GREMLIN Database
PCNB - Poly(A) polymerase I
UniProt: P0ABF1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10690
Length: 465 (388)
Sequences: 2513 (1515)
Seq/√Len: 76.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
185_K189_D4.5421.00
199_E233_R4.3531.00
186_D193_R4.1241.00
260_Y303_D3.8821.00
182_G185_K3.7191.00
209_M271_L3.6821.00
163_F212_A3.6081.00
363_P366_L3.4461.00
165_I192_I3.3651.00
301_N320_A3.2221.00
264_K296_E3.1941.00
91_Q94_K3.1421.00
278_T359_S3.1221.00
108_L121_A3.0891.00
74_L187_L3.0021.00
153_S156_E2.8951.00
96_F111_V2.7991.00
60_Y86_N2.7641.00
217_A256_A2.7521.00
61_E86_N2.6521.00
228_A269_Y2.5921.00
72_L170_Y2.5641.00
224_S227_T2.5531.00
273_Q280_T2.4911.00
318_F322_F2.4601.00
220_G261_E2.3531.00
199_E234_L2.3351.00
251_L314_P2.3311.00
239_N274_P2.3181.00
251_L362_I2.3031.00
229_E233_R2.2431.00
255_Q314_P2.2391.00
165_I187_L2.2311.00
158_A169_Y2.2311.00
238_L274_P2.2261.00
320_A406_L2.2111.00
353_L374_W2.1901.00
202_Y227_T2.1531.00
228_A268_E2.0821.00
168_L184_M2.0561.00
47_N118_I2.0301.00
102_V110_H2.0231.00
209_M238_L1.9991.00
171_S176_T1.9921.00
99_C109_A1.9741.00
184_M188_K1.9541.00
267_C283_F1.9491.00
88_T91_Q1.9161.00
250_S275_L1.8761.00
83_V118_I1.8721.00
197_N200_T1.8621.00
439_N443_E1.8611.00
263_Y299_L1.8521.00
53_Y57_K1.8431.00
61_E123_F1.8391.00
435_K439_N1.8001.00
171_S174_D1.7411.00
209_M231_I1.7311.00
424_G428_V1.7251.00
264_K268_E1.7121.00
223_I227_T1.7071.00
193_R224_S1.6861.00
62_A83_V1.6811.00
61_E171_S1.6811.00
357_C367_T1.6731.00
267_C280_T1.6721.00
251_L318_F1.6701.00
190_G220_G1.6601.00
254_L302_T1.6441.00
401_Y424_G1.6311.00
318_F357_C1.5971.00
54_R95_L1.5480.99
258_Y303_D1.5450.99
305_R311_R1.5370.99
232_P268_E1.5070.99
253_L262_T1.5050.99
325_P328_E1.4890.99
260_Y264_K1.4860.99
193_R226_E1.4770.99
367_T371_R1.4670.99
305_R316_F1.4530.99
63_W123_F1.4500.99
196_G201_R1.4500.99
237_L240_D1.4400.99
185_K188_K1.4380.99
73_L187_L1.4270.99
54_R98_N1.4260.99
216_A223_I1.4220.99
322_F357_C1.4210.99
332_K340_T1.3950.99
88_T152_G1.3910.99
247_F362_I1.3800.99
282_Y298_V1.3690.98
430_A433_D1.3640.98
168_L177_V1.3610.98
145_L242_P1.3540.98
322_F353_L1.3400.98
288_D340_T1.3360.98
417_Q423_W1.3340.98
212_A231_I1.3250.98
192_I212_A1.3220.98
414_A417_Q1.3190.98
49_L53_Y1.3140.98
191_V224_S1.3110.98
314_P318_F1.3090.98
109_A121_A1.2910.98
434_Q437_M1.2870.98
142_N146_L1.2800.98
419_L422_W1.2790.98
376_L394_H1.2770.98
45_S48_A1.2750.98
47_N116_E1.2710.98
218_K252_K1.2470.97
231_I271_L1.2410.97
46_E50_K1.2380.97
440_E443_E1.2370.97
258_Y261_E1.2210.97
213_V271_L1.2190.97
284_T293_R1.2150.97
192_I221_M1.2060.97
228_A232_P1.2050.97
248_E252_K1.2010.97
250_S276_F1.1890.96
319_A406_L1.1860.96
432_P435_K1.1780.96
60_Y91_Q1.1770.96
348_A351_D1.1700.96
203_R237_L1.1690.96
429_S437_M1.1690.96
263_Y302_T1.1640.96
93_R101_L1.1560.96
199_E203_R1.1540.96
326_L349_M1.1530.96
328_E345_F1.1530.96
170_Y177_V1.1470.95
56_N174_D1.1460.95
223_I265_L1.1400.95
331_Q348_A1.1360.95
209_M234_L1.1350.95
250_S318_F1.1330.95
92_V109_A1.1270.95
159_Q181_V1.1260.95
411_E434_Q1.1250.95
324_Y327_L1.1230.95
421_K425_E1.1110.95
203_R234_L1.1100.95
213_V265_L1.1090.95
324_Y328_E1.1080.95
236_T239_N1.1070.95
311_R405_A1.1070.95
191_V222_R1.1070.95
51_V118_I1.1040.94
60_Y85_T1.1030.94
52_M172_V1.0960.94
263_Y276_F1.0960.94
438_L441_L1.0830.94
378_L381_S1.0830.94
328_E377_Q1.0810.94
44_I64_L1.0790.94
187_L190_G1.0770.94
345_F377_Q1.0720.94
155_E180_Y1.0670.93
89_P122_T1.0640.93
325_P345_F1.0610.93
281_R330_A1.0590.93
298_V301_N1.0580.93
207_V242_P1.0510.93
358_R367_T1.0450.93
324_Y345_F1.0430.93
78_P81_F1.0410.93
334_A340_T1.0390.92
437_M441_L1.0380.92
50_K53_Y1.0370.92
106_F145_L1.0360.92
389_W426_F1.0350.92
44_I48_A1.0300.92
406_L409_E1.0230.92
52_M56_N1.0200.92
56_N171_S1.0140.92
357_C370_T1.0120.91
301_N406_L1.0100.91
354_D371_R1.0050.91
49_L52_M1.0000.91
354_D368_T0.9960.91
73_L184_M0.9950.91
168_L180_Y0.9940.91
425_E429_S0.9940.91
368_T371_R0.9930.91
52_M55_L0.9930.91
414_A418_R0.9930.91
106_F110_H0.9910.91
220_G258_Y0.9870.90
154_I169_Y0.9860.90
143_G237_L0.9820.90
128_E146_L0.9770.90
379_R394_H0.9740.90
429_S433_D0.9740.90
282_Y326_L0.9730.90
417_Q421_K0.9730.90
61_E154_I0.9720.90
202_Y230_P0.9650.89
50_K113_F0.9620.89
369_L402_D0.9590.89
296_E300_K0.9580.89
364_K367_T0.9570.89
60_Y87_A0.9540.89
248_E251_L0.9520.89
428_V431_P0.9520.89
325_P377_Q0.9470.88
324_Y377_Q0.9470.88
336_E339_L0.9460.88
92_V111_V0.9440.88
223_I228_A0.9390.88
354_D358_R0.9390.88
423_W427_Q0.9380.88
58_A95_L0.9320.88
54_R58_A0.9290.87
168_L187_L0.9230.87
129_G142_N0.9170.87
385_G388_A0.9150.87
281_R329_T0.9110.86
304_T308_N0.9030.86
213_V231_I0.9000.86
408_A420_V0.8950.85
297_Q324_Y0.8950.85
326_L352_V0.8940.85
325_P329_T0.8910.85
225_P228_A0.8880.85
352_V356_A0.8850.85
297_Q345_F0.8830.85
234_L237_L0.8800.85
345_F349_M0.8780.84
276_F279_I0.8770.84
55_L62_A0.8770.84
62_A86_N0.8740.84
372_D396_K0.8730.84
112_M117_I0.8700.84
438_L442_D0.8660.84
57_K185_K0.8650.83
102_V106_F0.8640.83
322_F326_L0.8630.83
346_A378_L0.8610.83
250_S263_Y0.8600.83
158_A181_V0.8590.83
170_Y175_F0.8570.83
376_L379_R0.8520.83
306_I309_D0.8520.83
270_H273_Q0.8520.83
329_T332_K0.8480.82
260_Y296_E0.8480.82
238_L275_L0.8470.82
209_M266_L0.8450.82
213_V266_L0.8440.82
327_L345_F0.8430.82
172_V175_F0.8420.82
87_A122_T0.8410.82
314_P366_L0.8400.82
265_L269_Y0.8400.82
125_G156_E0.8390.82
230_P234_L0.8380.81
79_K248_E0.8380.81
63_W171_S0.8380.81
297_Q328_E0.8360.81
225_P229_E0.8320.81
100_R112_M0.8300.81
271_L275_L0.8290.81
435_K442_D0.8260.81
335_Q341_Y0.8260.81
426_F430_A0.8240.80
92_V96_F0.8230.80
305_R320_A0.8230.80
93_R96_F0.8230.80
195_I204_E0.8200.80
408_A412_R0.8140.80
149_N152_G0.8110.79
86_N91_Q0.8110.79
428_V432_P0.8100.79
56_N172_V0.8100.79
182_G189_D0.8070.79
74_L165_I0.8010.78
401_Y405_A0.8010.78
437_M440_E0.8000.78
171_S175_F0.7990.78
93_R99_C0.7990.78
157_D160_R0.7910.78
74_L79_K0.7910.78
222_R225_P0.7900.78
44_I69_V0.7830.77
264_K299_L0.7820.77
52_M64_L0.7810.77
68_G81_F0.7790.77
327_L349_M0.7790.77
198_P226_E0.7770.76
327_L330_A0.7770.76
87_A103_G0.7760.76
406_L410_V0.7750.76
68_G78_P0.7730.76
47_N50_K0.7730.76
403_L407_R0.7710.76
300_K304_T0.7710.76
64_L81_F0.7700.76
124_R160_R0.7690.76
152_G156_E0.7680.76
425_E428_V0.7660.75
217_A262_T0.7640.75
369_L405_A0.7610.75
216_A220_G0.7600.75
143_G206_P0.7600.75
313_N405_A0.7590.75
85_T123_F0.7590.75
429_S432_P0.7570.74
104_R109_A0.7570.74
387_R390_K0.7550.74
142_N145_L0.7530.74
99_C113_F0.7500.74
157_D214_R0.7500.74
370_T374_W0.7480.74
349_M374_W0.7470.73
315_A369_L0.7460.73
223_I231_I0.7450.73
100_R115_P0.7430.73
264_K267_C0.7430.73
432_P439_N0.7420.73
420_V426_F0.7420.73
350_N371_R0.7420.73
349_M352_V0.7410.73
431_P435_K0.7410.73
395_P400_A0.7400.73
419_L426_F0.7390.73
48_A177_V0.7370.72
147_R151_F0.7360.72
399_A406_L0.7350.72
433_D436_G0.7330.72
78_P120_V0.7220.71
330_A352_V0.7210.71
436_G440_E0.7200.71
66_G70_R0.7200.71
63_W68_G0.7180.71
67_G71_D0.7180.71
122_T201_R0.7180.71
337_S358_R0.7180.71
109_A122_T0.7160.70
53_Y174_D0.7160.70
222_R261_E0.7160.70
298_V320_A0.7140.70
121_A125_G0.7130.70
243_P359_S0.7130.70
196_G200_T0.7120.70
416_L419_L0.7110.70
165_I168_L0.7100.70
396_K399_A0.7100.70
238_L270_H0.7100.70
364_K368_T0.7100.70
251_L255_Q0.7100.70
143_G240_D0.7090.70
255_Q313_N0.7080.69
275_L318_F0.7050.69
418_R425_E0.7050.69
298_V326_L0.7030.69
96_F100_R0.7030.69
328_E349_M0.7020.69
84_T92_V0.7010.69
335_Q338_G0.7010.69
129_G141_Q0.7000.69
420_V428_V0.6960.68
219_L256_A0.6960.68
128_E144_M0.6950.68
347_L351_D0.6920.68
372_D399_A0.6880.67
213_V223_I0.6880.67
425_E433_D0.6880.67
365_R369_L0.6870.67
405_A408_A0.6870.67
87_A91_Q0.6870.67
400_A404_L0.6840.67
438_L444_E0.6840.67
194_L202_Y0.6820.67
209_M274_P0.6820.67
47_N114_G0.6820.67
199_E229_E0.6800.66
353_L360_L0.6770.66
369_L373_I0.6770.66
263_Y272_F0.6740.66
154_I180_Y0.6730.66
85_T96_F0.6700.65
91_Q152_G0.6680.65
353_L371_R0.6670.65
276_F360_L0.6660.65
64_L68_G0.6640.65
53_Y175_F0.6630.64
439_N442_D0.6620.64
228_A265_L0.6610.64
231_I234_L0.6560.64
238_L241_I0.6540.63
272_F276_F0.6540.63
63_W154_I0.6540.63
125_G151_F0.6530.63
120_V256_A0.6520.63
291_M324_Y0.6520.63
168_L181_V0.6510.63
151_F158_A0.6490.63
327_L331_Q0.6490.63
108_L128_E0.6490.63
247_F366_L0.6480.63
155_E159_Q0.6470.63
408_A418_R0.6470.63
143_G203_R0.6470.63
98_N112_M0.6460.62
280_T295_I0.6440.62
172_V176_T0.6440.62
165_I243_P0.6440.62
65_V106_F0.6410.62
54_R96_F0.6400.62
362_I370_T0.6390.62
90_E94_K0.6390.62
417_Q422_W0.6390.62
417_Q420_V0.6380.61
45_S51_V0.6380.61
433_D444_E0.6370.61
283_F295_I0.6350.61
422_W434_Q0.6340.61
319_A374_W0.6330.61
433_D437_M0.6300.60
297_Q377_Q0.6300.60
229_E354_D0.6300.60
430_A434_Q0.6300.60
66_G69_V0.6280.60
213_V269_Y0.6280.60
84_T121_A0.6270.60
287_G377_Q0.6260.60
379_R399_A0.6250.60
95_L98_N0.6250.60
46_E49_L0.6250.60
283_F299_L0.6240.60
420_V424_G0.6220.59
351_D354_D0.6210.59
114_G118_I0.6160.59
170_Y176_T0.6120.58
69_V183_G0.6120.58
349_M353_L0.6100.58
144_M241_I0.6090.58
59_G103_G0.6080.58
285_E332_K0.6080.58
329_T342_H0.6070.58
276_F321_M0.6060.58
76_K218_K0.6020.57
56_N173_A0.6000.57
417_Q426_F0.6000.57
435_K438_L0.5990.57
246_L275_L0.5970.56
399_A402_D0.5950.56
124_R157_D0.5940.56
431_P434_Q0.5940.56
314_P362_I0.5940.56
201_R204_E0.5930.56
75_G188_K0.5930.56
382_R385_G0.5910.56
86_N123_F0.5890.55
263_Y279_I0.5890.55
171_S178_R0.5870.55
278_T282_Y0.5870.55
396_K437_M0.5860.55
65_V83_V0.5860.55
366_L370_T0.5850.55
262_T266_L0.5850.55
278_T345_F0.5850.55
330_A348_A0.5830.55
51_V62_A0.5820.54
324_Y349_M0.5780.54
67_G208_R0.5780.54
82_D161_R0.5770.54
415_E418_R0.5770.54
198_P230_P0.5770.54
190_G219_L0.5770.54
333_I341_Y0.5760.54
278_T321_M0.5750.54
76_K219_L0.5750.54
408_A430_A0.5740.53
113_F118_I0.5740.53
436_G444_E0.5730.53
107_R128_E0.5730.53
303_D307_H0.5730.53
222_R233_R0.5710.53
199_E230_P0.5710.53
295_I299_L0.5700.53
89_P201_R0.5690.53
297_Q409_E0.5670.53
158_A180_Y0.5670.53
293_R328_E0.5660.52
194_L201_R0.5640.52
252_K256_A0.5640.52
106_F121_A0.5640.52
188_K337_S0.5630.52
164_T193_R0.5620.52
294_I329_T0.5610.52
229_E232_P0.5600.52
312_V317_L0.5600.52
64_L172_V0.5590.52
169_Y181_V0.5590.52
129_G145_L0.5590.52
238_L266_L0.5590.52
62_A96_F0.5580.51
344_A347_L0.5550.51
300_K303_D0.5540.51
259_G317_L0.5540.51
67_G70_R0.5520.51
431_P444_E0.5510.51
393_E397_F0.5510.51
80_D161_R0.5490.50
87_A123_F0.5490.50
250_S360_L0.5480.50
217_A241_I0.5460.50
173_A176_T0.5460.50
52_M62_A0.5460.50
314_P322_F0.5460.50
243_P247_F0.5450.50
395_P399_A0.5440.50
212_A223_I0.5440.50
190_G441_L0.5430.50
297_Q325_P0.5420.49
161_R211_R0.5400.49
79_K252_K0.5380.49
411_E416_L0.5380.49
425_E432_P0.5370.49
154_I158_A0.5350.49
145_L206_P0.5350.49
415_E422_W0.5340.48
314_P357_C0.5340.48
409_E415_E0.5330.48
439_N444_E0.5290.48
436_G439_N0.5290.48
85_T92_V0.5280.48
374_W377_Q0.5280.48
431_P436_G0.5280.48
166_N208_R0.5280.48
325_P349_M0.5280.48
235_A274_P0.5270.48
343_D348_A0.5260.47
48_A62_A0.5220.47
418_R422_W0.5220.47
200_T203_R0.5210.47
58_A61_E0.5210.47
53_Y56_N0.5210.47
346_A375_Q0.5200.47
396_K410_V0.5180.46
53_Y172_V0.5180.46
123_F154_I0.5170.46
209_M235_A0.5160.46
57_K97_R0.5160.46
373_I406_L0.5140.46
416_L422_W0.5140.46
297_Q301_N0.5140.46
89_P95_L0.5140.46
291_M328_E0.5130.46
197_N203_R0.5130.46
414_A419_L0.5120.46
79_K403_L0.5120.46
410_V414_A0.5110.45
264_K336_E0.5110.45
353_L357_C0.5110.45
56_N86_N0.5100.45
266_L271_L0.5100.45
89_P160_R0.5100.45
379_R391_L0.5100.45
255_Q311_R0.5090.45
326_L329_T0.5080.45
209_M269_Y0.5080.45
422_W426_F0.5080.45
297_Q327_L0.5080.45
429_S435_K0.5080.45
58_A210_L0.5070.45
85_T201_R0.5070.45
432_P436_G0.5060.45
84_T214_R0.5030.44
351_D355_E0.5030.44
306_I311_R0.5030.44
99_C120_V0.5020.44
93_R104_R0.5020.44
343_D346_A0.5020.44
430_A440_E0.5010.44
50_K99_C0.5000.44
68_G73_L0.5000.44
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  
3aqlA 2 0.8323 100 0.314 Contact Map
3wfrE 1 0.7892 100 0.4 Contact Map
3wfsC 1 0.7763 100 0.4 Contact Map
3wfoA 1 0.8151 100 0.42 Contact Map
1miwA 2 0.7613 100 0.422 Contact Map
3wfpA 2 0.7806 100 0.422 Contact Map
4x4wA 2 0.7591 100 0.427 Contact Map
3h38A 1 0.8172 100 0.428 Contact Map
4wbyA 1 0.7355 100 0.431 Contact Map
4n6wA 1 0.3333 97.3 0.94 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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