L0.6481.00
266_L270_L0.6471.00
113_L116_D0.6461.00
282_T285_Y0.6451.00
285_Y289_I0.6431.00
216_Q220_V0.6421.00
223_A228_A0.6421.00
286_P293_D0.6421.00
306_V312_W0.6401.00
309_S315_D0.6401.00
412_F415_E0.6391.00
220_V223_A0.6371.00
251_A255_F0.6371.00
106_V128_V0.6351.00
325_M328_F0.6341.00
427_I431_Y0.6321.00
340_F344_W0.6321.00
209_N212_W0.6321.00
309_S314_H0.6311.00
230_F238_Y0.6311.00
249_C256_L0.6301.00
177_L181_R0.6291.00
253_G257_G0.6291.00
218_E228_A0.6281.00
304_Q310_S0.6281.00
208_F253_G0.6281.00
272_A275_P0.6271.00
33_P80_V0.6261.00
306_V311_A0.6261.00
44_D48_A0.6211.00
173_N431_Y0.6211.00
105_P129_G0.6201.00
402_V405_P0.6171.00
305_S311_A0.6171.00
31_V76_S0.6121.00
387_E411_N0.6121.00
213_P216_Q0.6121.00
39_A45_V0.6091.00
96_A197_K0.6081.00
287_D291_F0.6071.00
158_T168_A0.6071.00
305_S315_D0.6061.00
89_V100_V0.6051.00
435_N438_R0.6041.00
286_P292_L0.6021.00
386_V390_R0.6021.00
251_A254_I0.6001.00
323_S329_L0.6001.00
51_W79_I0.5991.00
221_F227_W0.5981.00
252_E256_L0.5981.00
156_L168_A0.5971.00
169_D177_L0.5961.00
272_A276_T0.5951.00
406_D413_G0.5951.00
64_G105_P0.5941.00
220_V225_Q0.5891.00
390_R394_Q0.5881.00
388_R392_L0.5881.00
373_W379_E0.5871.00
399_G402_V0.5871.00
21_A38_F0.5871.00
220_V227_W0.5871.00
240_E243_S0.5861.00
306_V315_D0.5851.00
334_G337_A0.5851.00
270_L273_G0.5851.00
339_F396_Y0.5841.00
236_G240_E0.5811.00
46_S49_I0.5801.00
93_E118_F0.5791.00
283_L288_A0.5791.00
284_Y291_F0.5791.00
167_H172_H0.5791.00
286_P291_F0.5761.00
363_P366_Y0.5751.00
230_F239_L0.5741.00
24_N27_P0.5711.00
254_I257_G0.5711.00
307_K312_W0.5691.00
306_V314_H0.5691.00
375_N381_S0.5671.00
226_K276_T0.5641.00
110_V119_M0.5641.00
284_Y288_A0.5631.00
285_Y293_D0.5631.00
166_I423_R0.5621.00
106_V130_I0.5601.00
188_F427_I0.5601.00
385_S389_V0.5591.00
208_F211_I0.5591.00
230_F235_L0.5591.00
109_L120_A0.5561.00
399_G404_V0.5561.00
223_A227_W0.5561.00
308_F313_G0.5561.00
314_H317_W0.5541.00
183_G186_G0.5541.00
46_S160_D0.5531.00
107_G125_S0.5531.00
310_S315_D0.5521.00
22_I30_D0.5511.00
204_T259_K0.5511.00
321_P326_R0.5501.00
287_D292_L0.5501.00
91_L198_V0.5501.00
93_E96_A0.5491.00
215_E218_E0.5491.00
218_E323_S0.5461.00
240_E247_G0.5441.00
42_S193_Q0.5431.00
354_D357_A0.5411.00
283_L291_F0.5401.00
414_K417_Y0.5391.00
321_P328_F0.5371.00
90_F97_I0.5371.00
123_G133_I0.5361.00
58_P439_F0.5351.00
156_L181_R0.5341.00
337_A342_I0.5341.00
60_R78_G0.5341.00
90_F93_E0.5341.00
379_E383_L0.5331.00
178_W181_R0.5331.00
347_A388_R0.5331.00
250_H254_I0.5331.00
95_N335_T0.5301.00
325_M331_D0.5301.00
421_F424_L0.5281.00
403_N406_D0.5281.00
258_S264_R0.5281.00
143_S148_L0.5271.00
157_K195_T0.5271.00
89_V101_Q0.5261.00
387_E390_R0.5261.00
393_M396_Y0.5261.00
215_E219_T0.5231.00
110_V201_A0.5231.00
281_K284_Y0.5231.00
318_S321_P0.5211.00
377_S381_S0.5191.00
206_T262_L0.5181.00
257_G261_E0.5181.00
260_T263_I0.5171.00
428_K432_D0.5171.00
282_T287_D0.5161.00
319_D328_F0.5161.00
287_D293_D0.5151.00
288_A294_P0.5121.00
217_L225_Q0.5111.00
265_L273_G0.5100.99
222_K319_D0.5090.99
22_I36_F0.5090.99
400_S404_V0.5090.99
217_L224_W0.5090.99
283_L289_I0.5070.99
59_L79_I0.5040.99
120_A198_V0.5040.99
255_F258_S0.5030.99
170_Q181_R0.5010.99
39_A86_M0.5010.99
104_I130_I0.5000.99
140_G143_S0.5000.99
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  
4xloA 2 0.9776 100 0.269 Contact Map
2bvfA 1 0.9642 100 0.308 Contact Map
3vteA 1 0.9799 100 0.309 Contact Map
4ud8A 1 0.9911 100 0.312 Contact Map
3rjaA 1 0.9911 100 0.314 Contact Map
4pvkA 1 0.9866 100 0.323 Contact Map
3popA 2 0.9776 100 0.324 Contact Map
2ipiA 1 0.9754 100 0.324 Contact Map
1zr6A 1 0.9866 100 0.327 Contact Map
2y3sA 2 0.9821 100 0.328 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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