GREMLIN Database
YVCD - TPR repeat-containing protein YvcD
UniProt: O06968 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 484 (381)
Sequences: 1136 (968)
Seq/√Len: 49.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
97_A113_A5.4521.00
105_L108_E4.8001.00
168_Q171_E4.5181.00
62_A78_L3.9121.00
228_L244_S3.5931.00
160_A176_L3.5561.00
270_R273_I3.4371.00
28_G44_I3.4301.00
305_H308_F3.3591.00
70_Q73_E3.0871.00
296_L312_I3.0611.00
96_K112_E2.9991.00
61_L77_L2.8431.00
75_N96_K2.7711.00
308_F311_T2.7691.00
202_N205_K2.7441.00
236_E239_K2.7251.00
41_S61_L2.6731.00
48_V58_L2.6521.00
28_G43_L2.5721.00
262_G278_L2.4011.00
120_D123_G2.2281.00
394_A398_Y2.0931.00
61_L65_Y2.0561.00
66_S78_L2.0191.00
194_A209_T2.0111.00
65_Y77_L1.9951.00
194_A210_A1.9820.99
93_H112_E1.9730.99
427_Q430_A1.9480.99
300_A308_F1.9360.99
344_L348_Y1.9190.99
89_M95_F1.9040.99
191_N226_N1.9020.99
159_R163_L1.8580.99
355_E358_H1.8300.99
197_Y205_K1.8220.99
193_L209_T1.8160.99
365_S369_T1.7730.99
51_E54_D1.7670.99
36_N39_R1.7510.99
60_Q95_F1.7460.99
190_Y212_E1.7390.99
100_F105_L1.7370.99
24_F46_R1.7230.99
59_S95_F1.6570.98
379_L382_N1.6540.98
404_L408_E1.6540.98
228_L247_L1.6200.98
279_K296_L1.5980.98
207_K227_L1.5970.98
227_L231_Y1.5960.98
28_G47_A1.5920.98
176_L192_N1.5880.98
27_K31_A1.5830.97
389_D392_E1.5790.97
260_K263_A1.5750.97
246_Q250_V1.5600.97
379_L383_G1.5520.97
205_K208_Q1.5510.97
377_V381_L1.5450.97
173_V193_L1.5210.97
297_S313_W1.5080.97
358_H361_A1.5040.97
370_A374_T1.4980.96
357_E361_A1.4760.96
364_R367_R1.4590.96
349_I352_T1.4530.96
25_F29_L1.4510.96
108_E111_K1.4470.96
345_A348_Y1.4380.96
387_A391_S1.4340.95
44_I60_Q1.4200.95
273_I276_K1.4170.95
275_Y296_L1.4150.95
254_L257_Q1.4140.95
421_V424_V1.4000.95
297_S316_V1.3920.95
381_L394_A1.3910.95
81_I92_C1.3790.94
402_K408_E1.3770.94
65_Y73_E1.3730.94
45_Q57_M1.3710.94
385_S388_A1.3650.94
371_P374_T1.3600.94
156_K178_E1.3510.94
343_R348_Y1.3480.94
366_K370_A1.3470.94
39_R42_K1.3410.93
411_E415_E1.3410.93
386_A389_D1.3270.93
225_C228_L1.3140.93
389_D393_D1.3110.93
420_W424_V1.3080.93
346_A352_T1.3070.93
401_V405_E1.2910.92
384_D388_A1.2900.92
361_A368_I1.2870.92
403_L407_A1.2860.92
366_K374_T1.2850.92
363_I373_E1.2830.92
271_Y299_S1.2800.92
343_R347_Y1.2710.91
366_K369_T1.2700.91
354_G365_S1.2660.91
390_V393_D1.2620.91
261_L277_W1.2540.91
79_D96_K1.2540.91
110_Y159_R1.2500.91
41_S45_Q1.2470.91
367_R370_A1.2440.91
402_K413_K1.2380.90
66_S95_F1.2320.90
387_A390_V1.2310.90
97_A116_Y1.2270.90
354_G358_H1.2260.90
24_F27_K1.2210.90
27_K43_L1.2180.90
406_Q409_K1.2140.89
265_L273_I1.2070.89
275_Y299_S1.2060.89
41_S64_I1.2050.89
383_G386_A1.2020.89
225_C260_K1.2020.89
258_R277_W1.1930.89
229_V240_V1.1930.89
214_L217_N1.1890.88
428_I431_A1.1870.88
159_R162_S1.1870.88
29_L44_I1.1860.88
223_A227_L1.1840.88
410_E414_T1.1830.88
349_I353_K1.1820.88
300_A305_H1.1770.88
348_Y351_S1.1770.88
241_A245_D1.1700.88
188_S192_N1.1560.87
361_A365_S1.1520.87
225_C229_V1.1450.87
367_R371_P1.1440.86
410_E416_V1.1440.86
187_W213_V1.1400.86
424_V428_I1.1340.86
95_F113_A1.1320.86
41_S68_M1.1310.86
414_T417_M1.1300.86
24_F31_A1.1290.86
153_L156_K1.1270.86
363_I381_L1.1240.85
343_R346_A1.1230.85
420_W428_I1.1230.85
224_L232_Y1.1160.85
420_W423_H1.1160.85
163_L168_Q1.1160.85
297_S312_I1.1160.85
374_T377_V1.1150.85
45_Q61_L1.1140.85
61_L113_A1.1120.85
263_A266_A1.1090.85
398_Y406_Q1.1060.85
323_E326_P1.1060.85
261_L265_L1.1030.84
172_A176_L1.1030.84
413_K416_V1.1000.84
281_L284_T1.1000.84
416_V419_C1.1000.84
390_V394_A1.0980.84
204_V234_E1.0950.84
426_Q430_A1.0890.84
418_S431_A1.0880.84
156_K175_A1.0810.83
198_F210_A1.0800.83
392_E400_T1.0800.83
175_A178_E1.0730.83
153_L179_I1.0720.83
192_N226_N1.0690.82
58_L80_Y1.0680.82
307_D311_T1.0670.82
370_A386_A1.0650.82
363_I367_R1.0550.82
223_A232_Y1.0530.82
340_V343_R1.0510.81
275_Y279_K1.0510.81
78_L95_F1.0480.81
307_D310_E1.0370.80
262_G265_L1.0370.80
25_F44_I1.0370.80
397_A401_V1.0340.80
212_E278_L1.0340.80
422_F426_Q1.0330.80
171_E174_A1.0280.80
419_C429_R1.0250.80
179_I184_P1.0220.80
193_L197_Y1.0170.79
247_L251_Y1.0160.79
419_C426_Q1.0130.79
235_R246_Q1.0100.79
400_T406_Q1.0090.79
339_S342_Q1.0060.78
293_F312_I1.0060.78
407_A411_E1.0040.78
159_R164_L1.0040.78
28_G40_A0.9980.78
401_V404_L0.9970.78
170_A200_S0.9950.78
381_L418_S0.9940.78
163_L171_E0.9910.77
347_Y353_K0.9900.77
194_A319_Q0.9890.77
247_L253_M0.9840.77
338_S342_Q0.9840.77
354_G374_T0.9810.77
345_A350_S0.9800.77
293_F303_T0.9800.77
423_H426_Q0.9740.76
156_K179_I0.9700.76
316_V321_P0.9690.76
347_Y352_T0.9670.76
191_N213_V0.9660.76
82_M93_H0.9640.75
423_H429_R0.9620.75
382_N386_A0.9580.75
346_A350_S0.9570.75
57_M61_L0.9540.75
315_K318_S0.9520.74
275_Y300_A0.9500.74
410_E425_I0.9490.74
393_D396_F0.9460.74
28_G32_Y0.9440.74
80_Y84_N0.9430.74
343_R349_I0.9420.74
405_E415_E0.9360.73
223_A226_N0.9350.73
385_S389_D0.9340.73
424_V431_A0.9330.73
122_D305_H0.9310.73
58_L77_L0.9310.73
424_V429_R0.9310.73
346_A349_I0.9300.73
229_V232_Y0.9240.72
358_H362_V0.9240.72
416_V423_H0.9170.72
396_F407_A0.9140.71
259_Y262_G0.9100.71
348_Y372_F0.9100.71
62_A69_G0.9090.71
32_Y45_Q0.9080.71
391_S395_L0.9050.71
207_K230_F0.9030.70
156_K163_L0.9030.70
259_Y263_A0.9000.70
395_L399_Q0.8970.70
425_I430_A0.8960.70
280_S283_K0.8960.70
337_P341_E0.8950.70
337_P340_V0.8920.70
369_T377_V0.8900.69
412_M417_M0.8880.69
300_A312_I0.8870.69
348_Y352_T0.8870.69
321_P328_P0.8830.69
261_L264_T0.8820.69
228_L243_L0.8750.68
427_Q431_A0.8750.68
408_E415_E0.8720.68
51_E87_A0.8700.68
326_P329_W0.8700.68
326_P330_I0.8700.68
372_F376_F0.8690.68
384_D407_A0.8670.67
366_K376_F0.8650.67
157_Q176_L0.8630.67
62_A74_S0.8620.67
110_Y114_A0.8580.67
370_A373_E0.8580.67
195_L226_N0.8570.66
411_E418_S0.8560.66
347_Y364_R0.8550.66
408_E417_M0.8540.66
263_A278_L0.8490.66
346_A353_K0.8490.66
299_S303_T0.8490.66
404_L407_A0.8470.66
413_K429_R0.8430.65
402_K409_K0.8410.65
290_D297_S0.8410.65
400_T408_E0.8380.65
354_G362_V0.8370.65
31_A43_L0.8370.65
29_L60_Q0.8300.64
345_A371_P0.8270.64
264_T268_V0.8260.64
57_M60_Q0.8240.63
239_K242_E0.8210.63
308_F312_I0.8170.63
328_P332_R0.8120.62
295_W298_C0.8110.62
24_F43_L0.8100.62
407_A415_E0.8100.62
26_H34_E0.8090.62
59_S92_C0.8060.62
418_S428_I0.8050.62
419_C423_H0.8040.61
356_T374_T0.8030.61
383_G387_A0.8030.61
25_F32_Y0.8020.61
179_I183_Y0.8020.61
81_I113_A0.8000.61
344_L351_S0.8000.61
342_Q346_A0.7990.61
258_R283_K0.7990.61
93_H96_K0.7980.61
404_L430_A0.7950.61
359_L362_V0.7950.61
197_Y209_T0.7940.60
371_P375_H0.7920.60
400_T416_V0.7880.60
163_L166_S0.7880.60
343_R351_S0.7860.60
382_N394_A0.7840.59
343_R353_K0.7830.59
382_N390_V0.7790.59
410_E429_R0.7780.59
412_M415_E0.7770.59
368_I373_E0.7740.59
276_K280_S0.7730.58
381_L391_S0.7710.58
25_F33_K0.7710.58
415_E418_S0.7690.58
159_R175_A0.7680.58
47_A57_M0.7660.58
403_L406_Q0.7650.58
362_V373_E0.7650.58
198_F206_A0.7640.58
343_R350_S0.7620.57
372_F400_T0.7620.57
27_K33_K0.7610.57
30_K34_E0.7570.57
363_I366_K0.7570.57
393_D405_E0.7550.57
276_K333_R0.7550.57
223_A248_S0.7510.56
224_L227_L0.7510.56
426_Q431_A0.7490.56
241_A244_S0.7470.56
241_A251_Y0.7470.56
300_A303_T0.7460.56
55_S81_I0.7460.56
366_K411_E0.7440.56
93_H113_A0.7440.56
357_E364_R0.7420.55
424_V430_A0.7410.55
321_P331_E0.7370.55
282_Y319_Q0.7350.55
377_V382_N0.7320.54
172_A196_A0.7310.54
388_A406_Q0.7310.54
262_G297_S0.7300.54
257_Q261_L0.7280.54
338_S346_A0.7260.54
292_F301_Y0.7250.54
399_Q407_A0.7230.53
393_D400_T0.7220.53
81_I91_E0.7210.53
377_V380_L0.7180.53
267_L278_L0.7180.53
66_S69_G0.7160.53
363_I370_A0.7150.53
213_V281_L0.7150.53
192_N195_L0.7150.53
228_L231_Y0.7140.52
183_Y189_A0.7090.52
348_Y363_I0.7090.52
380_L383_G0.7080.52
403_L411_E0.7070.52
310_E330_I0.7050.52
403_L415_E0.7030.51
381_L395_L0.7020.51
362_V365_S0.7000.51
348_Y353_K0.6990.51
354_G380_L0.6980.51
395_L406_Q0.6980.51
410_E413_K0.6970.51
337_P346_A0.6960.51
111_K302_F0.6940.50
93_H101_A0.6910.50
413_K424_V0.6890.50
280_S304_G0.6890.50
93_H116_Y0.6880.50
334_E337_P0.6860.50
222_H226_N0.6840.49
344_L373_E0.6800.49
338_S343_R0.6790.49
393_D397_A0.6780.49
421_V430_A0.6780.49
222_H227_L0.6750.48
111_K115_A0.6740.48
235_R274_G0.6710.48
362_V366_K0.6690.48
359_L398_Y0.6680.48
157_Q192_N0.6680.48
157_Q161_K0.6650.47
41_S109_A0.6640.47
344_L350_S0.6630.47
34_E74_S0.6630.47
401_V406_Q0.6620.47
59_S91_E0.6600.47
364_R368_I0.6600.47
259_Y289_D0.6580.47
397_A407_A0.6580.47
254_L261_L0.6570.47
247_L257_Q0.6560.47
340_V347_Y0.6550.46
338_S344_L0.6520.46
212_E215_S0.6510.46
32_Y44_I0.6510.46
391_S394_A0.6510.46
35_R74_S0.6510.46
390_V398_Y0.6500.46
148_Y152_E0.6500.46
419_C430_A0.6500.46
48_V57_M0.6500.46
355_E369_T0.6500.46
382_N417_M0.6460.46
191_N195_L0.6460.46
342_Q348_Y0.6380.45
343_R402_K0.6370.45
328_P331_E0.6370.45
240_V250_V0.6360.45
362_V427_Q0.6350.44
391_S402_K0.6340.44
350_S354_G0.6340.44
290_D294_Y0.6340.44
160_A164_L0.6330.44
394_A403_L0.6280.44
40_A44_I0.6270.44
60_Q63_V0.6240.43
28_G409_K0.6220.43
417_M431_A0.6220.43
279_K283_K0.6220.43
86_E89_M0.6190.43
415_E419_C0.6180.43
379_L393_D0.6180.43
398_Y403_L0.6170.43
423_H428_I0.6130.42
382_N387_A0.6130.42
422_F431_A0.6130.42
344_L349_I0.6120.42
85_L109_A0.6120.42
175_A179_I0.6100.42
31_A36_N0.6070.42
59_S89_M0.6060.42
340_V352_T0.6060.42
425_I431_A0.6060.42
48_V61_L0.6050.41
372_F375_H0.6030.41
420_W431_A0.6030.41
251_Y254_L0.6000.41
109_A117_S0.6000.41
157_Q179_I0.5990.41
58_L93_H0.5980.41
387_A395_L0.5980.41
371_P398_Y0.5970.41
86_E115_A0.5970.41
295_W301_Y0.5960.41
237_D247_L0.5950.40
60_Q78_L0.5930.40
410_E418_S0.5930.40
229_V260_K0.5920.40
194_A206_A0.5920.40
228_L232_Y0.5920.40
384_D400_T0.5910.40
148_Y151_D0.5900.40
299_S309_A0.5880.40
382_N385_S0.5880.40
226_N229_V0.5870.40
28_G39_R0.5860.40
391_S431_A0.5850.39
398_Y417_M0.5850.39
412_M428_I0.5850.39
289_D298_C0.5850.39
358_H373_E0.5840.39
384_D391_S0.5830.39
214_L218_E0.5780.39
228_L241_A0.5780.39
421_V431_A0.5780.39
160_A175_A0.5770.39
178_E184_P0.5770.39
82_M153_L0.5770.39
337_P347_Y0.5760.39
334_E338_S0.5760.39
390_V403_L0.5760.39
179_I189_A0.5750.38
350_S418_S0.5720.38
334_E339_S0.5690.38
268_V289_D0.5690.38
410_E427_Q0.5680.38
417_M422_F0.5670.38
28_G78_L0.5670.38
422_F429_R0.5670.38
347_Y351_S0.5660.38
396_F404_L0.5660.38
354_G373_E0.5650.38
359_L363_I0.5620.37
405_E409_K0.5610.37
227_L230_F0.5610.37
272_E276_K0.5600.37
406_Q417_M0.5600.37
340_V350_S0.5600.37
27_K32_Y0.5590.37
363_I377_V0.5580.37
226_N249_N0.5570.37
97_A109_A0.5570.37
263_A275_Y0.5560.37
416_V420_W0.5560.37
257_Q263_A0.5540.36
90_P120_D0.5530.36
65_Y70_Q0.5500.36
213_V223_A0.5490.36
62_A96_K0.5480.36
98_N113_A0.5480.36
422_F425_I0.5470.36
91_E94_Y0.5470.36
349_I354_G0.5450.36
397_A404_L0.5450.36
75_N99_N0.5440.36
373_E418_S0.5420.35
262_G277_W0.5420.35
156_K162_S0.5410.35
392_E396_F0.5390.35
222_H225_C0.5380.35
399_Q408_E0.5380.35
172_A190_Y0.5380.35
420_W429_R0.5370.35
362_V391_S0.5350.35
400_T413_K0.5330.35
160_A172_A0.5330.35
379_L392_E0.5320.34
362_V381_L0.5320.34
72_Q103_L0.5310.34
291_T294_Y0.5310.34
423_H427_Q0.5310.34
101_A113_A0.5310.34
295_W299_S0.5310.34
420_W426_Q0.5300.34
341_E345_A0.5300.34
364_R382_N0.5300.34
42_K46_R0.5290.34
29_L32_Y0.5280.34
391_S405_E0.5260.34
190_Y198_F0.5250.34
368_I386_A0.5240.34
362_V371_P0.5240.34
362_V368_I0.5240.34
342_Q347_Y0.5230.34
417_M420_W0.5200.33
404_L415_E0.5200.33
373_E381_L0.5190.33
371_P413_K0.5170.33
400_T403_L0.5170.33
33_K44_I0.5170.33
394_A407_A0.5120.33
28_G41_S0.5100.32
157_Q189_A0.5080.32
418_S424_V0.5080.32
345_A349_I0.5070.32
360_E398_Y0.5050.32
99_N102_H0.5050.32
393_D428_I0.5020.32
247_L250_V0.5020.32
343_R352_T0.5010.32
25_F47_A0.5000.32
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  
1w3bA 2 0.6901 100 0.44 Contact Map
2y4tA 1 0.7934 100 0.456 Contact Map
2xpiA 2 0.6281 100 0.475 Contact Map
4n5cA 1 0.6322 100 0.475 Contact Map
4l9pA 1 0.6012 100 0.475 Contact Map
3dssA 1 0.5537 100 0.48 Contact Map
4ui9C 2 0.6281 100 0.484 Contact Map
4ui9J 2 0.6446 100 0.485 Contact Map
2h6fA 1 0.562 100 0.485 Contact Map
3iegA 1 0.6674 100 0.489 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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